Class: Food-farmEnvironmentMIGSOrg

Combinatorial checklist Minimal Information about a Genome Sequence: org with environmental package food-farm environment

URI: MIXS:Food-farmEnvironmentMIGSOrg

Inheritance

• Food-farmEnvironment
  • Food-farmEnvironmentMIGSOrg [ MIGSOrg]

Slots

Name	Cardinality and Range	Description	Inheritance
samp_name	1..1 String	A local identifier or name that for the material sample used for extracting n...	MIGSOrg
samp_taxon_id	1..1 String	NCBI taxon id of the sample	MIGSOrg
project_name	1..1 String	Name of the project within which the sequencing was organized	MIGSOrg
experimental_factor	0..1 String	Experimental factors are essentially the variable aspects of an experiment de...	MIGSOrg
lat_lon	1..1 String	The geographical origin of the sample as defined by latitude and longitude	MIGSOrg, Food-farmEnvironment
geo_loc_name	1..1 String	The geographical origin of the sample as defined by the country or sea name f...	MIGSOrg, Food-farmEnvironment
collection_date	1..1 Date	The time of sampling, either as an instance (single point in time) or interva...	MIGSOrg, Food-farmEnvironment
neg_cont_type	0..1 recommended NegContTypeEnum	The substance or equipment used as a negative control in an investigation	MIGSOrg
pos_cont_type	0..1 recommended String	The substance, mixture, product, or apparatus used to verify that a process w...	MIGSOrg
env_broad_scale	1..1 String	Report the major environmental system the sample or specimen came from	MIGSOrg, Food-farmEnvironment
env_local_scale	1..1 String	Report the entity or entities which are in the sample or specimen’s local vic...	MIGSOrg, Food-farmEnvironment
env_medium	1..1 String	Report the environmental material(s) immediately surrounding the sample or sp...	MIGSOrg, Food-farmEnvironment
subspecf_gen_lin	0..1 recommended String	Information about the genetic distinctness of the sequenced organism below th...	MIGSOrg
extrachrom_elements	0..1 recommended Integer	Do plasmids exist of significant phenotypic consequence (e	MIGSOrg
estimated_size	0..1 String	The estimated size of the genome prior to sequencing	MIGSOrg
ref_biomaterial	0..1 String	Primary publication if isolated before genome publication; otherwise, primary...	MIGSOrg
source_mat_id	0..1 recommended String	A unique identifier assigned to a material sample (as defined by http://rs	MIGSOrg
isol_growth_condt	1..1 String	Publication reference in the form of pubmed ID (pmid), digital object identif...	MIGSOrg
samp_collec_device	0..1 String	The device used to collect an environmental sample	MIGSOrg
samp_collec_method	0..1 String	The method employed for collecting the sample	MIGSOrg
samp_mat_process	0..1 String	A brief description of any processing applied to the sample during or after r...	MIGSOrg
samp_size	0..1 QuantityValue	The total amount or size (volume (ml), mass (g) or area (m2) ) of sample coll...	MIGSOrg
samp_vol_we_dna_ext	0..1 QuantityValue	Volume (ml) or mass (g) of total collected sample processed for DNA extractio...	MIGSOrg
nucl_acid_ext	0..1 recommended String	A link to a literature reference, electronic resource or a standard operating...	MIGSOrg
nucl_acid_amp	0..1 recommended String	A link to a literature reference, electronic resource or a standard operating...	MIGSOrg
lib_size	0..1 Integer	Total number of clones in the library prepared for the project	MIGSOrg
lib_reads_seqd	0..1 Integer	Total number of clones sequenced from the library	MIGSOrg
lib_layout	0..1 LibLayoutEnum	Specify whether to expect single, paired, or other configuration of reads	MIGSOrg
lib_vector	0..1 String	Cloning vector type(s) used in construction of libraries	MIGSOrg
lib_screen	0..1 String	Specific enrichment or screening methods applied before and/or after creating...	MIGSOrg
adapters	0..1 recommended String	Adapters provide priming sequences for both amplification and sequencing of t...	MIGSOrg
seq_meth	1..1 String	Sequencing machine used	MIGSOrg
tax_ident	0..1 recommended TaxIdentEnum	The phylogenetic marker(s) used to assign an organism name to the SAG or MAG	MIGSOrg
assembly_qual	0..1 AssemblyQualEnum	The assembly quality category is based on sets of criteria outlined for each ...	MIGSOrg
assembly_name	0..1 recommended String	Name/version of the assembly provided by the submitter that is used in the ge...	MIGSOrg
assembly_software	1..1 String	Tool(s) used for assembly, including version number and parameters	MIGSOrg
annot	0..1 recommended String	Tool used for annotation, or for cases where annotation was provided by a com...	MIGSOrg
number_contig	0..1 Integer	Total number of contigs in the cleaned/submitted assembly that makes up a giv...	MIGSOrg
feat_pred	0..1 String	Method used to predict UViGs features such as ORFs, integration site, etc	MIGSOrg
ref_db	0..1 String	List of database(s) used for ORF annotation, along with version number and re...	MIGSOrg
sim_search_meth	0..1 String	Tool used to compare ORFs with database, along with version and cutoffs used	MIGSOrg
tax_class	0..1 String	Method used for taxonomic classification, along with reference database used,...	MIGSOrg
compl_score	0..1 String	Completeness score is typically based on either the fraction of markers found...	MIGSOrg
compl_software	0..1 String	Tools used for completion estimate, i	MIGSOrg
associated_resource	0..1 recommended String	A related resource that is referenced, cited, or otherwise associated to the ...	MIGSOrg
sop	0..1 recommended String	Standard operating procedures used in assembly and/or annotation of genomes, ...	MIGSOrg
depth	1..1 QuantityValue	The vertical distance below local surface, e	Food-farmEnvironment
alt	0..1 QuantityValue	Altitude is a term used to identify heights of objects such as airplanes, spa...	Food-farmEnvironment
elev	0..1 QuantityValue	Elevation of the sampling site is its height above a fixed reference point, m...	Food-farmEnvironment
temp	0..1 QuantityValue	Temperature of the sample at the time of sampling	Food-farmEnvironment
samp_collect_device	0..1 String	The device used to collect an environmental sample	Food-farmEnvironment
humidity	0..1 QuantityValue	Amount of water vapour in the air, at the time of sampling	Food-farmEnvironment
organism_count	0..* OrganismCountEnum	Total cell count of any organism (or group of organisms) per gram, volume or ...	Food-farmEnvironment
spikein_count	0..1 SpikeinCountEnum	Total cell count of any organism (or group of organisms) per gram, volume or ...	Food-farmEnvironment
samp_stor_temp	0..1 QuantityValue	Temperature at which sample was stored, e	Food-farmEnvironment
solar_irradiance	0..1 QuantityValue	The amount of solar energy that arrives at a specific area of a surface durin...	Food-farmEnvironment
ventilation_rate	0..1 QuantityValue	Ventilation rate of the system in the sampled premises	Food-farmEnvironment
samp_stor_dur	0..1 String	Duration for which the sample was stored	Food-farmEnvironment
wind_speed	0..1 QuantityValue	Speed of wind measured at the time of sampling	Food-farmEnvironment
salinity	0..1 QuantityValue	The total concentration of all dissolved salts in a liquid or solid sample	Food-farmEnvironment
previous_land_use	0..1 String	Previous land use and dates	Food-farmEnvironment
crop_rotation	0..1 String	Whether or not crop is rotated, and if yes, rotation schedule	Food-farmEnvironment
soil_type_meth	0..1 String	Reference or method used in determining soil series name or other lower-level...	Food-farmEnvironment
tot_org_c_meth	0..1 String	Reference or method used in determining total organic carbon	Food-farmEnvironment
tot_nitro_cont_meth	0..1 String	Reference or method used in determining the total nitrogen	Food-farmEnvironment
salinity_meth	0..1 String	Reference or method used in determining salinity	Food-farmEnvironment
host_age	0..1 QuantityValue	Age of host at the time of sampling; relevant scale depends on species and st...	Food-farmEnvironment
host_dry_mass	0..1 QuantityValue	Measurement of dry mass	Food-farmEnvironment
host_height	0..1 QuantityValue	The height of subject	Food-farmEnvironment
host_length	0..1 QuantityValue	The length of subject	Food-farmEnvironment
host_tot_mass	0..1 QuantityValue	Total mass of the host at collection, the unit depends on host	Food-farmEnvironment
root_med_carbon	0..1 String	Source of organic carbon in the culture rooting medium; e	Food-farmEnvironment
root_med_macronutr	0..1 String	Measurement of the culture rooting medium macronutrients (N,P, K, Ca, Mg, S);...	Food-farmEnvironment
root_med_micronutr	0..1 String	Measurement of the culture rooting medium micronutrients (Fe, Mn, Zn, B, Cu, ...	Food-farmEnvironment
season_temp	0..1 QuantityValue	Mean seasonal temperature	Food-farmEnvironment
season_precpt	0..1 QuantityValue	The average of all seasonal precipitation values known, or an estimated equiv...	Food-farmEnvironment
tot_org_carb	0..1 QuantityValue	Definition for soil: total organic carbon content of the soil, definition oth...	Food-farmEnvironment
tot_nitro_content	0..1 QuantityValue	Total nitrogen content of the sample	Food-farmEnvironment
conduc	0..1 QuantityValue	Electrical conductivity of water	Food-farmEnvironment
turbidity	0..1 QuantityValue	Measure of the amount of cloudiness or haziness in water caused by individual...	Food-farmEnvironment
size_frac_low	0..1 QuantityValue	Refers to the mesh/pore size used to pre-filter/pre-sort the sample	Food-farmEnvironment
size_frac_up	0..1 QuantityValue	Refers to the mesh/pore size used to retain the sample	Food-farmEnvironment
ventilation_type	0..1 String	Ventilation system used in the sampled premises	Food-farmEnvironment
wind_direction	0..1 String	Wind direction is the direction from which a wind originates	Food-farmEnvironment
genetic_mod	0..1 String	Genetic modifications of the genome of an organism, which may occur naturally...	Food-farmEnvironment
host_phenotype	0..1 String	Phenotype of human or other host	Food-farmEnvironment
ph	0..1 Double	Ph measurement of the sample, or liquid portion of sample, or aqueous phase o...	Food-farmEnvironment
ances_data	0..1 String	Information about either pedigree or other ancestral information description ...	Food-farmEnvironment
biotic_regm	1..1 String	Information about treatment(s) involving use of biotic factors, such as bacte...	Food-farmEnvironment
chem_administration	1..* String	List of chemical compounds administered to the host or site where sampling oc...	Food-farmEnvironment
growth_habit	0..1 GrowthHabitEnum	Characteristic shape, appearance or growth form of a plant species	Food-farmEnvironment
host_genotype	0..1 String	Observed genotype	Food-farmEnvironment
host_taxid	0..1 String	NCBI taxon id of the host, e	Food-farmEnvironment
mechanical_damage	0..* String	Information about any mechanical damage exerted on the plant; can include mul...	Food-farmEnvironment
perturbation	0..* String	Type of perturbation, e	Food-farmEnvironment
root_cond	0..1 String	Relevant rooting conditions such as field plot size, sowing density, containe...	Food-farmEnvironment
root_med_ph	0..1 Double	pH measurement of the culture rooting medium; e	Food-farmEnvironment
tillage	0..* TillageEnum	Note method(s) used for tilling	Food-farmEnvironment
ph_meth	0..1 String	Reference or method used in determining ph	Food-farmEnvironment
growth_medium	0..1 String	A liquid or gel containing nutrients, salts, and other factors formulated to ...	Food-farmEnvironment
season	0..1 String	The season when sampling occurred	Food-farmEnvironment
food_product_type	1..* String	A food product type is a class of food products that is differentiated by its...	Food-farmEnvironment
samp_type	1..1 String	The type of material from which the sample was obtained	Food-farmEnvironment
farm_water_source	0..* FarmWaterSourceEnum	Source of water used on the farm for irrigation of crops or watering of lives...	Food-farmEnvironment
plant_water_method	0..1 String	Description of the equipment or method used to distribute water to crops	Food-farmEnvironment
air_PM_concen	0..* String	Concentration of substances that remain suspended in the air, and comprise mi...	Food-farmEnvironment
animal_feed_equip	0..* String	Description of the feeding equipment used for livestock	Food-farmEnvironment
animal_intrusion	0..* String	Identification of animals intruding on the sample or sample site including in...	Food-farmEnvironment
anim_water_method	0..* String	Description of the equipment or method used to distribute water to livestock	Food-farmEnvironment
crop_yield	0..1 String	Amount of crop produced per unit or area of land	Food-farmEnvironment
cult_result	0..1 CultResultEnum	Any result of a bacterial culture experiment reported as a binary assessment ...	Food-farmEnvironment
cult_result_org	0..* String	Taxonomic information about the cultured organism(s)	Food-farmEnvironment
cult_target	0..* String	The target microbial analyte in terms of investigation scope	Food-farmEnvironment
plant_part_maturity	0..1 String	A description of the stage of development of a plant or plant part based on m...	Food-farmEnvironment
adjacent_environment	0..* String	Description of the environmental system or features that are adjacent to the ...	Food-farmEnvironment
water_source_adjac	0..* String	Description of the environmental features that are adjacent to the farm water...	Food-farmEnvironment
farm_equip_shared	0..* String	List of planting, growing or harvesting equipment shared with other farms	Food-farmEnvironment
farm_equip_san	0..* String	Method used to sanitize growing and harvesting equipment	Food-farmEnvironment
farm_equip_san_freq	0..1 String	The number of times farm equipment is cleaned	Food-farmEnvironment
farm_equip	0..* String	List of equipment used for planting, fertilization, harvesting, irrigation, l...	Food-farmEnvironment
fertilizer_admin	0..1 String	Type of fertilizer or amendment added to the soil or water for the purpose of...	Food-farmEnvironment
fertilizer_date	0..1 Date	Date of administration of soil amendment or fertilizer	Food-farmEnvironment
animal_group_size	0..1 Integer	The number of food animals of the same species that are maintained together a...	Food-farmEnvironment
animal_diet	0..* String	If the isolate is from a food animal, the type of diet eaten by the food anim...	Food-farmEnvironment
food_contact_surf	0..* String	The specific container or coating materials in direct contact with the food	Food-farmEnvironment
food_contain_wrap	0..1 String	Type of container or wrapping defined by the main container material, the con...	Food-farmEnvironment
food_harvest_proc	0..* String	A harvesting process is a process which takes in some food material from an i...	Food-farmEnvironment
food_pack_medium	0..* String	The medium in which the food is packed for preservation and handling or the m...	Food-farmEnvironment
food_preserv_proc	0..* String	The methods contributing to the prevention or retardation of microbial, enzym...	Food-farmEnvironment
food_prod_char	0..* String	Descriptors of the food production system such as wild caught, free-range, or...	Food-farmEnvironment
prod_label_claims	0..* String	Labeling claims containing descriptors such as wild caught, free-range, organ...	Food-farmEnvironment
food_trav_mode	0..* String	A descriptor for the method of movement of food commodity along the food dist...	Food-farmEnvironment
food_trav_vehic	0..* String	A descriptor for the mobile machine which is used to transport food commoditi...	Food-farmEnvironment
food_source	0..1 String	Type of plant or animal from which the food product or its major ingredient i...	Food-farmEnvironment
food_treat_proc	0..* String	Used to specifically characterize a food product based on the treatment or pr...	Food-farmEnvironment
extr_weather_event	0..* ExtrWeatherEventEnum	Unusual weather events that may have affected microbial populations	Food-farmEnvironment
date_extr_weath	0..* Date	Date of unusual weather events that may have affected microbial populations	Food-farmEnvironment
host_subspecf_genlin	0..* String	Information about the genetic distinctness of the host organism below the sub...	Food-farmEnvironment
intended_consumer	0..* String	Food consumer type, human or animal, for which the food product is produced a...	Food-farmEnvironment
library_prep_kit	0..1 String	Packaged kits (containing adapters, indexes, enzymes, buffers etc	Food-farmEnvironment
air_flow_impede	0..* String	Presence of objects in the area that would influence or impede air flow throu...	Food-farmEnvironment
lot_number	0..* String	A distinctive alpha-numeric identification code assigned by the manufacturer ...	Food-farmEnvironment
season_humidity	0..1 QuantityValue	Average humidity of the region throughout the growing season	Food-farmEnvironment
part_plant_animal	0..* String	The anatomical part of the organism being involved in food production or cons...	Food-farmEnvironment
plant_growth_med	0..1 PlantGrowthMedEnum	Specification of the media for growing the plants or tissue cultured samples,...	Food-farmEnvironment
plant_reprod_crop	0..* PlantReprodCropEnum	Plant reproductive part used in the field during planting to start the crop	Food-farmEnvironment
samp_purpose	0..1 String	The reason that the sample was collected	Food-farmEnvironment
repository_name	0..* String	The name of the institution where the sample or DNA extract is held or "sampl...	Food-farmEnvironment
samp_pooling	0..* String	Physical combination of several instances of like material, e	Food-farmEnvironment
samp_source_mat_cat	0..1 String	This is the scientific role or category that the subject organism or material...	Food-farmEnvironment
sequencing_kit	0..1 String	Pre-filled, ready-to-use reagent cartridges	Food-farmEnvironment
sequencing_location	0..1 String	The location the sequencing run was performed	Food-farmEnvironment
serovar_or_serotype	0..* String	A characterization of a cell or microorganism based on the antigenic properti...	Food-farmEnvironment
soil_conductivity	0..1 QuantityValue	Conductivity of soil at time of sampling	Food-farmEnvironment
soil_cover	0..1 String	Description of the material covering the sampled soil	Food-farmEnvironment
soil_pH	0..1 Double	The pH of soil at time of sampling	Food-farmEnvironment
rel_location	0..1 String	Location of sampled soil to other parts of the farm e	Food-farmEnvironment
soil_porosity	0..1 String	Porosity of soil or deposited sediment is volume of voids divided by the tota...	Food-farmEnvironment
soil_temp	0..* String	Temperature of soil at the time of sampling	Food-farmEnvironment
soil_texture_class	0..1 SoilTextureClassEnum	One of the 12 soil texture classes use to describe soil texture based on the ...	Food-farmEnvironment
soil_texture_meth	0..1 String	Reference or method used in determining soil texture	Food-farmEnvironment
soil_type	0..1 String	Description of the soil type or classification	Food-farmEnvironment
spikein_org	0..* String	Taxonomic information about the spike-in organism(s)	Food-farmEnvironment
spikein_serovar	0..* String	Taxonomic information about the spike-in organism(s) at the serovar or seroty...	Food-farmEnvironment
spikein_growth_med	0..* String	A liquid or gel containing nutrients, salts, and other factors formulated to ...	Food-farmEnvironment
spikein_strain	0..* String	Taxonomic information about the spike-in organism(s) at the strain level	Food-farmEnvironment
spikein_antibiotic	0..* String	Antimicrobials used in research study to assess effects of exposure on microb...	Food-farmEnvironment
spikein_metal	0..* String	Heavy metals used in research study to assess effects of exposure on microbio...	Food-farmEnvironment
timepoint	0..1 Double	Time point at which a sample or observation is made or taken from a biomateri...	Food-farmEnvironment
water_frequency	0..1 String	Number of water delivery events within a given period of time	Food-farmEnvironment
water_pH	0..1 Double	pH measurement of the sample, or liquid portion of sample, or aqueous phase o...	Food-farmEnvironment
water_source_shared	0..* WaterSourceSharedEnum	Other users sharing access to the same water source	Food-farmEnvironment
enrichment_protocol	0..1 String	The microbiological workflow or protocol followed to test for the presence or...	Food-farmEnvironment
food_quality_date	0..1 String	The date recommended for the use of the product while at peak quality, this d...	Food-farmEnvironment
IFSAC_category	1..* String	The IFSAC food categorization scheme has five distinct levels to which foods ...	Food-farmEnvironment
animal_housing	0..* String	Description of the housing system of the livestock	Food-farmEnvironment
cult_isol_date	0..1 Date	A culture isolation date is a date-time entity marking the end of a process i...	Food-farmEnvironment
food_clean_proc	0..* FoodCleanProcEnum	The process of cleaning food to separate other environmental materials from t...	Food-farmEnvironment
misc_param	0..* String	Any other measurement performed or parameter collected, that is not listed he...	Food-farmEnvironment

Identifier and Mapping Information

Schema Source

• from schema: http://w3id.org/mixs

Mappings

Mapping Type	Mapped Value
self	MIXS:Food-farmEnvironmentMIGSOrg
native	MIXS:Food-farmEnvironmentMIGSOrg

LinkML Source

Direct

name: food-farm environment MIGS org
description: 'Combinatorial checklist Minimal Information about a Genome Sequence:
  org with environmental package food-farm environment'
from_schema: http://w3id.org/mixs
is_a: food-farm environment
mixins:
- MIGS org

Induced

name: food-farm environment MIGS org
description: 'Combinatorial checklist Minimal Information about a Genome Sequence:
  org with environmental package food-farm environment'
from_schema: http://w3id.org/mixs
is_a: food-farm environment
mixins:
- MIGS org
attributes:
  samp_name:
    name: samp_name
    description: A local identifier or name that for the material sample used for
      extracting nucleic acids, and subsequent sequencing. It can refer either to
      the original material collected or to any derived sub-samples. It can have any
      format, but we suggest that you make it concise, unique and consistent within
      your lab, and as informative as possible. INSDC requires every sample name from
      a single Submitter to be unique. Use of a globally unique identifier for the
      field source_mat_id is recommended in addition to sample_name.
    title: sample name
    from_schema: http://w3id.org/mixs
    is_a: investigation field
    string_serialization: '{text}'
    slot_uri: MIXS:0001107
    multivalued: false
    alias: samp_name
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: true
  samp_taxon_id:
    name: samp_taxon_id
    description: NCBI taxon id of the sample.  Maybe be a single taxon or mixed taxa
      sample. Use 'synthetic metagenome’ for mock community/positive controls, or
      'blank sample' for negative controls.
    title: Taxonomy ID of DNA sample
    from_schema: http://w3id.org/mixs
    is_a: investigation field
    string_serialization: '{text} [NCBI:txid]'
    slot_uri: MIXS:0001320
    multivalued: false
    alias: samp_taxon_id
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: true
  project_name:
    name: project_name
    description: Name of the project within which the sequencing was organized
    title: project name
    from_schema: http://w3id.org/mixs
    is_a: investigation field
    string_serialization: '{text}'
    slot_uri: MIXS:0000092
    multivalued: false
    alias: project_name
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: true
  experimental_factor:
    name: experimental_factor
    description: Experimental factors are essentially the variable aspects of an experiment
      design which can be used to describe an experiment, or set of experiments, in
      an increasingly detailed manner. This field accepts ontology terms from Experimental
      Factor Ontology (EFO) and/or Ontology for Biomedical Investigations (OBI). For
      a browser of EFO (v 2.95) terms, please see http://purl.bioontology.org/ontology/EFO;
      for a browser of OBI (v 2018-02-12) terms please see http://purl.bioontology.org/ontology/OBI
    title: experimental factor
    from_schema: http://w3id.org/mixs
    is_a: investigation field
    string_serialization: '{termLabel} {[termID]}|{text}'
    slot_uri: MIXS:0000008
    multivalued: false
    alias: experimental_factor
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: false
  lat_lon:
    name: lat_lon
    description: The geographical origin of the sample as defined by latitude and
      longitude. The values should be reported in decimal degrees and in WGS84 system
    title: geographic location (latitude and longitude)
    from_schema: http://w3id.org/mixs
    is_a: environment field
    string_serialization: '{float} {float}'
    slot_uri: MIXS:0000009
    multivalued: false
    alias: lat_lon
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - wastewater_sludge
    - symbiont-associated
    - soil
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    - built environment
    - air
    - agriculture
    range: string
    required: true
  geo_loc_name:
    name: geo_loc_name
    description: The geographical origin of the sample as defined by the country or
      sea name followed by specific region name. Country or sea names should be chosen
      from the INSDC country list (http://insdc.org/country.html), or the GAZ ontology
      (http://purl.bioontology.org/ontology/GAZ)
    title: geographic location (country and/or sea,region)
    from_schema: http://w3id.org/mixs
    is_a: environment field
    string_serialization: '{term}: {term}, {text}'
    slot_uri: MIXS:0000010
    multivalued: false
    alias: geo_loc_name
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - wastewater_sludge
    - symbiont-associated
    - soil
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    - built environment
    - air
    - agriculture
    range: string
    required: true
  collection_date:
    name: collection_date
    description: 'The time of sampling, either as an instance (single point in time)
      or interval. In case no exact time is available, the date/time can be right
      truncated i.e. all of these are valid times: 2008-01-23T19:23:10+00:00; 2008-01-23T19:23:10;
      2008-01-23; 2008-01; 2008; Except: 2008-01; 2008 all are ISO8601 compliant'
    title: collection date
    from_schema: http://w3id.org/mixs
    is_a: environment field
    slot_uri: MIXS:0000011
    multivalued: false
    alias: collection_date
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - wastewater_sludge
    - symbiont-associated
    - soil
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    - built environment
    - air
    - agriculture
    range: date
    required: true
  neg_cont_type:
    name: neg_cont_type
    description: The substance or equipment used as a negative control in an investigation
    title: negative control type
    from_schema: http://w3id.org/mixs
    is_a: investigation field
    slot_uri: MIXS:0001321
    multivalued: false
    alias: neg_cont_type
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: neg_cont_type_enum
    recommended: true
  pos_cont_type:
    name: pos_cont_type
    description: The substance, mixture, product, or apparatus used to verify that
      a process which is part of an investigation delivers a true positive.
    title: positive control type
    from_schema: http://w3id.org/mixs
    is_a: investigation field
    string_serialization: '{term} or {text}'
    slot_uri: MIXS:0001322
    multivalued: false
    alias: pos_cont_type
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    recommended: true
  env_broad_scale:
    name: env_broad_scale
    description: 'Report the major environmental system the sample or specimen came
      from. The system(s) identified should have a coarse spatial grain, to provide
      the general environmental context of where the sampling was done (e.g. in the
      desert or a rainforest). We recommend using subclasses of EnvO’s biome class:  http://purl.obolibrary.org/obo/ENVO_00000428.
      EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS'
    title: broad-scale environmental context
    from_schema: http://w3id.org/mixs
    is_a: environment field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0000012
    multivalued: false
    alias: env_broad_scale
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - wastewater_sludge
    - symbiont-associated
    - soil
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    - built environment
    - air
    - agriculture
    range: string
    required: true
  env_local_scale:
    name: env_local_scale
    description: 'Report the entity or entities which are in the sample or specimen’s
      local vicinity and which you believe have significant causal influences on your
      sample or specimen. We recommend using EnvO terms which are of smaller spatial
      grain than your entry for env_broad_scale. Terms, such as anatomical sites,
      from other OBO Library ontologies which interoperate with EnvO (e.g. UBERON)
      are accepted in this field. EnvO documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS.'
    title: local environmental context
    from_schema: http://w3id.org/mixs
    is_a: environment field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0000013
    multivalued: false
    alias: env_local_scale
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - wastewater_sludge
    - symbiont-associated
    - soil
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    - built environment
    - air
    - agriculture
    range: string
    required: true
  env_medium:
    name: env_medium
    description: 'Report the environmental material(s) immediately surrounding the
      sample or specimen at the time of sampling. We recommend using subclasses of
      ''environmental material'' (http://purl.obolibrary.org/obo/ENVO_00010483). EnvO
      documentation about how to use the field: https://github.com/EnvironmentOntology/envo/wiki/Using-ENVO-with-MIxS
      . Terms from other OBO ontologies are permissible as long as they reference
      mass/volume nouns (e.g. air, water, blood) and not discrete, countable entities
      (e.g. a tree, a leaf, a table top).'
    title: environmental medium
    from_schema: http://w3id.org/mixs
    is_a: environment field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0000014
    multivalued: false
    alias: env_medium
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - wastewater_sludge
    - symbiont-associated
    - soil
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    - built environment
    - air
    - agriculture
    range: string
    required: true
  subspecf_gen_lin:
    name: subspecf_gen_lin
    description: Information about the genetic distinctness of the sequenced organism
      below the subspecies level, e.g., serovar, serotype, biotype, ecotype, or any
      relevant genetic typing schemes like Group I plasmid. Subspecies should not
      be recorded in this term, but in the NCBI taxonomy. Supply both the lineage
      name and the lineage rank separated by a colon, e.g., biovar:abc123.
    title: subspecific genetic lineage
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    string_serialization: '{rank name}:{text}'
    slot_uri: MIXS:0000020
    multivalued: false
    alias: subspecf_gen_lin
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMARKS survey
    range: string
    recommended: true
  extrachrom_elements:
    name: extrachrom_elements
    description: Do plasmids exist of significant phenotypic consequence (e.g. ones
      that determine virulence or antibiotic resistance). Megaplasmids? Other plasmids
      (borrelia has 15+ plasmids)
    title: extrachromosomal elements
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    slot_uri: MIXS:0000023
    multivalued: false
    alias: extrachrom_elements
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS org
    - MIMARKS survey
    range: integer
    recommended: true
  estimated_size:
    name: estimated_size
    description: The estimated size of the genome prior to sequencing. Of particular
      importance in the sequencing of (eukaryotic) genome which could remain in draft
      form for a long or unspecified period.
    title: estimated size
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    string_serialization: '{integer} bp'
    slot_uri: MIXS:0000024
    multivalued: false
    alias: estimated_size
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIUVIG
    range: string
    required: false
  ref_biomaterial:
    name: ref_biomaterial
    description: Primary publication if isolated before genome publication; otherwise,
      primary genome report.
    title: reference for biomaterial
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    string_serialization: '{PMID}|{DOI}|{URL}'
    slot_uri: MIXS:0000025
    multivalued: false
    alias: ref_biomaterial
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: false
  source_mat_id:
    name: source_mat_id
    description: A unique identifier assigned to a material sample (as defined by
      http://rs.tdwg.org/dwc/terms/materialSampleID, and as opposed to a particular
      digital record of a material sample) used for extracting nucleic acids, and
      subsequent sequencing. The identifier can refer either to the original material
      collected or to any derived sub-samples. The INSDC qualifiers /specimen_voucher,
      /bio_material, or /culture_collection may or may not share the same value as
      the source_mat_id field. For instance, the /specimen_voucher qualifier and source_mat_id
      may both contain 'UAM:Herps:14' , referring to both the specimen voucher and
      sampled tissue with the same identifier. However, the /culture_collection qualifier
      may refer to a value from an initial culture (e.g. ATCC:11775) while source_mat_id
      would refer to an identifier from some derived culture from which the nucleic
      acids were extracted (e.g. xatc123 or ark:/2154/R2).
    title: source material identifiers
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    string_serialization: '{text}'
    slot_uri: MIXS:0000026
    multivalued: false
    alias: source_mat_id
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    recommended: true
  isol_growth_condt:
    name: isol_growth_condt
    description: Publication reference in the form of pubmed ID (pmid), digital object
      identifier (doi) or url for isolation and growth condition specifications of
      the organism/material
    title: isolation and growth condition
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    string_serialization: '{PMID}|{DOI}|{URL}'
    slot_uri: MIXS:0000003
    multivalued: false
    alias: isol_growth_condt
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMARKS survey
    range: string
    required: true
  samp_collec_device:
    name: samp_collec_device
    description: The device used to collect an environmental sample. This field accepts
      terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO).
      This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).
    title: sample collection device
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    string_serialization: '{termLabel} {[termID]}|{text}'
    slot_uri: MIXS:0000002
    multivalued: false
    alias: samp_collec_device
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: false
  samp_collec_method:
    name: samp_collec_method
    description: The method employed for collecting the sample.
    title: sample collection method
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    string_serialization: '{PMID}|{DOI}|{URL}|{text}'
    slot_uri: MIXS:0001225
    multivalued: false
    alias: samp_collec_method
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: false
  samp_mat_process:
    name: samp_mat_process
    description: A brief description of any processing applied to the sample during
      or after retrieving the sample from environment, or a link to the relevant protocol(s)
      performed.
    title: sample material processing
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    string_serialization: '{text}'
    slot_uri: MIXS:0000016
    multivalued: false
    alias: samp_mat_process
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: false
  samp_size:
    name: samp_size
    description: The total amount or size (volume (ml), mass (g) or area (m2) ) of
      sample collected.
    title: amount or size of sample collected
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    slot_uri: MIXS:0000001
    multivalued: false
    alias: samp_size
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: quantity value
    required: false
  samp_vol_we_dna_ext:
    name: samp_vol_we_dna_ext
    description: 'Volume (ml) or mass (g) of total collected sample processed for
      DNA extraction. Note: total sample collected should be entered under the term
      Sample Size (MIXS:0000001).'
    title: sample volume or weight for DNA extraction
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    slot_uri: MIXS:0000111
    multivalued: false
    alias: samp_vol_we_dna_ext
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: quantity value
    required: false
  nucl_acid_ext:
    name: nucl_acid_ext
    description: A link to a literature reference, electronic resource or a standard
      operating procedure (SOP), that describes the material separation to recover
      the nucleic acid fraction from a sample
    title: nucleic acid extraction
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{PMID}|{DOI}|{URL}'
    slot_uri: MIXS:0000037
    multivalued: false
    alias: nucl_acid_ext
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: false
    recommended: true
  nucl_acid_amp:
    name: nucl_acid_amp
    description: A link to a literature reference, electronic resource or a standard
      operating procedure (SOP), that describes the enzymatic amplification (PCR,
      TMA, NASBA) of specific nucleic acids
    title: nucleic acid amplification
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{PMID}|{DOI}|{URL}'
    slot_uri: MIXS:0000038
    multivalued: false
    alias: nucl_acid_amp
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    recommended: true
  lib_size:
    name: lib_size
    description: Total number of clones in the library prepared for the project
    title: library size
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    slot_uri: MIXS:0000039
    multivalued: false
    alias: lib_size
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MISAG
    - MIMAG
    - MIUVIG
    range: integer
    required: false
  lib_reads_seqd:
    name: lib_reads_seqd
    description: Total number of clones sequenced from the library
    title: library reads sequenced
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    slot_uri: MIXS:0000040
    multivalued: false
    alias: lib_reads_seqd
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MISAG
    - MIMAG
    - MIUVIG
    range: integer
    required: false
  lib_layout:
    name: lib_layout
    description: Specify whether to expect single, paired, or other configuration
      of reads
    title: library layout
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    slot_uri: MIXS:0000041
    multivalued: false
    alias: lib_layout
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MISAG
    - MIMAG
    - MIUVIG
    range: lib_layout_enum
    required: false
  lib_vector:
    name: lib_vector
    description: Cloning vector type(s) used in construction of libraries
    title: library vector
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{text}'
    slot_uri: MIXS:0000042
    multivalued: false
    alias: lib_vector
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: false
  lib_screen:
    name: lib_screen
    description: Specific enrichment or screening methods applied before and/or after
      creating libraries
    title: library screening strategy
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{text}'
    slot_uri: MIXS:0000043
    multivalued: false
    alias: lib_screen
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: false
  adapters:
    name: adapters
    description: Adapters provide priming sequences for both amplification and sequencing
      of the sample-library fragments. Both adapters should be reported; in uppercase
      letters
    title: adapters
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{dna};{dna}'
    slot_uri: MIXS:0000048
    multivalued: false
    alias: adapters
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    recommended: true
  seq_meth:
    name: seq_meth
    description: Sequencing machine used. Where possible the term should be taken
      from the OBI list of DNA sequencers (http://purl.obolibrary.org/obo/OBI_0400103).
    title: sequencing method
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{termLabel} {[termID]}|{text}'
    slot_uri: MIXS:0000050
    multivalued: false
    alias: seq_meth
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: true
  tax_ident:
    name: tax_ident
    description: The phylogenetic marker(s) used to assign an organism name to the
      SAG or MAG
    title: taxonomic identity marker
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    slot_uri: MIXS:0000053
    multivalued: false
    alias: tax_ident
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MISAG
    - MIMAG
    - MIUVIG
    range: tax_ident_enum
    recommended: true
  assembly_qual:
    name: assembly_qual
    description: 'The assembly quality category is based on sets of criteria outlined
      for each assembly quality category. For MISAG/MIMAG; Finished: Single, validated,
      contiguous sequence per replicon without gaps or ambiguities with a consensus
      error rate equivalent to Q50 or better. High Quality Draft:Multiple fragments
      where gaps span repetitive regions. Presence of the 23S, 16S and 5S rRNA genes
      and at least 18 tRNAs. Medium Quality Draft:Many fragments with little to no
      review of assembly other than reporting of standard assembly statistics. Low
      Quality Draft:Many fragments with little to no review of assembly other than
      reporting of standard assembly statistics. Assembly statistics include, but
      are not limited to total assembly size, number of contigs, contig N50/L50, and
      maximum contig length. For MIUVIG; Finished: Single, validated, contiguous sequence
      per replicon without gaps or ambiguities, with extensive manual review and editing
      to annotate putative gene functions and transcriptional units. High-quality
      draft genome: One or multiple fragments, totaling ≥ 90% of the expected genome
      or replicon sequence or predicted complete. Genome fragment(s): One or multiple
      fragments, totalling < 90% of the expected genome or replicon sequence, or for
      which no genome size could be estimated'
    title: assembly quality
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    slot_uri: MIXS:0000056
    multivalued: false
    alias: assembly_qual
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MISAG
    - MIMAG
    - MIUVIG
    range: assembly_qual_enum
    required: false
  assembly_name:
    name: assembly_name
    description: Name/version of the assembly provided by the submitter that is used
      in the genome browsers and in the community
    title: assembly name
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{text} {text}'
    slot_uri: MIXS:0000057
    multivalued: false
    alias: assembly_name
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    recommended: true
  assembly_software:
    name: assembly_software
    description: Tool(s) used for assembly, including version number and parameters
    title: assembly software
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{software};{version};{parameters}'
    slot_uri: MIXS:0000058
    multivalued: false
    alias: assembly_software
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: true
  annot:
    name: annot
    description: Tool used for annotation, or for cases where annotation was provided
      by a community jamboree or model organism database rather than by a specific
      submitter
    title: annotation
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{text}'
    slot_uri: MIXS:0000059
    multivalued: false
    alias: annot
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    recommended: true
  number_contig:
    name: number_contig
    description: Total number of contigs in the cleaned/submitted assembly that makes
      up a given genome, SAG, MAG, or UViG
    title: number of contigs
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    slot_uri: MIXS:0000060
    multivalued: false
    alias: number_contig
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MISAG
    - MIMAG
    - MIUVIG
    range: integer
    required: false
  feat_pred:
    name: feat_pred
    description: Method used to predict UViGs features such as ORFs, integration site,
      etc.
    title: feature prediction
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{software};{version};{parameters}'
    slot_uri: MIXS:0000061
    multivalued: false
    alias: feat_pred
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: false
  ref_db:
    name: ref_db
    description: List of database(s) used for ORF annotation, along with version number
      and reference to website or publication
    title: reference database(s)
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{database};{version};{reference}'
    slot_uri: MIXS:0000062
    multivalued: false
    alias: ref_db
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: false
  sim_search_meth:
    name: sim_search_meth
    description: Tool used to compare ORFs with database, along with version and cutoffs
      used
    title: similarity search method
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{software};{version};{parameters}'
    slot_uri: MIXS:0000063
    multivalued: false
    alias: sim_search_meth
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: false
  tax_class:
    name: tax_class
    description: Method used for taxonomic classification, along with reference database
      used, classification rank, and thresholds used to classify new genomes
    title: taxonomic classification
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{text}'
    slot_uri: MIXS:0000064
    multivalued: false
    alias: tax_class
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: false
  compl_score:
    name: compl_score
    description: 'Completeness score is typically based on either the fraction of
      markers found as compared to a database or the percent of a genome found as
      compared to a closely related reference genome. High Quality Draft: >90%, Medium
      Quality Draft: >50%, and Low Quality Draft: < 50% should have the indicated
      completeness scores'
    title: completeness score
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    slot_uri: MIXS:0000069
    multivalued: false
    alias: compl_score
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: false
    pattern: ^(high|med|low);(0|([0-9]{1,2})|100)%$
  compl_software:
    name: compl_software
    description: Tools used for completion estimate, i.e. checkm, anvi'o, busco
    title: completeness software
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{software};{version}'
    slot_uri: MIXS:0000070
    multivalued: false
    alias: compl_software
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: false
  associated resource:
    name: associated resource
    description: A related resource that is referenced, cited, or otherwise associated
      to the sequence.
    title: relevant electronic resources
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{PMID} | {DOI} | {URL}'
    slot_uri: MIXS:0000091
    multivalued: false
    alias: associated_resource
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    recommended: true
  sop:
    name: sop
    description: Standard operating procedures used in assembly and/or annotation
      of genomes, metagenomes or environmental sequences
    title: relevant standard operating procedures
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{PMID}|{DOI}|{URL}'
    slot_uri: MIXS:0000090
    multivalued: false
    alias: sop
    owner: food-farm environment MIGS org
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    recommended: true
  depth:
    name: depth
    description: The vertical distance below local surface, e.g. for sediment or soil
      samples depth is measured from sediment or soil surface, respectively. Depth
      can be reported as an interval for subsurface samples.
    title: depth
    from_schema: http://w3id.org/mixs
    is_a: environment field
    slot_uri: MIXS:0000018
    multivalued: false
    alias: depth
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - wastewater_sludge
    - symbiont-associated
    - soil
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - core
    - built environment
    - air
    - agriculture
    range: quantity value
    required: true
  alt:
    name: alt
    annotations:
      expected_value:
        tag: expected_value
        value: measurement value
    description: Altitude is a term used to identify heights of objects such as airplanes,
      space shuttles, rockets, atmospheric balloons and heights of places such as
      atmospheric layers and clouds. It is used to measure the height of an object
      which is above the earth's surface. In this context, the altitude measurement
      is the vertical distance between the earth's surface above sea level and the
      sampled position in the air
    title: altitude
    examples:
    - value: 100 meter
    from_schema: http://w3id.org/mixs
    aliases:
    - altitude
    is_a: environment field
    slot_uri: MIXS:0000094
    multivalued: false
    alias: alt
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - wastewater_sludge
    - symbiont-associated
    - soil
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - core
    - built environment
    - air
    - agriculture
    range: quantity value
  elev:
    name: elev
    annotations:
      expected_value:
        tag: expected_value
        value: measurement value
    description: Elevation of the sampling site is its height above a fixed reference
      point, most commonly the mean sea level. Elevation is mainly used when referring
      to points on the earth's surface, while altitude is used for points above the
      surface, such as an aircraft in flight or a spacecraft in orbit.
    title: elevation
    examples:
    - value: 100 meter
    from_schema: http://w3id.org/mixs
    aliases:
    - elevation
    is_a: environment field
    slot_uri: MIXS:0000093
    multivalued: false
    alias: elev
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - wastewater_sludge
    - symbiont-associated
    - soil
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - core
    - built environment
    - air
    - agriculture
    range: quantity value
  temp:
    name: temp
    description: Temperature of the sample at the time of sampling.
    title: temperature
    from_schema: http://w3id.org/mixs
    is_a: environment field
    slot_uri: MIXS:0000113
    multivalued: false
    alias: temp
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - wastewater_sludge
    - symbiont-associated
    - soil
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - core
    - built environment
    - air
    - agriculture
    range: quantity value
    required: false
  samp_collect_device:
    name: samp_collect_device
    description: The device used to collect an environmental sample. This field accepts
      terms listed under environmental sampling device (http://purl.obolibrary.org/obo/ENVO).
      This field also accepts terms listed under specimen collection device (http://purl.obolibrary.org/obo/GENEPIO_0002094).
    title: sample collection device
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}|{text}'
    slot_uri: MIXS:0000002
    multivalued: false
    alias: samp_collect_device
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    range: string
    required: false
  humidity:
    name: humidity
    description: Amount of water vapour in the air, at the time of sampling
    title: humidity
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000100
    multivalued: false
    alias: humidity
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - air
    - agriculture
    range: quantity value
    required: false
  organism_count:
    name: organism_count
    description: 'Total cell count of any organism (or group of organisms) per gram,
      volume or area of sample, should include name of organism followed by count.
      The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should
      also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)'
    title: organism count
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000103
    multivalued: true
    alias: organism_count
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - wastewater_sludge
    - symbiont-associated
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - built environment
    - air
    - agriculture
    range: organism_count_enum
    required: false
  spikein_count:
    name: spikein_count
    description: 'Total cell count of any organism (or group of organisms) per gram,
      volume or area of sample, should include name of organism followed by count.
      The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) should
      also be provided (example: total prokaryotes; 3.5e7 cells per ml; qPCR).'
    title: spike-in organism count
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001335
    multivalued: false
    alias: spikein_count
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-farm environment
    - food-animal and animal feed
    range: spikein_count_enum
    required: false
  samp_stor_temp:
    name: samp_stor_temp
    description: Temperature at which sample was stored, e.g. -80 degree Celsius.
    title: sample storage temperature
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000110
    multivalued: false
    alias: samp_stor_temp
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    range: quantity value
    required: false
  solar_irradiance:
    name: solar_irradiance
    description: The amount of solar energy that arrives at a specific area of a surface
      during a specific time interval
    title: solar irradiance
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000112
    multivalued: false
    alias: solar_irradiance
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - air
    - agriculture
    range: quantity value
    required: false
  ventilation_rate:
    name: ventilation_rate
    description: Ventilation rate of the system in the sampled premises
    title: ventilation rate
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000114
    multivalued: false
    alias: ventilation_rate
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - air
    range: quantity value
    required: false
  samp_stor_dur:
    name: samp_stor_dur
    description: Duration for which the sample was stored. Indicate the duration for
      which the sample was stored written in ISO 8601 format.
    title: sample storage duration
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{duration}'
    slot_uri: MIXS:0000116
    multivalued: false
    alias: samp_stor_dur
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  wind_speed:
    name: wind_speed
    description: Speed of wind measured at the time of sampling
    title: wind speed
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000118
    multivalued: false
    alias: wind_speed
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - air
    range: quantity value
    required: false
  salinity:
    name: salinity
    description: The total concentration of all dissolved salts in a liquid or solid
      sample. While salinity can be measured by a complete chemical analysis, this
      method is difficult and time consuming. More often, it is instead derived from
      the conductivity measurement. This is known as practical salinity. These derivations
      compare the specific conductance of the sample to a salinity standard such as
      seawater.
    title: salinity
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000183
    multivalued: false
    alias: salinity
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - wastewater_sludge
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-farm environment
    - air
    range: quantity value
    required: false
  previous_land_use:
    name: previous_land_use
    description: Previous land use and dates
    title: history/previous land use
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{timestamp}'
    slot_uri: MIXS:0000315
    multivalued: false
    alias: previous_land_use
    owner: food-farm environment MIGS org
    domain_of:
    - soil
    - food-farm environment
    - agriculture
    range: string
    required: false
  crop_rotation:
    name: crop_rotation
    description: Whether or not crop is rotated, and if yes, rotation schedule
    title: history/crop rotation
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{boolean};{Rn/start_time/end_time/duration}'
    slot_uri: MIXS:0000318
    multivalued: false
    alias: crop_rotation
    owner: food-farm environment MIGS org
    domain_of:
    - soil
    - food-farm environment
    - agriculture
    range: string
    required: false
  soil_type_meth:
    name: soil_type_meth
    description: Reference or method used in determining soil series name or other
      lower-level classification
    title: soil type method
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{PMID}|{DOI}|{URL}'
    slot_uri: MIXS:0000334
    multivalued: false
    alias: soil_type_meth
    owner: food-farm environment MIGS org
    domain_of:
    - soil
    - food-farm environment
    - agriculture
    range: string
    required: false
  tot_org_c_meth:
    name: tot_org_c_meth
    description: Reference or method used in determining total organic carbon
    title: total organic carbon method
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{PMID}|{DOI}|{URL}'
    slot_uri: MIXS:0000337
    multivalued: false
    alias: tot_org_c_meth
    owner: food-farm environment MIGS org
    domain_of:
    - soil
    - food-farm environment
    - agriculture
    range: string
    required: false
  tot_nitro_cont_meth:
    name: tot_nitro_cont_meth
    description: Reference or method used in determining the total nitrogen
    title: total nitrogen content method
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{PMID}|{DOI}|{URL}'
    slot_uri: MIXS:0000338
    multivalued: false
    alias: tot_nitro_cont_meth
    owner: food-farm environment MIGS org
    domain_of:
    - soil
    - food-farm environment
    range: string
    required: false
  salinity_meth:
    name: salinity_meth
    description: Reference or method used in determining salinity
    title: salinity method
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{PMID}|{DOI}|{URL}'
    slot_uri: MIXS:0000341
    multivalued: false
    alias: salinity_meth
    owner: food-farm environment MIGS org
    domain_of:
    - soil
    - food-farm environment
    range: string
    required: false
  host_age:
    name: host_age
    description: Age of host at the time of sampling; relevant scale depends on species
      and study, e.g. Could be seconds for amoebae or centuries for trees
    title: host age
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000255
    multivalued: false
    alias: host_age
    owner: food-farm environment MIGS org
    domain_of:
    - symbiont-associated
    - plant-associated
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  host_dry_mass:
    name: host_dry_mass
    description: Measurement of dry mass
    title: host dry mass
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000257
    multivalued: false
    alias: host_dry_mass
    owner: food-farm environment MIGS org
    domain_of:
    - symbiont-associated
    - plant-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  host_height:
    name: host_height
    description: The height of subject
    title: host height
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000264
    multivalued: false
    alias: host_height
    owner: food-farm environment MIGS org
    domain_of:
    - symbiont-associated
    - plant-associated
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  host_length:
    name: host_length
    description: The length of subject
    title: host length
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000256
    multivalued: false
    alias: host_length
    owner: food-farm environment MIGS org
    domain_of:
    - symbiont-associated
    - plant-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  host_tot_mass:
    name: host_tot_mass
    description: Total mass of the host at collection, the unit depends on host
    title: host total mass
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000263
    multivalued: false
    alias: host_tot_mass
    owner: food-farm environment MIGS org
    domain_of:
    - symbiont-associated
    - plant-associated
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  root_med_carbon:
    name: root_med_carbon
    description: Source of organic carbon in the culture rooting medium; e.g. sucrose.
    title: rooting medium carbon
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000577
    multivalued: false
    alias: root_med_carbon
    owner: food-farm environment MIGS org
    domain_of:
    - plant-associated
    - food-farm environment
    - agriculture
    range: string
    required: false
  root_med_macronutr:
    name: root_med_macronutr
    description: Measurement of the culture rooting medium macronutrients (N,P, K,
      Ca, Mg, S); e.g. KH2PO4 (170 mg/L).
    title: rooting medium macronutrients
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000578
    multivalued: false
    alias: root_med_macronutr
    owner: food-farm environment MIGS org
    domain_of:
    - plant-associated
    - food-farm environment
    - agriculture
    range: string
    required: false
  root_med_micronutr:
    name: root_med_micronutr
    description: Measurement of the culture rooting medium micronutrients (Fe, Mn,
      Zn, B, Cu, Mo); e.g. H3BO3 (6.2 mg/L).
    title: rooting medium micronutrients
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000579
    multivalued: false
    alias: root_med_micronutr
    owner: food-farm environment MIGS org
    domain_of:
    - plant-associated
    - food-farm environment
    range: string
    required: false
  season_temp:
    name: season_temp
    description: Mean seasonal temperature
    title: mean seasonal temperature
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000643
    multivalued: false
    alias: season_temp
    owner: food-farm environment MIGS org
    domain_of:
    - soil
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  season_precpt:
    name: season_precpt
    description: The average of all seasonal precipitation values known, or an estimated
      equivalent value derived by such methods as regional indexes or Isohyetal maps.
    title: mean seasonal precipitation
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000645
    multivalued: false
    alias: season_precpt
    owner: food-farm environment MIGS org
    domain_of:
    - soil
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  tot_org_carb:
    name: tot_org_carb
    description: 'Definition for soil: total organic carbon content of the soil, definition
      otherwise: total organic carbon content'
    title: total organic carbon
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000533
    multivalued: false
    alias: tot_org_carb
    owner: food-farm environment MIGS org
    domain_of:
    - soil
    - sediment
    - microbial mat_biofilm
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  tot_nitro_content:
    name: tot_nitro_content
    description: Total nitrogen content of the sample
    title: total nitrogen content
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000530
    multivalued: false
    alias: tot_nitro_content
    owner: food-farm environment MIGS org
    domain_of:
    - soil
    - sediment
    - microbial mat_biofilm
    - food-farm environment
    range: quantity value
    required: false
  conduc:
    name: conduc
    description: Electrical conductivity of water
    title: conductivity
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000692
    multivalued: false
    alias: conduc
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - food-farm environment
    range: quantity value
    required: false
  turbidity:
    name: turbidity
    description: Measure of the amount of cloudiness or haziness in water caused by
      individual particles
    title: turbidity
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000191
    multivalued: false
    alias: turbidity
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - sediment
    - microbial mat_biofilm
    - food-farm environment
    range: quantity value
    required: false
  size_frac_low:
    name: size_frac_low
    description: Refers to the mesh/pore size used to pre-filter/pre-sort the sample.
      Materials larger than the size threshold are excluded from the sample
    title: size-fraction lower threshold
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000735
    multivalued: false
    alias: size_frac_low
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  size_frac_up:
    name: size_frac_up
    description: Refers to the mesh/pore size used to retain the sample. Materials
      smaller than the size threshold are excluded from the sample
    title: size-fraction upper threshold
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000736
    multivalued: false
    alias: size_frac_up
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  ventilation_type:
    name: ventilation_type
    description: Ventilation system used in the sampled premises
    title: ventilation type
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000756
    multivalued: false
    alias: ventilation_type
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - built environment
    - air
    range: string
    required: false
  wind_direction:
    name: wind_direction
    description: Wind direction is the direction from which a wind originates
    title: wind direction
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000757
    multivalued: false
    alias: wind_direction
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - air
    range: string
    required: false
  genetic_mod:
    name: genetic_mod
    description: Genetic modifications of the genome of an organism, which may occur
      naturally by spontaneous mutation, or be introduced by some experimental means,
      e.g. specification of a transgene or the gene knocked-out or details of transient
      transfection
    title: genetic modification
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{PMID}|{DOI}|{URL}|{text}'
    slot_uri: MIXS:0000859
    multivalued: false
    alias: genetic_mod
    owner: food-farm environment MIGS org
    domain_of:
    - plant-associated
    - host-associated
    - food-human foods
    - food-food production facility
    - food-farm environment
    - agriculture
    range: string
    required: false
  host_phenotype:
    name: host_phenotype
    description: Phenotype of human or other host. For phenotypic quality ontology
      (pato) (v 2018-03-27) terms, please see http://purl.bioontology.org/ontology/pato.
      For Human Phenotype Ontology (HP) (v 2018-06-13) please see http://purl.bioontology.org/ontology/HP
    title: host phenotype
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0000874
    multivalued: false
    alias: host_phenotype
    owner: food-farm environment MIGS org
    domain_of:
    - symbiont-associated
    - plant-associated
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: string
    required: false
  ph:
    name: ph
    description: Ph measurement of the sample, or liquid portion of sample, or aqueous
      phase of the fluid
    title: pH
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001001
    multivalued: false
    alias: ph
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - wastewater_sludge
    - soil
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - food-farm environment
    range: double
    required: false
  ances_data:
    name: ances_data
    description: Information about either pedigree or other ancestral information
      description (e.g. parental variety in case of mutant or selection), e.g. A/3*B
      (meaning [(A x B) x B] x B)
    title: ancestral data
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000247
    multivalued: false
    alias: ances_data
    owner: food-farm environment MIGS org
    domain_of:
    - plant-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: string
    required: false
  biotic_regm:
    name: biotic_regm
    description: Information about treatment(s) involving use of biotic factors, such
      as bacteria, viruses or fungi.
    title: biotic regimen
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001038
    multivalued: false
    alias: biotic_regm
    owner: food-farm environment MIGS org
    domain_of:
    - plant-associated
    - food-farm environment
    range: string
    required: true
  chem_administration:
    name: chem_administration
    description: List of chemical compounds administered to the host or site where
      sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can
      include multiple compounds. For chemical entities of biological interest ontology
      (chebi) (v 163), http://purl.bioontology.org/ontology/chebi
    title: chemical administration
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]};{timestamp}'
    slot_uri: MIXS:0000751
    multivalued: true
    alias: chem_administration
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - wastewater_sludge
    - symbiont-associated
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-farm environment
    - air
    - agriculture
    range: string
    required: true
  growth_habit:
    name: growth_habit
    description: Characteristic shape, appearance or growth form of a plant species
    title: growth habit
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001044
    multivalued: false
    alias: growth_habit
    owner: food-farm environment MIGS org
    domain_of:
    - plant-associated
    - food-farm environment
    range: growth_habit_enum
    required: false
  host_genotype:
    name: host_genotype
    description: Observed genotype
    title: host genotype
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000365
    multivalued: false
    alias: host_genotype
    owner: food-farm environment MIGS org
    domain_of:
    - symbiont-associated
    - plant-associated
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: string
    required: false
  host_taxid:
    name: host_taxid
    description: NCBI taxon id of the host, e.g. 9606
    title: host taxid
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{NCBI taxid}'
    slot_uri: MIXS:0000250
    multivalued: false
    alias: host_taxid
    owner: food-farm environment MIGS org
    domain_of:
    - symbiont-associated
    - plant-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: string
    required: false
  mechanical_damage:
    name: mechanical_damage
    description: Information about any mechanical damage exerted on the plant; can
      include multiple damages and sites
    title: mechanical damage
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{text}'
    slot_uri: MIXS:0001052
    multivalued: true
    alias: mechanical_damage
    owner: food-farm environment MIGS org
    domain_of:
    - plant-associated
    - food-farm environment
    range: string
    required: false
  perturbation:
    name: perturbation
    description: Type of perturbation, e.g. chemical administration, physical disturbance,
      etc., coupled with perturbation regimen including how many times the perturbation
      was repeated, how long each perturbation lasted, and the start and end time
      of the entire perturbation period; can include multiple perturbation types
    title: perturbation
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{Rn/start_time/end_time/duration}'
    slot_uri: MIXS:0000754
    multivalued: true
    alias: perturbation
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - wastewater_sludge
    - symbiont-associated
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-human foods
    - food-farm environment
    - food-animal and animal feed
    - air
    - agriculture
    range: string
    required: false
  root_cond:
    name: root_cond
    description: Relevant rooting conditions such as field plot size, sowing density,
      container dimensions, number of plants per container.
    title: rooting conditions
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{PMID}|{DOI}|{URL}|{text}'
    slot_uri: MIXS:0001061
    multivalued: false
    alias: root_cond
    owner: food-farm environment MIGS org
    domain_of:
    - plant-associated
    - food-farm environment
    range: string
    required: false
  root_med_ph:
    name: root_med_ph
    description: pH measurement of the culture rooting medium; e.g. 5.5.
    title: rooting medium pH
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001062
    multivalued: false
    alias: root_med_ph
    owner: food-farm environment MIGS org
    domain_of:
    - plant-associated
    - food-farm environment
    - agriculture
    range: double
    required: false
  tillage:
    name: tillage
    description: Note method(s) used for tilling
    title: history/tillage
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001081
    multivalued: true
    alias: tillage
    owner: food-farm environment MIGS org
    domain_of:
    - soil
    - food-farm environment
    - agriculture
    range: tillage_enum
    required: false
  ph_meth:
    name: ph_meth
    description: Reference or method used in determining ph
    title: pH method
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{PMID}|{DOI}|{URL}'
    slot_uri: MIXS:0001106
    multivalued: false
    alias: ph_meth
    owner: food-farm environment MIGS org
    domain_of:
    - soil
    - food-farm environment
    - agriculture
    range: string
    required: false
  growth_medium:
    name: growth_medium
    description: A liquid or gel containing nutrients, salts, and other factors formulated
      to support the growth of microorganisms, cells, or plants (National Cancer Institute
      Thesaurus).  The name of the medium used to grow the microorganism.
    title: growth medium
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001108
    multivalued: false
    alias: growth_medium
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    range: string
    required: false
  season:
    name: season
    description: The season when sampling occurred. Any of the four periods into which
      the year is divided by the equinoxes and solstices. This field accepts terms
      listed under season (http://purl.obolibrary.org/obo/NCIT_C94729).
    title: season
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0000829
    multivalued: false
    alias: season
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - built environment
    - agriculture
    range: string
    required: false
  food_product_type:
    name: food_product_type
    description: A food product type is a class of food products that is differentiated
      by its food composition (e.g., single- or multi-ingredient), processing and/or
      consumption characteristics. This does not include brand name products but it
      may include generic food dish categories. This field accepts terms under food
      product type (http://purl.obolibrary.org/obo/FOODON:03400361). For terms related
      to food product for an animal, consult food product for animal (http://purl.obolibrary.org/obo/FOODON_03309997).
      If the proper descriptor is not listed please use text to describe the food
      type. Multiple terms can be separated by one or more pipes.
    title: food product type
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001184
    multivalued: true
    alias: food_product_type
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: true
  samp_type:
    name: samp_type
    description: The type of material from which the sample was obtained. For the
      Hydrocarbon package, samples include types like core, rock trimmings, drill
      cuttings, piping section, coupon, pigging debris, solid deposit, produced fluid,
      produced water, injected water, swabs, etc. For the Food Package, samples are
      usually categorized as food, body products or tissues, or environmental material.
      This field accepts terms listed under environmental specimen (http://purl.obolibrary.org/obo/GENEPIO_0001246).
    title: sample type
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0000998
    multivalued: false
    alias: samp_type
    owner: food-farm environment MIGS org
    domain_of:
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - food-food production facility
    - food-farm environment
    range: string
    required: true
  farm_water_source:
    name: farm_water_source
    description: Source of water used on the farm for irrigation of crops or watering
      of livestock.
    title: farm watering water source
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001110
    multivalued: true
    alias: farm_water_source
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - agriculture
    range: farm_water_source_enum
    required: false
  plant_water_method:
    name: plant_water_method
    description: Description of the equipment or method used to distribute water to
      crops. This field accepts termed listed under irrigation process (http://purl.obolibrary.org/obo/AGRO_00000006).
      Multiple terms can be separated by pipes.
    title: plant water delivery method
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0001111
    multivalued: false
    alias: plant_water_method
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - agriculture
    range: string
    required: false
  air_PM_concen:
    name: air_PM_concen
    description: Concentration of substances that remain suspended in the air, and
      comprise mixtures of organic and inorganic substances (PM10 and PM2.5); can
      report multiple PM's by entering numeric values preceded by name of PM
    title: air particulate matter concentration
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000108
    multivalued: true
    alias: air_PM_concen
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    range: string
    required: false
  animal_feed_equip:
    name: animal_feed_equip
    description: Description of the feeding equipment used for livestock. This field
      accepts terms listed under feed delivery (http://opendata.inra.fr/EOL/EOL_0001757).
      Multiple terms can be separated by one or more pipes.
    title: animal feeding equipment
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0001113
    multivalued: true
    alias: animal_feed_equip
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  animal_intrusion:
    name: animal_intrusion
    description: Identification of animals intruding on the sample or sample site
      including invertebrates (such as pests or pollinators) and vertebrates (such
      as wildlife or domesticated animals). This field accepts terms under organism
      (http://purl.obolibrary.org/obo/NCIT_C14250). This field also accepts identification
      numbers from NCBI under https://www.ncbi.nlm.nih.gov/taxonomy. Multiple terms
      can be separated by pipes.
    title: animal intrusion near sample source
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}|{integer}'
    slot_uri: MIXS:0001114
    multivalued: true
    alias: animal_intrusion
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    range: string
    required: false
  anim_water_method:
    name: anim_water_method
    description: Description of the equipment or method used to distribute water to
      livestock. This field accepts termed listed under water delivery equipment (http://opendata.inra.fr/EOL/EOL_0001653).
      Multiple terms can be separated by pipes.
    title: animal water delivery method
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0001115
    multivalued: true
    alias: anim_water_method
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - agriculture
    range: string
    required: false
  crop_yield:
    name: crop_yield
    description: Amount of crop produced per unit or area of land.
    title: crop yield
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{float}{unit}'
    slot_uri: MIXS:0001116
    multivalued: false
    alias: crop_yield
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - agriculture
    range: string
    required: false
  cult_result:
    name: cult_result
    description: Any result of a bacterial culture experiment reported as a binary
      assessment such as positive/negative, active/inactive.
    title: culture result
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001117
    multivalued: false
    alias: cult_result
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: cult_result_enum
    required: false
  cult_result_org:
    name: cult_result_org
    description: Taxonomic information about the cultured organism(s).
    title: culture result organism
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}|{integer}'
    slot_uri: MIXS:0001118
    multivalued: true
    alias: cult_result_org
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  cult_target:
    name: cult_target
    description: The target microbial analyte in terms of investigation scope. This
      field accepts terms under organism (http://purl.obolibrary.org/obo/NCIT_C14250).
      This field also accepts identification numbers from NCBI under https://www.ncbi.nlm.nih.gov/taxonomy.
    title: culture target microbial analyte
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}|{integer}'
    slot_uri: MIXS:0001119
    multivalued: true
    alias: cult_target
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  plant_part_maturity:
    name: plant_part_maturity
    description: A description of the stage of development of a plant or plant part
      based on maturity or ripeness. This field accepts terms listed under degree
      of plant maturity (http://purl.obolibrary.org/obo/FOODON_03530050).
    title: degree of plant part maturity
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{term label}{term ID}'
    slot_uri: MIXS:0001120
    multivalued: false
    alias: plant_part_maturity
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    range: string
    required: false
  adjacent_environment:
    name: adjacent_environment
    description: Description of the environmental system or features that are adjacent
      to the sampling site. This field accepts terms under ecosystem (http://purl.obolibrary.org/obo/ENVO_01001110)
      and human construction (http://purl.obolibrary.org/obo/ENVO_00000070). Multiple
      terms can be separated by pipes.
    title: environment adjacent to site
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel}{[termID]}'
    slot_uri: MIXS:0001121
    multivalued: true
    alias: adjacent_environment
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - agriculture
    range: string
    required: false
  water_source_adjac:
    name: water_source_adjac
    description: Description of the environmental features that are adjacent to the
      farm water source. This field accepts terms under ecosystem (http://purl.obolibrary.org/obo/ENVO_01001110)
      and human construction (http://purl.obolibrary.org/obo/ENVO_00000070). Multiple
      terms can be separated by pipes.
    title: environmental feature adjacent water source
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001122
    multivalued: true
    alias: water_source_adjac
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    range: string
    required: false
  farm_equip_shared:
    name: farm_equip_shared
    description: List of planting, growing or harvesting equipment shared with other
      farms. This field accepts terms listed under agricultural implement (http://purl.obolibrary.org/obo/AGRO_00000416).
      Multiple terms can be separated by pipes.
    title: equipment shared with other farms
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0001123
    multivalued: true
    alias: farm_equip_shared
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - agriculture
    range: string
    required: false
  farm_equip_san:
    name: farm_equip_san
    description: Method used to sanitize growing and harvesting equipment. This can
      including type and concentration of sanitizing solution.  Multiple terms can
      be separated by one or more pipes.
    title: farm equipment sanitization
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text} {float} {unit}'
    slot_uri: MIXS:0001124
    multivalued: true
    alias: farm_equip_san
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - agriculture
    range: string
    required: false
  farm_equip_san_freq:
    name: farm_equip_san_freq
    description: The number of times farm equipment is cleaned. Frequency of cleaning
      might be on a Daily basis, Weekly, Monthly, Quarterly or Annually.
    title: farm equipment sanitization frequency
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001125
    multivalued: false
    alias: farm_equip_san_freq
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    range: string
    required: false
  farm_equip:
    name: farm_equip
    description: List of equipment used for planting, fertilization, harvesting, irrigation,
      land levelling, residue management, weeding or transplanting during the growing
      season.  This field accepts terms listed under agricultural implement (http://purl.obolibrary.org/obo/AGRO_00000416).
      Multiple terms can be separated by pipes.
    title: farm equipment used
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0001126
    multivalued: true
    alias: farm_equip
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - agriculture
    range: string
    required: false
  fertilizer_admin:
    name: fertilizer_admin
    description: Type of fertilizer or amendment added to the soil or water for the
      purpose of improving substrate health and quality for plant growth. This field
      accepts terms listed under agronomic fertilizer (http://purl.obolibrary.org/obo/AGRO_00002062).
      Multiple terms may apply and can be separated by pipes, listing in reverse chronological
      order.
    title: fertilizer administration
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0001127
    multivalued: false
    alias: fertilizer_admin
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - agriculture
    range: string
    required: false
  fertilizer_date:
    name: fertilizer_date
    description: Date of administration of soil amendment or fertilizer. Multiple
      terms may apply and can be separated by pipes, listing in reverse chronological
      order.
    title: fertilizer administration date
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001128
    multivalued: false
    alias: fertilizer_date
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    range: date
    required: false
  animal_group_size:
    name: animal_group_size
    description: The number of food animals of the same species that are maintained
      together as a unit, i.e. a herd or flock.
    title: food animal group size
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001129
    multivalued: false
    alias: animal_group_size
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - food-animal and animal feed
    range: integer
    required: false
  animal_diet:
    name: animal_diet
    description: If the isolate is from a food animal, the type of diet eaten by the
      food animal.  Please list the main food staple and the setting, if appropriate.  For
      a list of acceptable animal feed terms or categories, please see http://www.feedipedia.org.  Multiple
      terms may apply and can be separated by pipes |Food product for animal covers
      foods intended for consumption by domesticated animals. Consult http://purl.obolibrary.org/obo/FOODON_03309997.
      If the proper descriptor is not listed please use text to describe the food
      type. Multiple terms can be separated by one or more pipes. If the proper descriptor
      is not listed please use text to describe the food product type.
    title: food animal source diet
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001130
    multivalued: true
    alias: animal_diet
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  food_contact_surf:
    name: food_contact_surf
    description: The specific container or coating materials in direct contact with
      the food. Multiple values can be assigned.  This field accepts terms listed
      under food contact surface (http://purl.obolibrary.org/obo/FOODON_03500010).
    title: food contact surface
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001131
    multivalued: true
    alias: food_contact_surf
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  food_contain_wrap:
    name: food_contain_wrap
    description: Type of container or wrapping defined by the main container material,
      the container form, and the material of the liner lids or ends. Also type of
      container or wrapping by form; prefer description by material first, then by
      form. This field accepts terms listed under food container or wrapping (http://purl.obolibrary.org/obo/FOODON_03490100).
    title: food container or wrapping
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001132
    multivalued: false
    alias: food_contain_wrap
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  food_harvest_proc:
    name: food_harvest_proc
    description: A harvesting process is a process which takes in some food material
      from an individual or community of plant or animal organisms in a given context
      and time, and outputs a precursor or consumable food product. This may include
      a part of an organism or the whole, and may involve killing the organism.
    title: Food harvesting process
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001133
    multivalued: true
    alias: food_harvest_proc
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - agriculture
    range: string
    required: false
  food_pack_medium:
    name: food_pack_medium
    description: The medium in which the food is packed for preservation and handling
      or the medium surrounding homemade foods, e.g., peaches cooked in sugar syrup.
      The packing medium may provide a controlled environment for the food. It may
      also serve to improve palatability and consumer appeal.  This includes edible
      packing media (e.g. fruit juice), gas other than air (e.g. carbon dioxide),
      vacuum packed, or packed with aerosol propellant. This field accepts terms under
      food packing medium (http://purl.obolibrary.org/obo/FOODON_03480020). Multiple
      terms may apply and can be separated by pipes.
    title: food packing medium
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001134
    multivalued: true
    alias: food_pack_medium
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  food_preserv_proc:
    name: food_preserv_proc
    description: The methods contributing to the prevention or retardation of microbial,
      enzymatic or oxidative spoilage and thus to the extension of shelf life. This
      field accepts terms listed under food preservation process (http://purl.obolibrary.org/obo/FOODON_03470107).
    title: food preservation process
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001135
    multivalued: true
    alias: food_preserv_proc
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  food_prod_char:
    name: food_prod_char
    description: Descriptors of the food production system such as wild caught, free-range,
      organic, free-range, industrial, dairy, beef.
    title: food production characteristics
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001136
    multivalued: true
    alias: food_prod_char
    owner: food-farm environment MIGS org
    domain_of:
    - food-food production facility
    - food-farm environment
    range: string
    required: false
  prod_label_claims:
    name: prod_label_claims
    description: Labeling claims containing descriptors such as wild caught, free-range,
      organic, free-range, industrial, hormone-free, antibiotic free, cage free. Can
      include more than one term, separated by ";"
    title: production labeling claims
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    multivalued: true
    alias: prod_label_claims
    owner: food-farm environment MIGS org
    domain_of:
    - food-food production facility
    - food-farm environment
    range: string
    required: false
  food_trav_mode:
    name: food_trav_mode
    description: A descriptor for the method of movement of food commodity along the
      food distribution system.  This field accepts terms listed under travel mode
      (http://purl.obolibrary.org/obo/GENEPIO_0001064). If the proper descrptor is
      not listed please use text to describe the mode of travel. Multiple terms can
      be separated by one or more pipes.
    title: food shipping transportation method
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0001137
    multivalued: true
    alias: food_trav_mode
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    range: string
    required: false
  food_trav_vehic:
    name: food_trav_vehic
    description: A descriptor for the mobile machine which is used to transport food
      commodities along the food distribution system.  This field accepts terms listed
      under vehicle (http://purl.obolibrary.org/obo/ENVO_01000604). If the proper
      descrptor is not listed please use text to describe the mode of travel. Multiple
      terms can be separated by one or more pipes.
    title: Food shipping transportation vehicle
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001138
    multivalued: true
    alias: food_trav_vehic
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    range: string
    required: false
  food_source:
    name: food_source
    description: Type of plant or animal from which the food product or its major
      ingredient is derived or a chemical food source [FDA CFSAN 1995].
    title: food source
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0001139
    multivalued: false
    alias: food_source
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  food_treat_proc:
    name: food_treat_proc
    description: Used to specifically characterize a food product based on the treatment
      or processes applied to the product or any indexed ingredient. The processes
      include adding, substituting or removing components or modifying the food or
      component, e.g., through fermentation. Multiple values can be assigned. This
      fields accepts terms listed under food treatment process (http://purl.obolibrary.org/obo/FOODON_03460111).
    title: food treatment process
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001140
    multivalued: true
    alias: food_treat_proc
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  extr_weather_event:
    name: extr_weather_event
    description: Unusual weather events that may have affected microbial populations.
      Multiple terms can be separated by pipes, listed in reverse chronological order.
    title: extreme weather event
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001141
    multivalued: true
    alias: extr_weather_event
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    range: extr_weather_event_enum
    required: false
  date_extr_weath:
    name: date_extr_weath
    description: Date of unusual weather events that may have affected microbial populations.
      Multiple terms can be separated by pipes, listed in reverse chronological order.
    title: extreme weather date
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001142
    multivalued: true
    alias: date_extr_weath
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    range: date
    required: false
  host_subspecf_genlin:
    name: host_subspecf_genlin
    description: Information about the genetic distinctness of the host organism below
      the subspecies level e.g., serovar, serotype, biotype, ecotype, variety, cultivar,
      or any relevant genetic typing schemes like Group I plasmid. Subspecies should
      not be recorded in this term, but in the NCBI taxonomy. Supply both the lineage
      name and the lineage rank separated by a colon, e.g., biovar:abc123.
    title: host subspecific genetic lineage
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{rank name}:{text}'
    slot_uri: MIXS:0001318
    multivalued: true
    alias: host_subspecf_genlin
    owner: food-farm environment MIGS org
    domain_of:
    - plant-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: string
    required: false
  intended_consumer:
    name: intended_consumer
    description: Food consumer type, human or animal, for which the food product is
      produced and marketed. This field accepts terms listed under food consumer group
      (http://purl.obolibrary.org/obo/FOODON_03510136) or NCBI taxid.
    title: intended consumer
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{integer}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001144
    multivalued: true
    alias: intended_consumer
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  library_prep_kit:
    name: library_prep_kit
    description: Packaged kits (containing adapters, indexes, enzymes, buffers etc.),
      tailored for specific sequencing workflows, which allow the simplified preparation
      of sequencing-ready libraries for small genomes, amplicons, and plasmids.
    title: library preparation kit
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001145
    multivalued: false
    alias: library_prep_kit
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    range: string
    required: false
  air_flow_impede:
    name: air_flow_impede
    description: Presence of objects in the area that would influence or impede air
      flow through the air filter.
    title: local air flow impediments
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '[obstructed|unobstructed]; {text}; {measurement value}'
    slot_uri: MIXS:0001146
    multivalued: true
    alias: air_flow_impede
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    range: string
    required: false
  lot_number:
    name: lot_number
    description: 'A distinctive alpha-numeric identification code assigned by the
      manufacturer or distributor to a specific quantity of manufactured material
      or product within a batch. Synonym: Batch Number.  The submitter should provide
      lot number of the item followed by the item name for which the lot number was
      provided.'
    title: lot number
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{integer}, {text}'
    slot_uri: MIXS:0001147
    multivalued: true
    alias: lot_number
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    range: string
    required: false
  season_humidity:
    name: season_humidity
    description: Average humidity of the region throughout the growing season.
    title: mean seasonal humidity
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001148
    multivalued: false
    alias: season_humidity
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  part_plant_animal:
    name: part_plant_animal
    description: The anatomical part of the organism being involved in food production
      or consumption; e.g., a carrot is the root of the plant (root vegetable). This
      field accepts terms listed under part of plant or animal (http://purl.obolibrary.org/obo/FOODON_03420116).
    title: part of plant or animal
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001149
    multivalued: true
    alias: part_plant_animal
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  plant_growth_med:
    name: plant_growth_med
    description: Specification of the media for growing the plants or tissue cultured
      samples, e.g. soil, aeroponic, hydroponic, in vitro solid culture medium, in
      vitro liquid culture medium. Recommended value is a specific value from EO:plant
      growth medium (follow this link for terms http://purl.obolibrary.org/obo/EO_0007147)
      or other controlled vocabulary
    title: plant growth medium
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001057
    multivalued: false
    alias: plant_growth_med
    owner: food-farm environment MIGS org
    domain_of:
    - plant-associated
    - food-farm environment
    - agriculture
    range: plant_growth_med_enum
    required: false
  plant_reprod_crop:
    name: plant_reprod_crop
    description: Plant reproductive part used in the field during planting to start
      the crop.
    title: plant reproductive part
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001150
    multivalued: true
    alias: plant_reprod_crop
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    range: plant_reprod_crop_enum
    required: false
  samp_purpose:
    name: samp_purpose
    description: The reason that the sample was collected.
    title: purpose of sampling
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001151
    multivalued: false
    alias: samp_purpose
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  repository_name:
    name: repository_name
    description: The name of the institution where the sample or DNA extract is held
      or "sample not available" if the sample was used in its entirety for analysis
      or otherwise not retained.
    title: repository name
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001152
    multivalued: true
    alias: repository_name
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  samp_pooling:
    name: samp_pooling
    description: Physical combination of several instances of like material, e.g.
      RNA extracted from samples or dishes of cell cultures into one big aliquot of
      cells. Please provide a short description of the samples that were pooled.
    title: sample pooling
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001153
    multivalued: true
    alias: samp_pooling
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    range: string
    required: false
  samp_source_mat_cat:
    name: samp_source_mat_cat
    description: This is the scientific role or category that the subject organism
      or material has with respect to an investigation.  This field accepts terms
      listed under specimen source material category (http://purl.obolibrary.org/obo/GENEPIO_0001237
      or http://purl.obolibrary.org/obo/OBI_0100051).
    title: sample source material category
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0001154
    multivalued: false
    alias: samp_source_mat_cat
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  sequencing_kit:
    name: sequencing_kit
    description: Pre-filled, ready-to-use reagent cartridges. Used to produce improved
      chemistry, cluster density and read length as well as improve quality (Q) scores.
      Reagent components are encoded to interact with the sequencing system to validate
      compatibility with user-defined applications. Indicate name of the sequencing
      kit.
    title: sequencing kit
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001155
    multivalued: false
    alias: sequencing_kit
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  sequencing_location:
    name: sequencing_location
    description: The location the sequencing run was performed. Indicate the name
      of the lab or core facility where samples were sequenced.
    title: sequencing location
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001156
    multivalued: false
    alias: sequencing_location
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    range: string
    required: false
  serovar_or_serotype:
    name: serovar_or_serotype
    description: A characterization of a cell or microorganism based on the antigenic
      properties of the molecules on its surface. Indicate the name of a serovar or
      serotype of interest. This field accepts terms under organism (http://purl.obolibrary.org/obo/NCIT_C14250).
      This field also accepts identification numbers from NCBI under https://www.ncbi.nlm.nih.gov/taxonomy.
    title: serovar or serotype
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}|{integer}'
    slot_uri: MIXS:0001157
    multivalued: true
    alias: serovar_or_serotype
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  soil_conductivity:
    name: soil_conductivity
    description: Conductivity of soil at time of sampling.
    title: soil conductivity
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001158
    multivalued: false
    alias: soil_conductivity
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  soil_cover:
    name: soil_cover
    description: Description of the material covering the sampled soil. This field
      accepts terms under ENVO:00010483, environmental material.
    title: soil cover
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0001159
    multivalued: false
    alias: soil_cover
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - agriculture
    range: string
    required: false
  soil_pH:
    name: soil_pH
    description: The pH of soil at time of sampling.
    title: soil pH
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001160
    multivalued: false
    alias: soil_pH
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - agriculture
    range: double
    required: false
  rel_location:
    name: rel_location
    description: Location of sampled soil to other parts of the farm e.g. under crop
      plant, near irrigation ditch, from the dirt road.
    title: relative location of sample
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001161
    multivalued: false
    alias: rel_location
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - agriculture
    range: string
    required: false
  soil_porosity:
    name: soil_porosity
    description: Porosity of soil or deposited sediment is volume of voids divided
      by the total volume of sample.
    title: soil sediment porosity
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{percentage}'
    slot_uri: MIXS:0001162
    multivalued: false
    alias: soil_porosity
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    range: string
    required: false
  soil_temp:
    name: soil_temp
    description: Temperature of soil at the time of sampling.
    title: soil temperature
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{float}{unit}'
    slot_uri: MIXS:0001163
    multivalued: true
    alias: soil_temp
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - agriculture
    range: string
    required: false
  soil_texture_class:
    name: soil_texture_class
    description: One of the 12 soil texture classes use to describe soil texture based
      on the relative proportion of different grain sizes  of mineral particles [sand
      (50 um to 2 mm), silt (2 um to 50 um), and clay (<2 um)] in a soil.
    title: soil texture classification
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001164
    multivalued: false
    alias: soil_texture_class
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    range: soil_texture_class_enum
    required: false
  soil_texture_meth:
    name: soil_texture_meth
    description: Reference or method used in determining soil texture
    title: soil texture method
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{PMID}|{DOI}|{URL}'
    slot_uri: MIXS:0000336
    multivalued: false
    alias: soil_texture_meth
    owner: food-farm environment MIGS org
    domain_of:
    - soil
    - food-farm environment
    range: string
    required: false
  soil_type:
    name: soil_type
    description: Description of the soil type or classification. This field accepts
      terms under soil (http://purl.obolibrary.org/obo/ENVO_00001998).  Multiple terms
      can be separated by pipes.
    title: soil type
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0000332
    multivalued: false
    alias: soil_type
    owner: food-farm environment MIGS org
    domain_of:
    - soil
    - food-farm environment
    - agriculture
    range: string
    required: false
  spikein_org:
    name: spikein_org
    description: Taxonomic information about the spike-in organism(s). This field
      accepts terms under organism (http://purl.obolibrary.org/obo/NCIT_C14250). This
      field also accepts identification numbers from NCBI under https://www.ncbi.nlm.nih.gov/taxonomy.
      Multiple terms can be separated by pipes.
    title: spike in organism
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}|{integer}'
    slot_uri: MIXS:0001167
    multivalued: true
    alias: spikein_org
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  spikein_serovar:
    name: spikein_serovar
    description: Taxonomic information about the spike-in organism(s) at the serovar
      or serotype level. This field accepts terms under organism (http://purl.obolibrary.org/obo/NCIT_C14250).
      This field also accepts identification numbers from NCBI under https://www.ncbi.nlm.nih.gov/taxonomy.
      Multiple terms can be separated by pipes.
    title: spike-in bacterial serovar or serotype
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}|{integer}'
    slot_uri: MIXS:0001168
    multivalued: true
    alias: spikein_serovar
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  spikein_growth_med:
    name: spikein_growth_med
    description: A liquid or gel containing nutrients, salts, and other factors formulated
      to support the growth of microorganisms, cells, or plants (National Cancer Institute
      Thesaurus).  A growth medium is a culture medium which has the disposition to
      encourage growth of particular bacteria to the exclusion of others in the same
      growth environment.  In this case, list the culture medium used to propagate
      the spike-in bacteria during preparation of spike-in inoculum. This field accepts
      terms listed under microbiological culture medium (http://purl.obolibrary.org/obo/MICRO_0000067).
      If the proper descriptor is not listed please use text to describe the spike
      in growth media.
    title: spike-in growth medium
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001169
    multivalued: true
    alias: spikein_growth_med
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  spikein_strain:
    name: spikein_strain
    description: Taxonomic information about the spike-in organism(s) at the strain
      level. This field accepts terms under organism (http://purl.obolibrary.org/obo/NCIT_C14250).
      This field also accepts identification numbers from NCBI under https://www.ncbi.nlm.nih.gov/taxonomy.
      Multiple terms can be separated by pipes.
    title: spike-in microbial strain
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}|{integer}'
    slot_uri: MIXS:0001170
    multivalued: true
    alias: spikein_strain
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    range: string
    required: false
  spikein_antibiotic:
    name: spikein_antibiotic
    description: Antimicrobials used in research study to assess effects of exposure
      on microbiome of a specific site.  Please list antimicrobial, common name and/or
      class and concentration used for spike-in.
    title: spike-in with antibiotics
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text} {integer}'
    slot_uri: MIXS:0001171
    multivalued: true
    alias: spikein_antibiotic
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  spikein_metal:
    name: spikein_metal
    description: Heavy metals used in research study to assess effects of exposure
      on microbiome of a specific site.  Please list heavy metals and concentration
      used for spike-in.
    title: spike-in with heavy metals
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text} {integer}'
    slot_uri: MIXS:0001172
    multivalued: true
    alias: spikein_metal
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  timepoint:
    name: timepoint
    description: Time point at which a sample or observation is made or taken from
      a biomaterial as measured from some reference point. Indicate the timepoint
      written in ISO 8601 format.
    title: timepoint
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001173
    multivalued: false
    alias: timepoint
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: double
    required: false
  water_frequency:
    name: water_frequency
    description: Number of water delivery events within a given period of time.
    title: water delivery frequency
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{float}{unit}'
    slot_uri: MIXS:0001174
    multivalued: false
    alias: water_frequency
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    range: string
    required: false
  water_pH:
    name: water_pH
    description: pH measurement of the sample, or liquid portion of sample, or aqueous
      phase of the fluid.
    title: water pH
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001175
    multivalued: false
    alias: water_pH
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - agriculture
    range: double
    required: false
  water_source_shared:
    name: water_source_shared
    description: Other users sharing access to the same water source. Multiple terms
      can be separated by one or more pipes.
    title: water source shared
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001176
    multivalued: true
    alias: water_source_shared
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - agriculture
    range: water_source_shared_enum
    required: false
  enrichment_protocol:
    name: enrichment_protocol
    description: The microbiological workflow or protocol followed to test for the
      presence or enumeration of the target microbial analyte(s). Please provide a
      PubMed or DOI reference for published protocols.
    title: enrichment protocol
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{PMID}|{DOI}|{URL}|{text}'
    slot_uri: MIXS:0001177
    multivalued: false
    alias: enrichment_protocol
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    range: string
    required: false
  food_quality_date:
    name: food_quality_date
    description: The date recommended for the use of the product while at peak quality,
      this date is not a reflection of safety unless used on infant formula this date
      is not a reflection of safety and is typically labeled on a food product as
      "best if used by," best by," "use by," or "freeze by."
    title: food quality date
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001178
    multivalued: false
    alias: food_quality_date
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
    pattern: ^(best by|best if used by|freeze by||use by);(19|20)\d\d-(0[1-9]|1[012])-(0[1-9]|[12][0-9]|3[01])$
  IFSAC_category:
    name: IFSAC_category
    description: 'The IFSAC food categorization scheme has five distinct levels to
      which foods can be assigned, depending upon the type of food. First, foods are
      assigned to one of four food groups (aquatic animals, land animals, plants,
      and other). Food groups include increasingly specific food categories; dairy,
      eggs, meat and poultry, and game are in the land animal food group, and the
      category meat and poultry is further subdivided into more specific categories
      of meat (beef, pork, other meat) and poultry (chicken, turkey, other poultry).
      Finally, foods are differentiated by differences in food processing (such as
      pasteurized fluid dairy products, unpasteurized fluid dairy products, pasteurized
      solid and semi-solid dairy products, and unpasteurized solid and semi-solid
      dairy products. An IFSAC food category chart is available from https://www.cdc.gov/foodsafety/ifsac/projects/food-categorization-scheme.html
      PMID: 28926300.'
    title: Interagency Food Safety Analytics Collaboration (IFSAC) category
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001179
    multivalued: true
    alias: IFSAC_category
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: true
  animal_housing:
    name: animal_housing
    description: Description of the housing system of the livestock. This field accepts
      terms listed under terrestrial management housing system (http://opendata.inra.fr/EOL/EOL_0001605).
    title: animal housing system
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0001180
    multivalued: true
    alias: animal_housing
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  cult_isol_date:
    name: cult_isol_date
    description: A culture isolation date is a date-time entity marking the end of
      a process in which a sample yields a positive result for the target microbial
      analyte(s) in the form of an isolated colony or colonies.
    title: culture isolation date
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001181
    multivalued: false
    alias: cult_isol_date
    owner: food-farm environment MIGS org
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    range: date
    required: false
  food_clean_proc:
    name: food_clean_proc
    description: The process of cleaning food to separate other environmental materials
      from the food source. Multiple terms can be separated by pipes.
    title: food cleaning process
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001182
    multivalued: true
    alias: food_clean_proc
    owner: food-farm environment MIGS org
    domain_of:
    - food-farm environment
    range: food_clean_proc_enum
    required: false
  misc_param:
    name: misc_param
    description: Any other measurement performed or parameter collected, that is not
      listed here
    title: miscellaneous parameter
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000752
    multivalued: true
    alias: misc_param
    owner: food-farm environment MIGS org
    domain_of:
    - water
    - wastewater_sludge
    - symbiont-associated
    - soil
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - air
    - agriculture
    range: string
    required: false