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Class: WaterMIMARKSSpecimen

Combinatorial checklist Minimal Information about a Marker Specimen: specimen with environmental package water

URI: MIXS:WaterMIMARKSSpecimen

Inheritance

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... MIMARKSSpecimen
samp_taxon_id 1..1
String		 NCBI taxon id of the sample MIMARKSSpecimen
project_name 1..1
String		 Name of the project within which the sequencing was organized MIMARKSSpecimen
experimental_factor 0..1 recommended
String		 Experimental factors are essentially the variable aspects of an experiment de... MIMARKSSpecimen
lat_lon 1..1
String		 The geographical origin of the sample as defined by latitude and longitude MIMARKSSpecimen, Water
geo_loc_name 1..1
String		 The geographical origin of the sample as defined by the country or sea name f... MIMARKSSpecimen, Water
collection_date 1..1
Date		 The time of sampling, either as an instance (single point in time) or interva... MIMARKSSpecimen, Water
neg_cont_type 0..1 recommended
NegContTypeEnum		 The substance or equipment used as a negative control in an investigation MIMARKSSpecimen
pos_cont_type 0..1 recommended
String		 The substance, mixture, product, or apparatus used to verify that a process w... MIMARKSSpecimen
env_broad_scale 1..1
String		 Report the major environmental system the sample or specimen came from MIMARKSSpecimen, Water
env_local_scale 1..1
String		 Report the entity or entities which are in the sample or specimen’s local vic... MIMARKSSpecimen, Water
env_medium 1..1
String		 Report the environmental material(s) immediately surrounding the sample or sp... MIMARKSSpecimen, Water
source_mat_id 0..1 recommended
String		 A unique identifier assigned to a material sample (as defined by http://rs MIMARKSSpecimen
rel_to_oxygen 0..1
RelToOxygenEnum		 Is this organism an aerobe, anaerobe? Please note that aerobic and anaerobic ... MIMARKSSpecimen
samp_collec_device 0..1 recommended
String		 The device used to collect an environmental sample MIMARKSSpecimen
samp_collec_method 0..1 recommended
String		 The method employed for collecting the sample MIMARKSSpecimen
samp_mat_process 0..1 recommended
String		 A brief description of any processing applied to the sample during or after r... MIMARKSSpecimen
size_frac 0..1
String		 Filtering pore size used in sample preparation MIMARKSSpecimen
samp_size 0..1 recommended
QuantityValue		 The total amount or size (volume (ml), mass (g) or area (m2) ) of sample coll... MIMARKSSpecimen
samp_vol_we_dna_ext 0..1
QuantityValue		 Volume (ml) or mass (g) of total collected sample processed for DNA extractio... MIMARKSSpecimen
nucl_acid_ext 0..1 recommended
String		 A link to a literature reference, electronic resource or a standard operating... MIMARKSSpecimen
nucl_acid_amp 0..1 recommended
String		 A link to a literature reference, electronic resource or a standard operating... MIMARKSSpecimen
lib_size 0..1 recommended
Integer		 Total number of clones in the library prepared for the project MIMARKSSpecimen
lib_reads_seqd 0..1 recommended
Integer		 Total number of clones sequenced from the library MIMARKSSpecimen
lib_layout 0..1 recommended
LibLayoutEnum		 Specify whether to expect single, paired, or other configuration of reads MIMARKSSpecimen
lib_vector 0..1 recommended
String		 Cloning vector type(s) used in construction of libraries MIMARKSSpecimen
lib_screen 0..1 recommended
String		 Specific enrichment or screening methods applied before and/or after creating... MIMARKSSpecimen
target_gene 1..1
String		 Targeted gene or locus name for marker gene studies MIMARKSSpecimen
target_subfragment 0..1 recommended
String		 Name of subfragment of a gene or locus MIMARKSSpecimen
pcr_primers 0..1 recommended
String		 PCR primers that were used to amplify the sequence of the targeted gene, locu... MIMARKSSpecimen
mid 0..1 recommended
String		 Molecular barcodes, called Multiplex Identifiers (MIDs), that are used to spe... MIMARKSSpecimen
adapters 0..1 recommended
String		 Adapters provide priming sequences for both amplification and sequencing of t... MIMARKSSpecimen
pcr_cond 0..1 recommended
String		 Description of reaction conditions and components of PCR in the form of 'init... MIMARKSSpecimen
seq_meth 1..1
String		 Sequencing machine used MIMARKSSpecimen
seq_quality_check 0..1 recommended
String		 Indicate if the sequence has been called by automatic systems (none) or under... MIMARKSSpecimen
chimera_check 0..1 recommended
String		 Tool(s) used for chimera checking, including version number and parameters, t... MIMARKSSpecimen
assembly_software 0..1 recommended
String		 Tool(s) used for assembly, including version number and parameters MIMARKSSpecimen
associated_resource 0..1 recommended
String		 A related resource that is referenced, cited, or otherwise associated to the ... MIMARKSSpecimen
sop 0..1 recommended
String		 Standard operating procedures used in assembly and/or annotation of genomes, ... MIMARKSSpecimen
depth 1..1
QuantityValue		 The vertical distance below local surface, e Water
alt 0..1
QuantityValue		 Altitude is a term used to identify heights of objects such as airplanes, spa... Water
elev 0..1
QuantityValue		 Elevation of the sampling site is its height above a fixed reference point, m... Water
temp 0..1
QuantityValue		 Temperature of the sample at the time of sampling Water
alkalinity 0..1
QuantityValue		 Alkalinity, the ability of a solution to neutralize acids to the equivalence ... Water
alkalinity_method 0..1
String		 Method used for alkalinity measurement Water
alkyl_diethers 0..1
QuantityValue		 Concentration of alkyl diethers Water
aminopept_act 0..1
QuantityValue		 Measurement of aminopeptidase activity Water
ammonium 0..1
QuantityValue		 Concentration of ammonium in the sample Water
atmospheric_data 0..*
String		 Measurement of atmospheric data; can include multiple data Water
bacteria_carb_prod 0..1
QuantityValue		 Measurement of bacterial carbon production Water
bac_prod 0..1
QuantityValue		 Bacterial production in the water column measured by isotope uptake Water
bac_resp 0..1
QuantityValue		 Measurement of bacterial respiration in the water column Water
biomass 0..*
String		 Amount of biomass; should include the name for the part of biomass measured, ... Water
bishomohopanol 0..1
QuantityValue		 Concentration of bishomohopanol Water
bromide 0..1
QuantityValue		 Concentration of bromide Water
calcium 0..1
QuantityValue		 Concentration of calcium in the sample Water
carb_nitro_ratio 0..1
QuantityValue		 Ratio of amount or concentrations of carbon to nitrogen Water
chem_administration 0..*
String		 List of chemical compounds administered to the host or site where sampling oc... Water
chloride 0..1
QuantityValue		 Concentration of chloride in the sample Water
chlorophyll 0..1
QuantityValue		 Concentration of chlorophyll Water
conduc 0..1
QuantityValue		 Electrical conductivity of water Water
density 0..1
QuantityValue		 Density of the sample, which is its mass per unit volume (aka volumetric mass... Water
diether_lipids 0..*
String		 Concentration of diether lipids; can include multiple types of diether lipids Water
diss_carb_dioxide 0..1
QuantityValue		 Concentration of dissolved carbon dioxide in the sample or liquid portion of ... Water
diss_hydrogen 0..1
QuantityValue		 Concentration of dissolved hydrogen Water
diss_inorg_carb 0..1
QuantityValue		 Dissolved inorganic carbon concentration in the sample, typically measured af... Water
diss_inorg_nitro 0..1
QuantityValue		 Concentration of dissolved inorganic nitrogen Water
diss_inorg_phosp 0..1
QuantityValue		 Concentration of dissolved inorganic phosphorus in the sample Water
diss_org_carb 0..1
QuantityValue		 Concentration of dissolved organic carbon in the sample, liquid portion of th... Water
diss_org_nitro 0..1
QuantityValue		 Dissolved organic nitrogen concentration measured as; total dissolved nitroge... Water
diss_oxygen 0..1
QuantityValue		 Concentration of dissolved oxygen Water
down_par 0..1
QuantityValue		 Visible waveband radiance and irradiance measurements in the water column Water
fluor 0..1
QuantityValue		 Raw or converted fluorescence of water Water
glucosidase_act 0..1
QuantityValue		 Measurement of glucosidase activity Water
light_intensity 0..1
QuantityValue		 Measurement of light intensity Water
magnesium 0..1
QuantityValue		 Concentration of magnesium in the sample Water
mean_frict_vel 0..1
QuantityValue		 Measurement of mean friction velocity Water
mean_peak_frict_vel 0..1
QuantityValue		 Measurement of mean peak friction velocity Water
misc_param 0..*
String		 Any other measurement performed or parameter collected, that is not listed he... Water
n_alkanes 0..*
String		 Concentration of n-alkanes; can include multiple n-alkanes Water
nitrate 0..1
QuantityValue		 Concentration of nitrate in the sample Water
nitrite 0..1
QuantityValue		 Concentration of nitrite in the sample Water
nitro 0..1
QuantityValue		 Concentration of nitrogen (total) Water
org_carb 0..1
QuantityValue		 Concentration of organic carbon Water
org_matter 0..1
QuantityValue		 Concentration of organic matter Water
org_nitro 0..1
QuantityValue		 Concentration of organic nitrogen Water
organism_count 0..*
OrganismCountEnum		 Total cell count of any organism (or group of organisms) per gram, volume or ... Water
oxy_stat_samp 0..1
OxyStatSampEnum		 Oxygenation status of sample Water
ph 0..1
Double		 Ph measurement of the sample, or liquid portion of sample, or aqueous phase o... Water
part_org_carb 0..1
QuantityValue		 Concentration of particulate organic carbon Water
part_org_nitro 0..1
QuantityValue		 Concentration of particulate organic nitrogen Water
perturbation 0..*
String		 Type of perturbation, e Water
petroleum_hydrocarb 0..1
QuantityValue		 Concentration of petroleum hydrocarbon Water
phaeopigments 0..*
String		 Concentration of phaeopigments; can include multiple phaeopigments Water
phosphate 0..1
QuantityValue		 Concentration of phosphate Water
phosplipid_fatt_acid 0..*
String		 Concentration of phospholipid fatty acids; can include multiple values Water
photon_flux 0..1
QuantityValue		 Measurement of photon flux Water
potassium 0..1
QuantityValue		 Concentration of potassium in the sample Water
pressure 0..1
QuantityValue		 Pressure to which the sample is subject to, in atmospheres Water
primary_prod 0..1
QuantityValue		 Measurement of primary production, generally measured as isotope uptake Water
redox_potential 0..1
QuantityValue		 Redox potential, measured relative to a hydrogen cell, indicating oxidation o... Water
salinity 0..1
QuantityValue		 The total concentration of all dissolved salts in a liquid or solid sample Water
samp_store_dur 0..1
String		 Duration for which the sample was stored Water
samp_store_loc 0..1
String		 Location at which sample was stored, usually name of a specific freezer/room Water
samp_store_temp 0..1
QuantityValue		 Temperature at which sample was stored, e Water
silicate 0..1
QuantityValue		 Concentration of silicate Water
size_frac_low 0..1
QuantityValue		 Refers to the mesh/pore size used to pre-filter/pre-sort the sample Water
size_frac_up 0..1
QuantityValue		 Refers to the mesh/pore size used to retain the sample Water
sodium 0..1
QuantityValue		 Sodium concentration in the sample Water
soluble_react_phosp 0..1
QuantityValue		 Concentration of soluble reactive phosphorus Water
sulfate 0..1
QuantityValue		 Concentration of sulfate in the sample Water
sulfide 0..1
QuantityValue		 Concentration of sulfide in the sample Water
suspend_part_matter 0..1
QuantityValue		 Concentration of suspended particulate matter Water
tidal_stage 0..1
TidalStageEnum		 Stage of tide Water
tot_depth_water_col 0..1
QuantityValue		 Measurement of total depth of water column Water
tot_diss_nitro 0..1
QuantityValue		 Total dissolved nitrogen concentration, reported as nitrogen, measured by: to... Water
tot_inorg_nitro 0..1
QuantityValue		 Total inorganic nitrogen content Water
tot_nitro 0..1
QuantityValue		 Total nitrogen concentration of water samples, calculated by: total nitrogen ... Water
tot_part_carb 0..1
QuantityValue		 Total particulate carbon content Water
tot_phosp 0..1
QuantityValue		 Total phosphorus concentration in the sample, calculated by: total phosphorus... Water
turbidity 0..1
QuantityValue		 Measure of the amount of cloudiness or haziness in water caused by individual... Water
water_current 0..1
QuantityValue		 Measurement of magnitude and direction of flow within a fluid Water

Identifier and Mapping Information

Schema Source

  • from schema: http://w3id.org/mixs

Mappings

Mapping Type Mapped Value
self MIXS:WaterMIMARKSSpecimen
native MIXS:WaterMIMARKSSpecimen

LinkML Source

Direct

name: water MIMARKS specimen
description: 'Combinatorial checklist Minimal Information about a Marker Specimen:
  specimen with environmental package water'
from_schema: http://w3id.org/mixs
is_a: water
mixins:
- MIMARKS specimen

Induced

name: water MIMARKS specimen
description: 'Combinatorial checklist Minimal Information about a Marker Specimen:
  specimen with environmental package water'
from_schema: http://w3id.org/mixs
is_a: water
mixins:
- MIMARKS specimen
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: water MIMARKS specimen
    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: water MIMARKS specimen
    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: water MIMARKS specimen
    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: water MIMARKS specimen
    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
  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: water MIMARKS specimen
    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: water MIMARKS specimen
    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: water MIMARKS specimen
    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: water MIMARKS specimen
    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: water MIMARKS specimen
    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: water MIMARKS specimen
    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: water MIMARKS specimen
    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: water MIMARKS specimen
    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
  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: water MIMARKS specimen
    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
  rel_to_oxygen:
    name: rel_to_oxygen
    description: Is this organism an aerobe, anaerobe? Please note that aerobic and
      anaerobic are valid descriptors for microbial environments
    title: relationship to oxygen
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    slot_uri: MIXS:0000015
    multivalued: false
    alias: rel_to_oxygen
    owner: water MIMARKS specimen
    domain_of:
    - core
    - MIGS bacteria
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    range: rel_to_oxygen_enum
    required: false
  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: water MIMARKS specimen
    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
  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: water MIMARKS specimen
    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
  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: water MIMARKS specimen
    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
  size_frac:
    name: size_frac
    description: Filtering pore size used in sample preparation
    title: size fraction selected
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    string_serialization: '{float}-{float} {unit}'
    slot_uri: MIXS:0000017
    multivalued: false
    alias: size_frac
    owner: water MIMARKS specimen
    domain_of:
    - core
    - MIMS
    - MIMARKS specimen
    - 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: water MIMARKS specimen
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: quantity value
    recommended: true
  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: water MIMARKS specimen
    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: water MIMARKS specimen
    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
  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: water MIMARKS specimen
    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: water MIMARKS specimen
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MISAG
    - MIMAG
    - MIUVIG
    range: integer
    recommended: true
  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: water MIMARKS specimen
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MISAG
    - MIMAG
    - MIUVIG
    range: integer
    recommended: true
  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: water MIMARKS specimen
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MISAG
    - MIMAG
    - MIUVIG
    range: lib_layout_enum
    recommended: true
  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: water MIMARKS specimen
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    recommended: true
  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: water MIMARKS specimen
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    recommended: true
  target_gene:
    name: target_gene
    description: Targeted gene or locus name for marker gene studies
    title: target gene
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{text}'
    slot_uri: MIXS:0000044
    multivalued: false
    alias: target_gene
    owner: water MIMARKS specimen
    domain_of:
    - core
    - MIMARKS specimen
    - MIMARKS survey
    range: string
    required: true
  target_subfragment:
    name: target_subfragment
    description: Name of subfragment of a gene or locus. Important to e.g. identify
      special regions on marker genes like V6 on 16S rRNA
    title: target subfragment
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{text}'
    slot_uri: MIXS:0000045
    multivalued: false
    alias: target_subfragment
    owner: water MIMARKS specimen
    domain_of:
    - core
    - MIMARKS specimen
    - MIMARKS survey
    range: string
    recommended: true
  pcr_primers:
    name: pcr_primers
    description: PCR primers that were used to amplify the sequence of the targeted
      gene, locus or subfragment. This field should contain all the primers used for
      a single PCR reaction if multiple forward or reverse primers are present in
      a single PCR reaction. The primer sequence should be reported in uppercase letters
    title: pcr primers
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: FWD:{dna};REV:{dna}
    slot_uri: MIXS:0000046
    multivalued: false
    alias: pcr_primers
    owner: water MIMARKS specimen
    domain_of:
    - core
    - MIMARKS specimen
    - MIMARKS survey
    range: string
    recommended: true
  mid:
    name: mid
    description: Molecular barcodes, called Multiplex Identifiers (MIDs), that are
      used to specifically tag unique samples in a sequencing run. Sequence should
      be reported in uppercase letters
    title: multiplex identifiers
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{dna}'
    slot_uri: MIXS:0000047
    multivalued: false
    alias: mid
    owner: water MIMARKS specimen
    domain_of:
    - core
    - MIMS
    - MIMARKS specimen
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    recommended: true
  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: water MIMARKS specimen
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    recommended: true
  pcr_cond:
    name: pcr_cond
    description: Description of reaction conditions and components of PCR in the form
      of 'initial denaturation:94degC_1.5min; annealing=...'
    title: pcr conditions
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: initial denaturation:degrees_minutes;annealing:degrees_minutes;elongation:degrees_minutes;final
      elongation:degrees_minutes;total cycles
    slot_uri: MIXS:0000049
    multivalued: false
    alias: pcr_cond
    owner: water MIMARKS specimen
    domain_of:
    - core
    - MIMARKS specimen
    - MIMARKS survey
    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: water MIMARKS specimen
    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
  seq_quality_check:
    name: seq_quality_check
    description: Indicate if the sequence has been called by automatic systems (none)
      or undergone a manual editing procedure (e.g. by inspecting the raw data or
      chromatograms). Applied only for sequences that are not submitted to SRA,ENA
      or DRA
    title: sequence quality check
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '[none|manually edited]'
    slot_uri: MIXS:0000051
    multivalued: false
    alias: seq_quality_check
    owner: water MIMARKS specimen
    domain_of:
    - core
    - MIMARKS specimen
    - MIMARKS survey
    range: string
    recommended: true
  chimera_check:
    name: chimera_check
    description: Tool(s) used for chimera checking, including version number and parameters,
      to discover and remove chimeric sequences. A chimeric sequence is comprised
      of two or more phylogenetically distinct parent sequences.
    title: chimera check software
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{software};{version};{parameters}'
    slot_uri: MIXS:0000052
    multivalued: false
    alias: chimera_check
    owner: water MIMARKS specimen
    domain_of:
    - core
    - MIMARKS specimen
    - MIMARKS survey
    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: water MIMARKS specimen
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    recommended: true
  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: water MIMARKS specimen
    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: water MIMARKS specimen
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    recommended: true
  depth:
    name: depth
    description: The vertical distance below local surface, e.g. for sediment or soil
      samples depth is measured from sediment or soil surface, respectively. Depth
      can be reported as an interval for subsurface samples.
    title: depth
    from_schema: http://w3id.org/mixs
    is_a: environment field
    slot_uri: MIXS:0000018
    multivalued: false
    alias: depth
    owner: water MIMARKS specimen
    domain_of:
    - water
    - wastewater_sludge
    - symbiont-associated
    - soil
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - core
    - built environment
    - air
    - agriculture
    range: quantity value
    required: true
  alt:
    name: alt
    annotations:
      expected_value:
        tag: expected_value
        value: measurement value
    description: Altitude is a term used to identify heights of objects such as airplanes,
      space shuttles, rockets, atmospheric balloons and heights of places such as
      atmospheric layers and clouds. It is used to measure the height of an object
      which is above the earth's surface. In this context, the altitude measurement
      is the vertical distance between the earth's surface above sea level and the
      sampled position in the air
    title: altitude
    examples:
    - value: 100 meter
    from_schema: http://w3id.org/mixs
    aliases:
    - altitude
    is_a: environment field
    slot_uri: MIXS:0000094
    multivalued: false
    alias: alt
    owner: water MIMARKS specimen
    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
    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
    from_schema: http://w3id.org/mixs
    is_a: environment field
    slot_uri: MIXS:0000093
    multivalued: false
    alias: elev
    owner: water MIMARKS specimen
    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
  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: water MIMARKS specimen
    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
  alkalinity:
    name: alkalinity
    description: Alkalinity, the ability of a solution to neutralize acids to the
      equivalence point of carbonate or bicarbonate
    title: alkalinity
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000421
    multivalued: false
    alias: alkalinity
    owner: water MIMARKS specimen
    domain_of:
    - water
    - wastewater_sludge
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: quantity value
    required: false
  alkalinity_method:
    name: alkalinity_method
    description: Method used for alkalinity measurement
    title: alkalinity method
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000298
    multivalued: false
    alias: alkalinity_method
    owner: water MIMARKS specimen
    domain_of:
    - water
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: string
    required: false
  alkyl_diethers:
    name: alkyl_diethers
    description: Concentration of alkyl diethers
    title: alkyl diethers
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000490
    multivalued: false
    alias: alkyl_diethers
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - microbial mat_biofilm
    range: quantity value
    required: false
  aminopept_act:
    name: aminopept_act
    description: Measurement of aminopeptidase activity
    title: aminopeptidase activity
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000172
    multivalued: false
    alias: aminopept_act
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - microbial mat_biofilm
    range: quantity value
    required: false
  ammonium:
    name: ammonium
    description: Concentration of ammonium in the sample
    title: ammonium
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000427
    multivalued: false
    alias: ammonium
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: quantity value
    required: false
  atmospheric_data:
    name: atmospheric_data
    description: Measurement of atmospheric data; can include multiple data
    title: atmospheric data
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0001097
    multivalued: true
    alias: atmospheric_data
    owner: water MIMARKS specimen
    domain_of:
    - water
    range: string
    required: false
  bacteria_carb_prod:
    name: bacteria_carb_prod
    description: Measurement of bacterial carbon production
    title: bacterial carbon production
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000173
    multivalued: false
    alias: bacteria_carb_prod
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - microbial mat_biofilm
    range: quantity value
    required: false
  bac_prod:
    name: bac_prod
    description: Bacterial production in the water column measured by isotope uptake
    title: bacterial production
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000683
    multivalued: false
    alias: bac_prod
    owner: water MIMARKS specimen
    domain_of:
    - water
    range: quantity value
    required: false
  bac_resp:
    name: bac_resp
    description: Measurement of bacterial respiration in the water column
    title: bacterial respiration
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000684
    multivalued: false
    alias: bac_resp
    owner: water MIMARKS specimen
    domain_of:
    - water
    range: quantity value
    required: false
  biomass:
    name: biomass
    description: Amount of biomass; should include the name for the part of biomass
      measured, e.g. Microbial, total. Can include multiple measurements
    title: biomass
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000174
    multivalued: true
    alias: biomass
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    range: string
    required: false
  bishomohopanol:
    name: bishomohopanol
    description: Concentration of bishomohopanol
    title: bishomohopanol
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000175
    multivalued: false
    alias: bishomohopanol
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - microbial mat_biofilm
    range: quantity value
    required: false
  bromide:
    name: bromide
    description: Concentration of bromide
    title: bromide
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000176
    multivalued: false
    alias: bromide
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    range: quantity value
    required: false
  calcium:
    name: calcium
    description: Concentration of calcium in the sample
    title: calcium
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000432
    multivalued: false
    alias: calcium
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: quantity value
    required: false
  carb_nitro_ratio:
    name: carb_nitro_ratio
    description: Ratio of amount or concentrations of carbon to nitrogen
    title: carbon/nitrogen ratio
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000310
    multivalued: false
    alias: carb_nitro_ratio
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - microbial mat_biofilm
    range: quantity value
    required: false
  chem_administration:
    name: chem_administration
    description: List of chemical compounds administered to the host or site where
      sampling occurred, and when (e.g. Antibiotics, n fertilizer, air filter); can
      include multiple compounds. For chemical entities of biological interest ontology
      (chebi) (v 163), http://purl.bioontology.org/ontology/chebi
    title: chemical administration
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]};{timestamp}'
    slot_uri: MIXS:0000751
    multivalued: true
    alias: chem_administration
    owner: water MIMARKS specimen
    domain_of:
    - water
    - wastewater_sludge
    - symbiont-associated
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-farm environment
    - air
    - agriculture
    range: string
    required: false
  chloride:
    name: chloride
    description: Concentration of chloride in the sample
    title: chloride
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000429
    multivalued: false
    alias: chloride
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: quantity value
    required: false
  chlorophyll:
    name: chlorophyll
    description: Concentration of chlorophyll
    title: chlorophyll
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000177
    multivalued: false
    alias: chlorophyll
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    range: quantity value
    required: false
  conduc:
    name: conduc
    description: Electrical conductivity of water
    title: conductivity
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000692
    multivalued: false
    alias: conduc
    owner: water MIMARKS specimen
    domain_of:
    - water
    - food-farm environment
    range: quantity value
    required: false
  density:
    name: density
    description: Density of the sample, which is its mass per unit volume (aka volumetric
      mass density)
    title: density
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000435
    multivalued: false
    alias: density
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: quantity value
    required: false
  diether_lipids:
    name: diether_lipids
    description: Concentration of diether lipids; can include multiple types of diether
      lipids
    title: diether lipids
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000178
    multivalued: true
    alias: diether_lipids
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    range: string
    required: false
  diss_carb_dioxide:
    name: diss_carb_dioxide
    description: Concentration of dissolved carbon dioxide in the sample or liquid
      portion of the sample
    title: dissolved carbon dioxide
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000436
    multivalued: false
    alias: diss_carb_dioxide
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: quantity value
    required: false
  diss_hydrogen:
    name: diss_hydrogen
    description: Concentration of dissolved hydrogen
    title: dissolved hydrogen
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000179
    multivalued: false
    alias: diss_hydrogen
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    range: quantity value
    required: false
  diss_inorg_carb:
    name: diss_inorg_carb
    description: Dissolved inorganic carbon concentration in the sample, typically
      measured after filtering the sample using a 0.45 micrometer filter
    title: dissolved inorganic carbon
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000434
    multivalued: false
    alias: diss_inorg_carb
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: quantity value
    required: false
  diss_inorg_nitro:
    name: diss_inorg_nitro
    description: Concentration of dissolved inorganic nitrogen
    title: dissolved inorganic nitrogen
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000698
    multivalued: false
    alias: diss_inorg_nitro
    owner: water MIMARKS specimen
    domain_of:
    - water
    range: quantity value
    required: false
  diss_inorg_phosp:
    name: diss_inorg_phosp
    description: Concentration of dissolved inorganic phosphorus in the sample
    title: dissolved inorganic phosphorus
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000106
    multivalued: false
    alias: diss_inorg_phosp
    owner: water MIMARKS specimen
    domain_of:
    - water
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: quantity value
    required: false
  diss_org_carb:
    name: diss_org_carb
    description: Concentration of dissolved organic carbon in the sample, liquid portion
      of the sample, or aqueous phase of the fluid
    title: dissolved organic carbon
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000433
    multivalued: false
    alias: diss_org_carb
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: quantity value
    required: false
  diss_org_nitro:
    name: diss_org_nitro
    description: Dissolved organic nitrogen concentration measured as; total dissolved
      nitrogen - NH4 - NO3 - NO2
    title: dissolved organic nitrogen
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000162
    multivalued: false
    alias: diss_org_nitro
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    range: quantity value
    required: false
  diss_oxygen:
    name: diss_oxygen
    description: Concentration of dissolved oxygen
    title: dissolved oxygen
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000119
    multivalued: false
    alias: diss_oxygen
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    range: quantity value
    required: false
  down_par:
    name: down_par
    description: Visible waveband radiance and irradiance measurements in the water
      column
    title: downward PAR
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000703
    multivalued: false
    alias: down_par
    owner: water MIMARKS specimen
    domain_of:
    - water
    range: quantity value
    required: false
  fluor:
    name: fluor
    description: Raw or converted fluorescence of water
    title: fluorescence
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000704
    multivalued: false
    alias: fluor
    owner: water MIMARKS specimen
    domain_of:
    - water
    range: quantity value
    required: false
  glucosidase_act:
    name: glucosidase_act
    description: Measurement of glucosidase activity
    title: glucosidase activity
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000137
    multivalued: false
    alias: glucosidase_act
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - microbial mat_biofilm
    range: quantity value
    required: false
  light_intensity:
    name: light_intensity
    description: Measurement of light intensity
    title: light intensity
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000706
    multivalued: false
    alias: light_intensity
    owner: water MIMARKS specimen
    domain_of:
    - water
    range: quantity value
    required: false
  magnesium:
    name: magnesium
    description: Concentration of magnesium in the sample
    title: magnesium
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000431
    multivalued: false
    alias: magnesium
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: quantity value
    required: false
  mean_frict_vel:
    name: mean_frict_vel
    description: Measurement of mean friction velocity
    title: mean friction velocity
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000498
    multivalued: false
    alias: mean_frict_vel
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - microbial mat_biofilm
    range: quantity value
    required: false
  mean_peak_frict_vel:
    name: mean_peak_frict_vel
    description: Measurement of mean peak friction velocity
    title: mean peak friction velocity
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000502
    multivalued: false
    alias: mean_peak_frict_vel
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - microbial mat_biofilm
    range: quantity value
    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: water MIMARKS specimen
    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
  n_alkanes:
    name: n_alkanes
    description: Concentration of n-alkanes; can include multiple n-alkanes
    title: n-alkanes
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000503
    multivalued: true
    alias: n_alkanes
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - microbial mat_biofilm
    range: string
    required: false
  nitrate:
    name: nitrate
    description: Concentration of nitrate in the sample
    title: nitrate
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000425
    multivalued: false
    alias: nitrate
    owner: water MIMARKS specimen
    domain_of:
    - water
    - wastewater_sludge
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: quantity value
    required: false
  nitrite:
    name: nitrite
    description: Concentration of nitrite in the sample
    title: nitrite
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000426
    multivalued: false
    alias: nitrite
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: quantity value
    required: false
  nitro:
    name: nitro
    description: Concentration of nitrogen (total)
    title: nitrogen
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000504
    multivalued: false
    alias: nitro
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    range: quantity value
    required: false
  org_carb:
    name: org_carb
    description: Concentration of organic carbon
    title: organic carbon
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000508
    multivalued: false
    alias: org_carb
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    range: quantity value
    required: false
  org_matter:
    name: org_matter
    description: Concentration of organic matter
    title: organic matter
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000204
    multivalued: false
    alias: org_matter
    owner: water MIMARKS specimen
    domain_of:
    - water
    - soil
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    range: quantity value
    required: false
  org_nitro:
    name: org_nitro
    description: Concentration of organic nitrogen
    title: organic nitrogen
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000205
    multivalued: false
    alias: org_nitro
    owner: water MIMARKS specimen
    domain_of:
    - water
    - soil
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    range: quantity value
    required: false
  organism_count:
    name: organism_count
    description: 'Total cell count of any organism (or group of organisms) per gram,
      volume or area of sample, should include name of organism followed by count.
      The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should
      also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)'
    title: organism count
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000103
    multivalued: true
    alias: organism_count
    owner: water MIMARKS specimen
    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
  oxy_stat_samp:
    name: oxy_stat_samp
    description: Oxygenation status of sample
    title: oxygenation status of sample
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000753
    multivalued: false
    alias: oxy_stat_samp
    owner: water MIMARKS specimen
    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
    - air
    - agriculture
    range: oxy_stat_samp_enum
    required: false
  ph:
    name: ph
    description: Ph measurement of the sample, or liquid portion of sample, or aqueous
      phase of the fluid
    title: pH
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0001001
    multivalued: false
    alias: ph
    owner: water MIMARKS specimen
    domain_of:
    - water
    - wastewater_sludge
    - soil
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - food-farm environment
    range: double
    required: false
  part_org_carb:
    name: part_org_carb
    description: Concentration of particulate organic carbon
    title: particulate organic carbon
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000515
    multivalued: false
    alias: part_org_carb
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - microbial mat_biofilm
    range: quantity value
    required: false
  part_org_nitro:
    name: part_org_nitro
    description: Concentration of particulate organic nitrogen
    title: particulate organic nitrogen
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000719
    multivalued: false
    alias: part_org_nitro
    owner: water MIMARKS specimen
    domain_of:
    - water
    range: quantity value
    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: water MIMARKS specimen
    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
  petroleum_hydrocarb:
    name: petroleum_hydrocarb
    description: Concentration of petroleum hydrocarbon
    title: petroleum hydrocarbon
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000516
    multivalued: false
    alias: petroleum_hydrocarb
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - microbial mat_biofilm
    range: quantity value
    required: false
  phaeopigments:
    name: phaeopigments
    description: Concentration of phaeopigments; can include multiple phaeopigments
    title: phaeopigments
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000180
    multivalued: true
    alias: phaeopigments
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - microbial mat_biofilm
    range: string
    required: false
  phosphate:
    name: phosphate
    description: Concentration of phosphate
    title: phosphate
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000505
    multivalued: false
    alias: phosphate
    owner: water MIMARKS specimen
    domain_of:
    - water
    - wastewater_sludge
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    range: quantity value
    required: false
  phosplipid_fatt_acid:
    name: phosplipid_fatt_acid
    description: Concentration of phospholipid fatty acids; can include multiple values
    title: phospholipid fatty acid
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000181
    multivalued: true
    alias: phosplipid_fatt_acid
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    range: string
    required: false
  photon_flux:
    name: photon_flux
    description: Measurement of photon flux
    title: photon flux
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000725
    multivalued: false
    alias: photon_flux
    owner: water MIMARKS specimen
    domain_of:
    - water
    range: quantity value
    required: false
  potassium:
    name: potassium
    description: Concentration of potassium in the sample
    title: potassium
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000430
    multivalued: false
    alias: potassium
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: quantity value
    required: false
  pressure:
    name: pressure
    description: Pressure to which the sample is subject to, in atmospheres
    title: pressure
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000412
    multivalued: false
    alias: pressure
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: quantity value
    required: false
  primary_prod:
    name: primary_prod
    description: Measurement of primary production, generally measured as isotope
      uptake
    title: primary production
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000728
    multivalued: false
    alias: primary_prod
    owner: water MIMARKS specimen
    domain_of:
    - water
    range: quantity value
    required: false
  redox_potential:
    name: redox_potential
    description: Redox potential, measured relative to a hydrogen cell, indicating
      oxidation or reduction potential
    title: redox potential
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000182
    multivalued: false
    alias: redox_potential
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - microbial mat_biofilm
    range: quantity value
    required: false
  salinity:
    name: salinity
    description: The total concentration of all dissolved salts in a liquid or solid
      sample. While salinity can be measured by a complete chemical analysis, this
      method is difficult and time consuming. More often, it is instead derived from
      the conductivity measurement. This is known as practical salinity. These derivations
      compare the specific conductance of the sample to a salinity standard such as
      seawater.
    title: salinity
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000183
    multivalued: false
    alias: salinity
    owner: water MIMARKS specimen
    domain_of:
    - water
    - wastewater_sludge
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-farm environment
    - air
    range: quantity value
    required: false
  samp_store_dur:
    name: samp_store_dur
    description: Duration for which the sample was stored
    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_store_dur
    owner: water MIMARKS specimen
    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
    - air
    - agriculture
    range: string
    required: false
  samp_store_loc:
    name: samp_store_loc
    description: Location at which sample was stored, usually name of a specific freezer/room
    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_store_loc
    owner: water MIMARKS specimen
    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
    - air
    - agriculture
    range: string
    required: false
  samp_store_temp:
    name: samp_store_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_store_temp
    owner: water MIMARKS specimen
    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
    - air
    range: quantity value
    required: false
  silicate:
    name: silicate
    description: Concentration of silicate
    title: silicate
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000184
    multivalued: false
    alias: silicate
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    range: quantity value
    required: false
  size_frac_low:
    name: size_frac_low
    description: Refers to the mesh/pore size used to pre-filter/pre-sort the sample.
      Materials larger than the size threshold are excluded from the sample
    title: size-fraction lower threshold
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000735
    multivalued: false
    alias: size_frac_low
    owner: water MIMARKS specimen
    domain_of:
    - water
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  size_frac_up:
    name: size_frac_up
    description: Refers to the mesh/pore size used to retain the sample. Materials
      smaller than the size threshold are excluded from the sample
    title: size-fraction upper threshold
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000736
    multivalued: false
    alias: size_frac_up
    owner: water MIMARKS specimen
    domain_of:
    - water
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  sodium:
    name: sodium
    description: Sodium concentration in the sample
    title: sodium
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000428
    multivalued: false
    alias: sodium
    owner: water MIMARKS specimen
    domain_of:
    - water
    - wastewater_sludge
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: quantity value
    required: false
  soluble_react_phosp:
    name: soluble_react_phosp
    description: Concentration of soluble reactive phosphorus
    title: soluble reactive phosphorus
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000738
    multivalued: false
    alias: soluble_react_phosp
    owner: water MIMARKS specimen
    domain_of:
    - water
    range: quantity value
    required: false
  sulfate:
    name: sulfate
    description: Concentration of sulfate in the sample
    title: sulfate
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000423
    multivalued: false
    alias: sulfate
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: quantity value
    required: false
  sulfide:
    name: sulfide
    description: Concentration of sulfide in the sample
    title: sulfide
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000424
    multivalued: false
    alias: sulfide
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: quantity value
    required: false
  suspend_part_matter:
    name: suspend_part_matter
    description: Concentration of suspended particulate matter
    title: suspended particulate matter
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000741
    multivalued: false
    alias: suspend_part_matter
    owner: water MIMARKS specimen
    domain_of:
    - water
    range: quantity value
    required: false
  tidal_stage:
    name: tidal_stage
    description: Stage of tide
    title: tidal stage
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000750
    multivalued: false
    alias: tidal_stage
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    range: tidal_stage_enum
    required: false
  tot_depth_water_col:
    name: tot_depth_water_col
    description: Measurement of total depth of water column
    title: total depth of water column
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000634
    multivalued: false
    alias: tot_depth_water_col
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    range: quantity value
    required: false
  tot_diss_nitro:
    name: tot_diss_nitro
    description: 'Total dissolved nitrogen concentration, reported as nitrogen, measured
      by: total dissolved nitrogen = NH4 + NO3NO2 + dissolved organic nitrogen'
    title: total dissolved nitrogen
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000744
    multivalued: false
    alias: tot_diss_nitro
    owner: water MIMARKS specimen
    domain_of:
    - water
    range: quantity value
    required: false
  tot_inorg_nitro:
    name: tot_inorg_nitro
    description: Total inorganic nitrogen content
    title: total inorganic nitrogen
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000745
    multivalued: false
    alias: tot_inorg_nitro
    owner: water MIMARKS specimen
    domain_of:
    - water
    range: quantity value
    required: false
  tot_nitro:
    name: tot_nitro
    description: 'Total nitrogen concentration of water samples, calculated by: total
      nitrogen = total dissolved nitrogen + particulate nitrogen. Can also be measured
      without filtering, reported as nitrogen'
    title: total nitrogen concentration
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000102
    multivalued: false
    alias: tot_nitro
    owner: water MIMARKS specimen
    domain_of:
    - water
    - wastewater_sludge
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - agriculture
    range: quantity value
    required: false
  tot_part_carb:
    name: tot_part_carb
    description: Total particulate carbon content
    title: total particulate carbon
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000747
    multivalued: false
    alias: tot_part_carb
    owner: water MIMARKS specimen
    domain_of:
    - water
    range: quantity value
    required: false
  tot_phosp:
    name: tot_phosp
    description: 'Total phosphorus concentration in the sample, calculated by: total
      phosphorus = total dissolved phosphorus + particulate phosphorus'
    title: total phosphorus
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000117
    multivalued: false
    alias: tot_phosp
    owner: water MIMARKS specimen
    domain_of:
    - water
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: quantity value
    required: false
  turbidity:
    name: turbidity
    description: Measure of the amount of cloudiness or haziness in water caused by
      individual particles
    title: turbidity
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000191
    multivalued: false
    alias: turbidity
    owner: water MIMARKS specimen
    domain_of:
    - water
    - sediment
    - microbial mat_biofilm
    - food-farm environment
    range: quantity value
    required: false
  water_current:
    name: water_current
    description: Measurement of magnitude and direction of flow within a fluid
    title: water current
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000203
    multivalued: false
    alias: water_current
    owner: water MIMARKS specimen
    domain_of:
    - water
    - miscellaneous natural or artificial environment
    range: quantity value
    required: false