Class: Food-animalAndAnimalFeedMIGSPlant

Combinatorial checklist Minimal Information about a Genome Sequence: plant with environmental package food-animal and animal feed

URI: MIXS:Food-animalAndAnimalFeedMIGSPlant

Inheritance

• Food-animalAndAnimalFeed
  • Food-animalAndAnimalFeedMIGSPlant [ MIGSPlant]

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...	MIGSPlant
samp_taxon_id	1..1 String	NCBI taxon id of the sample	MIGSPlant
project_name	1..1 String	Name of the project within which the sequencing was organized	MIGSPlant
experimental_factor	0..1 String	Experimental factors are essentially the variable aspects of an experiment de...	MIGSPlant
lat_lon	1..1 String	The geographical origin of the sample as defined by latitude and longitude	Food-animalAndAnimalFeed, MIGSPlant
geo_loc_name	1..1 String	The geographical origin of the sample as defined by the country or sea name f...	Food-animalAndAnimalFeed, MIGSPlant
collection_date	1..1 Date	The time of sampling, either as an instance (single point in time) or interva...	Food-animalAndAnimalFeed, MIGSPlant
neg_cont_type	0..1 recommended NegContTypeEnum	The substance or equipment used as a negative control in an investigation	MIGSPlant
pos_cont_type	0..1 recommended String	The substance, mixture, product, or apparatus used to verify that a process w...	MIGSPlant
env_broad_scale	1..1 String	Report the major environmental system the sample or specimen came from	Food-animalAndAnimalFeed, MIGSPlant
env_local_scale	1..1 String	Report the entity or entities which are in the sample or specimen’s local vic...	Food-animalAndAnimalFeed, MIGSPlant
env_medium	1..1 String	Report the environmental material(s) immediately surrounding the sample or sp...	Food-animalAndAnimalFeed, MIGSPlant
subspecf_gen_lin	0..1 recommended String	Information about the genetic distinctness of the sequenced organism below th...	MIGSPlant
estimated_size	0..1 String	The estimated size of the genome prior to sequencing	MIGSPlant
ref_biomaterial	0..1 String	Primary publication if isolated before genome publication; otherwise, primary...	MIGSPlant
source_mat_id	0..1 recommended String	A unique identifier assigned to a material sample (as defined by http://rs	MIGSPlant
specific_host	0..1 recommended String	Report the host's taxonomic name and/or NCBI taxonomy ID	MIGSPlant
host_spec_range	0..1 Integer	The range and diversity of host species that an organism is capable of infect...	MIGSPlant
propagation	1..1 String	The type of reproduction from the parent stock	MIGSPlant
encoded_traits	0..1 recommended String	Should include key traits like antibiotic resistance or xenobiotic degradatio...	MIGSPlant
isol_growth_condt	1..1 String	Publication reference in the form of pubmed ID (pmid), digital object identif...	MIGSPlant
samp_collec_device	0..1 String	The device used to collect an environmental sample	MIGSPlant
samp_collec_method	0..1 String	The method employed for collecting the sample	MIGSPlant
samp_mat_process	0..1 String	A brief description of any processing applied to the sample during or after r...	MIGSPlant
samp_size	0..1 QuantityValue	The total amount or size (volume (ml), mass (g) or area (m2) ) of sample coll...	MIGSPlant
samp_vol_we_dna_ext	0..1 QuantityValue	Volume (ml) or mass (g) of total collected sample processed for DNA extractio...	MIGSPlant
nucl_acid_ext	0..1 recommended String	A link to a literature reference, electronic resource or a standard operating...	MIGSPlant
nucl_acid_amp	0..1 recommended String	A link to a literature reference, electronic resource or a standard operating...	MIGSPlant
lib_size	0..1 Integer	Total number of clones in the library prepared for the project	MIGSPlant
lib_reads_seqd	0..1 Integer	Total number of clones sequenced from the library	MIGSPlant
lib_layout	0..1 LibLayoutEnum	Specify whether to expect single, paired, or other configuration of reads	MIGSPlant
lib_vector	0..1 String	Cloning vector type(s) used in construction of libraries	MIGSPlant
lib_screen	0..1 String	Specific enrichment or screening methods applied before and/or after creating...	MIGSPlant
adapters	0..1 recommended String	Adapters provide priming sequences for both amplification and sequencing of t...	MIGSPlant
seq_meth	1..1 String	Sequencing machine used	MIGSPlant
tax_ident	0..1 recommended TaxIdentEnum	The phylogenetic marker(s) used to assign an organism name to the SAG or MAG	MIGSPlant
assembly_qual	0..1 AssemblyQualEnum	The assembly quality category is based on sets of criteria outlined for each ...	MIGSPlant
assembly_name	0..1 recommended String	Name/version of the assembly provided by the submitter that is used in the ge...	MIGSPlant
assembly_software	1..1 String	Tool(s) used for assembly, including version number and parameters	MIGSPlant
annot	0..1 recommended String	Tool used for annotation, or for cases where annotation was provided by a com...	MIGSPlant
number_contig	0..1 Integer	Total number of contigs in the cleaned/submitted assembly that makes up a giv...	MIGSPlant
feat_pred	0..1 String	Method used to predict UViGs features such as ORFs, integration site, etc	MIGSPlant
ref_db	0..1 String	List of database(s) used for ORF annotation, along with version number and re...	MIGSPlant
sim_search_meth	0..1 String	Tool used to compare ORFs with database, along with version and cutoffs used	MIGSPlant
tax_class	0..1 String	Method used for taxonomic classification, along with reference database used,...	MIGSPlant
compl_score	0..1 String	Completeness score is typically based on either the fraction of markers found...	MIGSPlant
compl_software	0..1 String	Tools used for completion estimate, i	MIGSPlant
associated_resource	0..1 recommended String	A related resource that is referenced, cited, or otherwise associated to the ...	MIGSPlant
sop	0..1 recommended String	Standard operating procedures used in assembly and/or annotation of genomes, ...	MIGSPlant
depth	0..1 QuantityValue	The vertical distance below local surface, e	Food-animalAndAnimalFeed
alt	0..1 QuantityValue	Altitude is a term used to identify heights of objects such as airplanes, spa...	Food-animalAndAnimalFeed
elev	0..1 QuantityValue	Elevation of the sampling site is its height above a fixed reference point, m...	Food-animalAndAnimalFeed
temp	0..1 QuantityValue	Temperature of the sample at the time of sampling	Food-animalAndAnimalFeed
samp_collect_device	0..1 String	The device used to collect an environmental sample	Food-animalAndAnimalFeed
organism_count	0..* OrganismCountEnum	Total cell count of any organism (or group of organisms) per gram, volume or ...	Food-animalAndAnimalFeed
spikein_count	0..1 SpikeinCountEnum	Total cell count of any organism (or group of organisms) per gram, volume or ...	Food-animalAndAnimalFeed
samp_stor_temp	0..1 QuantityValue	Temperature at which sample was stored, e	Food-animalAndAnimalFeed
samp_stor_dur	0..1 String	Duration for which the sample was stored	Food-animalAndAnimalFeed
pool_dna_extracts	0..1 String	Indicate whether multiple DNA extractions were mixed	Food-animalAndAnimalFeed
samp_stor_loc	0..1 String	Location at which sample was stored, usually name of a specific freezer/room	Food-animalAndAnimalFeed
samp_transport_cont	0..1 SampTransportContEnum	Conatiner in which the sample was stored during transport	Food-animalAndAnimalFeed
perturbation	0..* String	Type of perturbation, e	Food-animalAndAnimalFeed
coll_site_geo_feat	1..1 String	Text or terms that describe the geographic feature where the food sample was ...	Food-animalAndAnimalFeed
food_origin	1..1 String	A reference to a place on the Earth, by its name or by its geographical locat...	Food-animalAndAnimalFeed
food_prod	1..* String	Descriptors of the food production system or of the agricultural environment ...	Food-animalAndAnimalFeed
food_product_type	1..* String	A food product type is a class of food products that is differentiated by its...	Food-animalAndAnimalFeed
food_source	0..1 String	Type of plant or animal from which the food product or its major ingredient i...	Food-animalAndAnimalFeed
IFSAC_category	1..* String	The IFSAC food categorization scheme has five distinct levels to which foods ...	Food-animalAndAnimalFeed
intended_consumer	1..* String	Food consumer type, human or animal, for which the food product is produced a...	Food-animalAndAnimalFeed
samp_purpose	1..1 String	The reason that the sample was collected	Food-animalAndAnimalFeed
animal_am	0..1 String	The name(s) (generic or brand) of the antimicrobial(s) given to the food anim...	Food-animalAndAnimalFeed
animal_am_dur	0..1 String	The duration of time (days) that the antimicrobial was administered to the fo...	Food-animalAndAnimalFeed
animal_am_freq	0..1 QuantityValue	The frequency per day that the antimicrobial was adminstered to the food anim...	Food-animalAndAnimalFeed
animal_am_route	0..1 String	The route by which the antimicrobial is adminstered into the body of the food...	Food-animalAndAnimalFeed
animal_am_use	0..1 String	The prescribed intended use of or the condition treated by the antimicrobial ...	Food-animalAndAnimalFeed
animal_body_cond	0..1 AnimalBodyCondEnum	Body condition scoring is a production management tool used to evaluate overa...	Food-animalAndAnimalFeed
animal_diet	0..* String	If the isolate is from a food animal, the type of diet eaten by the food anim...	Food-animalAndAnimalFeed
animal_feed_equip	0..* String	Description of the feeding equipment used for livestock	Food-animalAndAnimalFeed
animal_group_size	0..1 Integer	The number of food animals of the same species that are maintained together a...	Food-animalAndAnimalFeed
animal_housing	0..* String	Description of the housing system of the livestock	Food-animalAndAnimalFeed
animal_sex	0..1 AnimalSexEnum	The sex and reproductive status of the food animal	Food-animalAndAnimalFeed
bacterial_density	0..1 QuantityValue	Number of bacteria in sample, as defined by bacteria density (http://purl	Food-animalAndAnimalFeed
cons_food_stor_dur	0..1 String	The storage duration of the food commodity by the consumer, prior to onset of...	Food-animalAndAnimalFeed
cons_food_stor_temp	0..1 String	Temperature at which food commodity was stored by the consumer, prior to onse...	Food-animalAndAnimalFeed
cons_purch_date	0..1 Date	The date a food product was purchased by consumer	Food-animalAndAnimalFeed
cons_qty_purchased	0..1 String	The quantity of food purchased by consumer	Food-animalAndAnimalFeed
cult_isol_date	0..1 Date	A culture isolation date is a date-time entity marking the end of a process i...	Food-animalAndAnimalFeed
cult_result	0..1 CultResultEnum	Any result of a bacterial culture experiment reported as a binary assessment ...	Food-animalAndAnimalFeed
cult_result_org	0..* String	Taxonomic information about the cultured organism(s)	Food-animalAndAnimalFeed
cult_target	0..* String	The target microbial analyte in terms of investigation scope	Food-animalAndAnimalFeed
enrichment_protocol	0..1 String	The microbiological workflow or protocol followed to test for the presence or...	Food-animalAndAnimalFeed
food_additive	0..* String	A substance or substances added to food to maintain or improve safety and fre...	Food-animalAndAnimalFeed
food_contact_surf	0..* String	The specific container or coating materials in direct contact with the food	Food-animalAndAnimalFeed
food_contain_wrap	0..1 String	Type of container or wrapping defined by the main container material, the con...	Food-animalAndAnimalFeed
food_cooking_proc	0..* String	The transformation of raw food by the application of heat	Food-animalAndAnimalFeed
food_dis_point	0..* String	A reference to a place on the Earth, by its name or by its geographical locat...	Food-animalAndAnimalFeed
food_dis_point_city	0..1 String	A reference to a place on the Earth, by its name or by its geographical locat...	Food-animalAndAnimalFeed
food_ingredient	0..* String	In this field, please list individual ingredients for multi-component food [F...	Food-animalAndAnimalFeed
food_pack_capacity	0..1 QuantityValue	The maximum number of product units within a package	Food-animalAndAnimalFeed
food_pack_integrity	0..* String	A term label and term id to describe the state of the packing material and te...	Food-animalAndAnimalFeed
food_pack_medium	0..* String	The medium in which the food is packed for preservation and handling or the m...	Food-animalAndAnimalFeed
food_preserv_proc	0..* String	The methods contributing to the prevention or retardation of microbial, enzym...	Food-animalAndAnimalFeed
food_prior_contact	0..* String	The material the food contacted (e	Food-animalAndAnimalFeed
food_prod_synonym	0..* String	Other names by which the food product is known by (e	Food-animalAndAnimalFeed
food_product_qual	0..1 String	Descriptors for describing food visually or via other senses, which is useful...	Food-animalAndAnimalFeed
food_quality_date	0..1 String	The date recommended for the use of the product while at peak quality, this d...	Food-animalAndAnimalFeed
food_source_age	0..1 QuantityValue	The age of the food source host organim	Food-animalAndAnimalFeed
food_trace_list	0..1 FoodTraceListEnum	The FDA is proposing to establish additional traceability recordkeeping requi...	Food-animalAndAnimalFeed
food_trav_mode	0..* String	A descriptor for the method of movement of food commodity along the food dist...	Food-animalAndAnimalFeed
food_trav_vehic	0..* String	A descriptor for the mobile machine which is used to transport food commoditi...	Food-animalAndAnimalFeed
food_treat_proc	0..* String	Used to specifically characterize a food product based on the treatment or pr...	Food-animalAndAnimalFeed
HACCP_term	0..* String	Hazard Analysis Critical Control Points (HACCP) food safety terms; This field...	Food-animalAndAnimalFeed
library_prep_kit	0..1 String	Packaged kits (containing adapters, indexes, enzymes, buffers etc	Food-animalAndAnimalFeed
lot_number	0..* String	A distinctive alpha-numeric identification code assigned by the manufacturer ...	Food-animalAndAnimalFeed
microb_cult_med	0..1 String	A culture medium used to select for, grow, and maintain prokaryotic microorga...	Food-animalAndAnimalFeed
part_plant_animal	0..* String	The anatomical part of the organism being involved in food production or cons...	Food-animalAndAnimalFeed
repository_name	0..* String	The name of the institution where the sample or DNA extract is held or "sampl...	Food-animalAndAnimalFeed
samp_collect_method	0..1 String	The method employed for collecting the sample	Food-animalAndAnimalFeed
samp_pooling	0..* String	Physical combination of several instances of like material, e	Food-animalAndAnimalFeed
samp_rep_biol	0..1 QuantityValue	Measurements of biologically distinct samples that show biological variation	Food-animalAndAnimalFeed
samp_rep_tech	0..1 QuantityValue	Repeated measurements of the same sample that show independent measures of th...	Food-animalAndAnimalFeed
samp_source_mat_cat	0..1 String	This is the scientific role or category that the subject organism or material...	Food-animalAndAnimalFeed
samp_stor_device	0..1 String	The container used to store the sample	Food-animalAndAnimalFeed
samp_stor_media	0..1 String	The liquid that is added to the sample collection device prior to sampling	Food-animalAndAnimalFeed
samp_transport_dur	0..1 QuantityValue	The duration of time from when the sample was collected until processed	Food-animalAndAnimalFeed
samp_transport_temp	0..1 String	Temperature at which sample was transported, e	Food-animalAndAnimalFeed
sequencing_kit	0..1 String	Pre-filled, ready-to-use reagent cartridges	Food-animalAndAnimalFeed
sequencing_location	0..1 String	The location the sequencing run was performed	Food-animalAndAnimalFeed
serovar_or_serotype	0..* String	A characterization of a cell or microorganism based on the antigenic properti...	Food-animalAndAnimalFeed
spikein_AMR	0..* String	Qualitative description of a microbial response to antimicrobial agents	Food-animalAndAnimalFeed
spikein_antibiotic	0..* String	Antimicrobials used in research study to assess effects of exposure on microb...	Food-animalAndAnimalFeed
spikein_growth_med	0..* String	A liquid or gel containing nutrients, salts, and other factors formulated to ...	Food-animalAndAnimalFeed
spikein_metal	0..* String	Heavy metals used in research study to assess effects of exposure on microbio...	Food-animalAndAnimalFeed
spikein_org	0..* String	Taxonomic information about the spike-in organism(s)	Food-animalAndAnimalFeed
spikein_serovar	0..* String	Taxonomic information about the spike-in organism(s) at the serovar or seroty...	Food-animalAndAnimalFeed
spikein_strain	0..* String	Taxonomic information about the spike-in organism(s) at the strain level	Food-animalAndAnimalFeed
study_design	0..* String	A plan specification comprised of protocols (which may specify how and what k...	Food-animalAndAnimalFeed
study_inc_dur	0..1 QuantityValue	Sample incubation duration if unpublished or unvalidated method is used	Food-animalAndAnimalFeed
study_inc_temp	0..1 QuantityValue	Sample incubation temperature if unpublished or unvalidated method is used	Food-animalAndAnimalFeed
study_timecourse	0..1 QuantityValue	For time-course research studies involving samples of the food commodity, ind...	Food-animalAndAnimalFeed
study_tmnt	0..* String	A process in which the act is intended to modify or alter some other material...	Food-animalAndAnimalFeed
timepoint	0..1 Double	Time point at which a sample or observation is made or taken from a biomateri...	Food-animalAndAnimalFeed
misc_param	0..* String	Any other measurement performed or parameter collected, that is not listed he...	Food-animalAndAnimalFeed

Identifier and Mapping Information

Schema Source

• from schema: http://w3id.org/mixs

Mappings

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

LinkML Source

Direct

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

Induced

name: food-animal and animal feed MIGS plant
description: 'Combinatorial checklist Minimal Information about a Genome Sequence:
  plant with environmental package food-animal and animal feed'
from_schema: http://w3id.org/mixs
is_a: food-animal and animal feed
mixins:
- MIGS plant
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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMARKS survey
    range: string
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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
  specific_host:
    name: specific_host
    description: Report the host's taxonomic name and/or NCBI taxonomy ID.
    title: host scientific name
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    string_serialization: '{text}|{NCBI taxid}'
    slot_uri: MIXS:0000029
    multivalued: false
    alias: specific_host
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIUVIG
    range: string
    recommended: true
  host_spec_range:
    name: host_spec_range
    description: The range and diversity of host species that an organism is capable
      of infecting, defined by NCBI taxonomy identifier.
    title: host specificity or range
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    slot_uri: MIXS:0000030
    multivalued: false
    alias: host_spec_range
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIUVIG
    range: integer
    required: false
  propagation:
    name: propagation
    description: 'The type of reproduction from the parent stock. Values for this
      field is specific to different taxa. For phage or virus: lytic/lysogenic/temperate/obligately
      lytic. For plasmids: incompatibility group. For eukaryotes: sexual/asexual.'
    title: propagation
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    string_serialization: '{text}'
    slot_uri: MIXS:0000033
    multivalued: false
    alias: propagation
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS plant
    - MIGS virus
    range: string
    required: true
  encoded_traits:
    name: encoded_traits
    description: Should include key traits like antibiotic resistance or xenobiotic
      degradation phenotypes for plasmids, converting genes for phage
    title: encoded traits
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    string_serialization: '{text}'
    slot_uri: MIXS:0000034
    multivalued: false
    alias: encoded_traits
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - core
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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
    annotations:
      expected_value:
        tag: expected_value
        value: measurement value
    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
    examples:
    - value: 10 meter
    from_schema: http://w3id.org/mixs
    aliases:
    - depth
    is_a: environment field
    slot_uri: MIXS:0000018
    multivalued: false
    alias: depth
    owner: food-animal and animal feed MIGS plant
    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
  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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    range: string
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  pool_dna_extracts:
    name: pool_dna_extracts
    description: Indicate whether multiple DNA extractions were mixed. If the answer
      yes, the number of extracts that were pooled should be given
    title: pooling of DNA extracts (if done)
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{boolean};{integer}'
    slot_uri: MIXS:0000325
    multivalued: false
    alias: pool_dna_extracts
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - soil
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    - agriculture
    range: string
    required: false
  samp_stor_loc:
    name: samp_stor_loc
    description: Location at which sample was stored, usually name of a specific freezer/room.
      Indicate the location name.
    title: sample storage location
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000755
    multivalued: false
    alias: samp_stor_loc
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: string
    required: false
  samp_transport_cont:
    name: samp_transport_cont
    description: Conatiner in which the sample was stored during transport. Indicate
      the location name.
    title: sample transport  container
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001230
    multivalued: false
    alias: samp_transport_cont
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: samp_transport_cont_enum
    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-animal and animal feed MIGS plant
    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
  coll_site_geo_feat:
    name: coll_site_geo_feat
    description: 'Text or terms that describe the geographic feature where the food
      sample was obtained by the researcher. This field accepts selected terms listed
      under the following ontologies: anthropogenic geographic feature (http://purl.obolibrary.org/obo/ENVO_00000002),
      for example agricultural fairground [ENVO:01000986]; garden [ENVO:00000011}
      or any of its subclasses; market [ENVO:01000987]; water well [ENVO:01000002];
      or human construction (http://purl.obolibrary.org/obo/ENVO_00000070).'
    title: collection site geographic feature
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001183
    multivalued: false
    alias: coll_site_geo_feat
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: string
    required: true
  food_origin:
    name: food_origin
    description: A reference to a place on the Earth, by its name or by its geographical
      location that describes the origin of the food commodity, either in terms of
      its cultivation or production. This field accepts terms listed under geographic
      location (http://purl.obolibrary.org/obo/GAZ_00000448).
    title: food product origin geographic location
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{term}: {term}, {text}'
    slot_uri: MIXS:0001207
    multivalued: false
    alias: food_origin
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: string
    required: true
  food_prod:
    name: food_prod
    description: Descriptors of the food production system or of the agricultural
      environment and growing conditions related to the farm production system, such
      as wild caught, organic, free-range, industrial, dairy, beef,  domestic or cultivated
      food production. This field accepts terms listed under food production (http://purl.obolibrary.org/obo/FOODON_03530206).
      Multiple terms may apply and can be separated by pipes.
    title: food production system characteristics
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0001211
    multivalued: true
    alias: food_prod
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    - agriculture
    range: string
    required: true
  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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: true
  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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: true
  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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: true
  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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: true
  animal_am:
    name: animal_am
    description: The name(s) (generic or brand) of the antimicrobial(s) given to the
      food animal within the last 30 days.
    title: food animal antimicrobial
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001243
    multivalued: false
    alias: animal_am
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-animal and animal feed
    range: string
    required: false
  animal_am_dur:
    name: animal_am_dur
    description: The duration of time (days) that the antimicrobial was administered
      to the food animal.
    title: food animal antimicrobial duration
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{float} {day}'
    slot_uri: MIXS:0001244
    multivalued: false
    alias: animal_am_dur
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-animal and animal feed
    range: string
    required: false
  animal_am_freq:
    name: animal_am_freq
    description: The frequency per day that the antimicrobial was adminstered to the
      food animal.
    title: food animal antimicrobial frequency
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001245
    multivalued: false
    alias: animal_am_freq
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-animal and animal feed
    range: quantity value
    required: false
  animal_am_route:
    name: animal_am_route
    description: The route by which the antimicrobial is adminstered into the body
      of the food animal.
    title: food animal antimicrobial route of administration
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001246
    multivalued: false
    alias: animal_am_route
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-animal and animal feed
    range: string
    required: false
  animal_am_use:
    name: animal_am_use
    description: The prescribed intended use of or the condition treated by the antimicrobial
      given to the food animal by any route of administration.
    title: food animal antimicrobial intended use
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001247
    multivalued: false
    alias: animal_am_use
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-animal and animal feed
    range: string
    required: false
  animal_body_cond:
    name: animal_body_cond
    description: Body condition scoring is a production management tool used to evaluate
      overall health and nutritional needs of a food animal. Because there are different
      scoring systems, this field is restricted to three categories.
    title: food animal body condition
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001248
    multivalued: false
    alias: animal_body_cond
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-animal and animal feed
    range: animal_body_cond_enum
    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-animal and animal feed MIGS plant
    domain_of:
    - food-farm environment
    - food-animal and animal feed
    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-animal and animal feed MIGS plant
    domain_of:
    - food-farm environment
    - food-animal and animal feed
    range: string
    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-animal and animal feed MIGS plant
    domain_of:
    - food-farm environment
    - food-animal and animal feed
    range: integer
    required: false
  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-animal and animal feed MIGS plant
    domain_of:
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  animal_sex:
    name: animal_sex
    description: The sex and reproductive status of the food animal.
    title: food animal source sex category
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001249
    multivalued: false
    alias: animal_sex
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-animal and animal feed
    range: animal_sex_enum
    required: false
  bacterial_density:
    name: bacterial_density
    description: Number of bacteria in sample, as defined by bacteria density (http://purl.obolibrary.org/obo/GENEPIO_0000043).
    title: bacteria density
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001194
    multivalued: false
    alias: bacterial_density
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: quantity value
    required: false
  cons_food_stor_dur:
    name: cons_food_stor_dur
    description: The storage duration of the food commodity by the consumer, prior
      to onset of illness or sample collection.  Indicate the timepoint written in
      ISO 8601 format.
    title: food stored by consumer (storage duration)
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{duration}'
    slot_uri: MIXS:0001195
    multivalued: false
    alias: cons_food_stor_dur
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-animal and animal feed
    range: string
    required: false
  cons_food_stor_temp:
    name: cons_food_stor_temp
    description: Temperature at which food commodity was stored by the consumer, prior
      to onset of illness or sample collection.
    title: food stored by consumer (storage temperature)
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{float} {unit}|{text}'
    slot_uri: MIXS:0001196
    multivalued: false
    alias: cons_food_stor_temp
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-animal and animal feed
    range: string
    required: false
  cons_purch_date:
    name: cons_purch_date
    description: The date a food product was purchased by consumer.
    title: purchase date
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001197
    multivalued: false
    alias: cons_purch_date
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-animal and animal feed
    range: date
    required: false
  cons_qty_purchased:
    name: cons_qty_purchased
    description: The quantity of food purchased by consumer.
    title: quantity purchased
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{integer} {unit}'
    slot_uri: MIXS:0001198
    multivalued: false
    alias: cons_qty_purchased
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - 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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    range: date
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    range: string
    required: false
  food_additive:
    name: food_additive
    description: A substance or substances added to food to maintain or improve safety
      and freshness, to improve or maintain nutritional value, or improve taste, texture
      and appearance.  This field accepts terms listed under food additive (http://purl.obolibrary.org/obo/FOODON_03412972).
      Multiple terms can be separated by one or more pipes, but please consider limiting
      this list to the top 5 ingredients listed in order as on the food label.  See
      also, https://www.fda.gov/food/food-ingredients-packaging/overview-food-ingredients-additives-colors.
    title: food additive
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001200
    multivalued: true
    alias: food_additive
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - 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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  food_cooking_proc:
    name: food_cooking_proc
    description: The transformation of raw food by the application of heat. This field
      accepts terms listed under food cooking (http://purl.obolibrary.org/obo/FOODON_03450002).
    title: food cooking process
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001202
    multivalued: true
    alias: food_cooking_proc
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: string
    required: false
  food_dis_point:
    name: food_dis_point
    description: 'A reference to a place on the Earth, by its name or by its geographical
      location that refers to a distribution point along the food chain. This field
      accepts terms listed under geographic location (http://purl.obolibrary.org/obo/GAZ_00000448).
      Reference: Adam Diamond, James Barham. Moving Food Along the Value Chain: Innovations
      in Regional Food Distribution. U.S. Dept. of Agriculture, Agricultural Marketing
      Service. Washington, DC. March 2012. http://dx.doi.org/10.9752/MS045.03-2012.'
    title: food distribution point geographic location
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{term}: {term}, {text}'
    slot_uri: MIXS:0001203
    multivalued: true
    alias: food_dis_point
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: string
    required: false
  food_dis_point_city:
    name: food_dis_point_city
    description: 'A reference to a place on the Earth, by its name or by its geographical
      location that refers to a distribution point along the food chain. This field
      accepts terms listed under geographic location (http://purl.obolibrary.org/obo/GAZ_00000448).
      Reference: Adam Diamond, James Barham. Moving Food Along the Value Chain: Innovations
      in Regional Food Distribution. U.S. Dept. of Agriculture, Agricultural Marketing
      Service. Washington, DC. March 2012. http://dx.doi.org/10.9752/MS045.03-2012.'
    title: food distribution point geographic location (city)
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001204
    multivalued: false
    alias: food_dis_point_city
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-food production facility
    - food-animal and animal feed
    range: string
    required: false
  food_ingredient:
    name: food_ingredient
    description: In this field, please list individual ingredients for multi-component
      food [FOODON:00002501] and simple foods that is not captured in food_type.  Please
      use terms that are present in FoodOn.  Multiple terms can be separated by one
      or more pipes |, but please consider limiting this list to the top 5 ingredients
      listed in order as on the food label.  See also, https://www.fda.gov/food/food-ingredients-packaging/overview-food-ingredients-additives-colors.
    title: food ingredient
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001205
    multivalued: true
    alias: food_ingredient
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: string
    required: false
  food_pack_capacity:
    name: food_pack_capacity
    description: The maximum number of product units within a package
    title: food package capacity
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001208
    multivalued: false
    alias: food_pack_capacity
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: quantity value
    required: false
  food_pack_integrity:
    name: food_pack_integrity
    description: A term label and term id to describe the state of the packing material
      and text to explain the exact condition.  This field accepts terms listed under
      food packing medium integrity (http://purl.obolibrary.org/obo/FOODON_03530218).
    title: food packing medium integrity
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001209
    multivalued: true
    alias: food_pack_integrity
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  food_prior_contact:
    name: food_prior_contact
    description: The material the food contacted (e.g., was processed in) prior to
      packaging. This field accepts terms listed under material of contact prior to
      food packaging (http://purl.obolibrary.org/obo/FOODON_03530077). If the proper
      descriptor is not listed please use text to describe the material of contact
      prior to food packaging.
    title: material of contact prior to food packaging
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001210
    multivalued: true
    alias: food_prior_contact
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: string
    required: false
  food_prod_synonym:
    name: food_prod_synonym
    description: Other names by which the food product is known by (e.g., regional
      or non-English names).
    title: food product synonym
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001212
    multivalued: true
    alias: food_prod_synonym
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: string
    required: false
  food_product_qual:
    name: food_product_qual
    description: Descriptors for describing food visually or via other senses, which
      is useful for tasks like food inspection where little prior knowledge of how
      the food came to be is available. Some terms like "food (frozen)" are both a
      quality descriptor and the output of a process. This field accepts terms listed
      under food product by quality (http://purl.obolibrary.org/obo/FOODON_00002454).
    title: food product by quality
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0001213
    multivalued: false
    alias: food_product_qual
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    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-animal and animal feed MIGS plant
    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])$
  food_source_age:
    name: food_source_age
    description: The age of the food source host organim. Depending on the type of
      host organism, age may be more appropriate to report in days, weeks, or years.
    title: food source age
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001251
    multivalued: false
    alias: food_source_age
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-animal and animal feed
    range: quantity value
    required: false
  food_trace_list:
    name: food_trace_list
    description: The FDA is proposing to establish additional traceability recordkeeping
      requirements (beyond what is already required in existing regulations) for persons
      who manufacture, process, pack, or hold foods the Agency has designated for
      inclusion on the Food Traceability List. The Food Traceability List (FTL) identifies
      the foods for which the additional traceability records described in the proposed
      rule would be required. The term “Food Traceability List” (FTL) refers not only
      to the foods specifically listed (https://www.fda.gov/media/142303/download),
      but also to any foods that contain listed foods as ingredients.
    title: food traceability list category
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001214
    multivalued: false
    alias: food_trace_list
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: food_trace_list_enum
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  HACCP_term:
    name: HACCP_term
    description: Hazard Analysis Critical Control Points (HACCP) food safety terms;
      This field accepts terms listed under HACCP guide food safety term (http://purl.obolibrary.org/obo/FOODON_03530221).
    title: Hazard Analysis Critical Control Points (HACCP) guide food safety term
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0001215
    multivalued: true
    alias: HACCP_term
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - 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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    range: string
    required: false
  microb_cult_med:
    name: microb_cult_med
    description: A culture medium used to select for, grow, and maintain prokaryotic
      microorganisms. Can be in either liquid (broth) or solidified (e.g. with agar)
      forms. 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 culture medium.
    title: microbiological culture medium
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001216
    multivalued: false
    alias: microb_cult_med
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: string
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  samp_collect_method:
    name: samp_collect_method
    description: The method employed for collecting the sample.
    title: sample collection method
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{PMID}|{DOI}|{URL}|{text}'
    slot_uri: MIXS:0001225
    multivalued: false
    alias: samp_collect_method
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-food production facility
    - food-animal and animal feed
    - agriculture
    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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    range: string
    required: false
  samp_rep_biol:
    name: samp_rep_biol
    description: Measurements of biologically distinct samples that show biological
      variation.
    title: biological sample replicate
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001226
    multivalued: false
    alias: samp_rep_biol
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: quantity value
    required: false
  samp_rep_tech:
    name: samp_rep_tech
    description: Repeated measurements of the same sample that show independent measures
      of the noise associated with the equipment and the protocols.
    title: technical sample replicate
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001227
    multivalued: false
    alias: samp_rep_tech
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: quantity value
    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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  samp_stor_device:
    name: samp_stor_device
    description: The container used to store the  sample. This field accepts terms
      listed under container (http://purl.obolibrary.org/obo/NCIT_C43186). If the
      proper descriptor is not listed please use text to describe the storage device.
    title: sample storage device
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001228
    multivalued: false
    alias: samp_stor_device
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: string
    required: false
  samp_stor_media:
    name: samp_stor_media
    description: The liquid that is added to the sample collection device prior to
      sampling. If the sample is pre-hydrated, indicate the liquid media the sample
      is pre-hydrated with for storage purposes. 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 sample
      storage media.
    title: sample storage media
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001229
    multivalued: false
    alias: samp_stor_media
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: string
    required: false
  samp_transport_dur:
    name: samp_transport_dur
    description: The duration of time from when the sample was collected until processed.
      Indicate the duration for which the sample was stored written in ISO 8601 format.
    title: sample transport duration
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001231
    multivalued: false
    alias: samp_transport_dur
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: quantity value
    required: false
  samp_transport_temp:
    name: samp_transport_temp
    description: Temperature at which sample was transported, e.g. -20 or 4 degree
      Celsius.
    title: sample transport temperature
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{float} {unit} {text}'
    slot_uri: MIXS:0001232
    multivalued: false
    alias: samp_transport_temp
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - 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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-farm environment
    - food-animal and animal feed
    range: string
    required: false
  spikein_AMR:
    name: spikein_AMR
    description: Qualitative description of a microbial response to antimicrobial
      agents. Bacteria may be susceptible or resistant to a broad range of antibiotic
      drugs or drug classes, with several intermediate states or phases. This field
      accepts terms under antimicrobial phenotype (http://purl.obolibrary.org/obo/ARO_3004299).
    title: antimicrobial phenotype of spike-in bacteria
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{float} {unit};{termLabel} {[termID]}'
    slot_uri: MIXS:0001235
    multivalued: true
    alias: spikein_AMR
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-animal and animal feed
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-farm environment
    - food-animal and animal feed
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-farm environment
    - food-animal and animal feed
    - agriculture
    range: string
    required: false
  study_design:
    name: study_design
    description: A plan specification comprised of protocols (which may specify how
      and what kinds of data will be gathered) that are executed as part of an investigation
      and is realized during a study design execution. This field accepts terms under
      study design (http://purl.obolibrary.org/obo/OBI_0500000). If the proper descriptor
      is not listed please use text to describe the study design. Multiple terms can
      be separated by pipes.
    title: study design
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001236
    multivalued: true
    alias: study_design
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: string
    required: false
  study_inc_dur:
    name: study_inc_dur
    description: Sample incubation duration if unpublished or unvalidated method is
      used. Indicate the timepoint written in ISO 8601 format.
    title: study incubation duration
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001237
    multivalued: false
    alias: study_inc_dur
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: quantity value
    required: false
  study_inc_temp:
    name: study_inc_temp
    description: Sample incubation temperature if unpublished or unvalidated method
      is used.
    title: study incubation temperature
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001238
    multivalued: false
    alias: study_inc_temp
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: quantity value
    required: false
  study_timecourse:
    name: study_timecourse
    description: For time-course research studies involving samples of the food commodity,
      indicate the total duration of the time-course study.
    title: time-course duration
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001239
    multivalued: false
    alias: study_timecourse
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-animal and animal feed
    range: quantity value
    required: false
  study_tmnt:
    name: study_tmnt
    description: A process in which the act is intended to modify or alter some other
      material entity.  From the study design, each treatment is comprised of one
      level of one or multiple factors. This field accepts terms listed under treatment
      (http://purl.obolibrary.org/obo/MCO_0000866). If the proper descriptor is not
      listed please use text to describe the study treatment. Multiple terms can be
      separated by one or more pipes.
    title: study treatment
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}|{termLabel} {[termID]}'
    slot_uri: MIXS:0001240
    multivalued: true
    alias: study_tmnt
    owner: food-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - 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-animal and animal feed MIGS plant
    domain_of:
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    range: double
    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-animal and animal feed MIGS plant
    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