Class: Host-associatedMIGSBacteria

Combinatorial checklist Minimal Information about a Genome Sequence: cultured bacteria/archaea with environmental package host-associated

URI: MIXS:Host-associatedMIGSBacteria

Inheritance

• Host-associated
  • Host-associatedMIGSBacteria [ MIGSBacteria]

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...	MIGSBacteria
samp_taxon_id	1..1 String	NCBI taxon id of the sample	MIGSBacteria
project_name	1..1 String	Name of the project within which the sequencing was organized	MIGSBacteria
experimental_factor	0..1 String	Experimental factors are essentially the variable aspects of an experiment de...	MIGSBacteria
lat_lon	1..1 String	The geographical origin of the sample as defined by latitude and longitude	MIGSBacteria, Host-associated
geo_loc_name	1..1 String	The geographical origin of the sample as defined by the country or sea name f...	MIGSBacteria, Host-associated
collection_date	1..1 Date	The time of sampling, either as an instance (single point in time) or interva...	MIGSBacteria, Host-associated
neg_cont_type	0..1 recommended NegContTypeEnum	The substance or equipment used as a negative control in an investigation	MIGSBacteria
pos_cont_type	0..1 recommended String	The substance, mixture, product, or apparatus used to verify that a process w...	MIGSBacteria
env_broad_scale	1..1 String	Report the major environmental system the sample or specimen came from	MIGSBacteria, Host-associated
env_local_scale	1..1 String	Report the entity or entities which are in the sample or specimen’s local vic...	MIGSBacteria, Host-associated
env_medium	1..1 String	Report the environmental material(s) immediately surrounding the sample or sp...	MIGSBacteria, Host-associated
subspecf_gen_lin	0..1 recommended String	Information about the genetic distinctness of the sequenced organism below th...	MIGSBacteria
num_replicons	1..1 Integer	Reports the number of replicons in a nuclear genome of eukaryotes, in the gen...	MIGSBacteria
extrachrom_elements	0..1 recommended Integer	Do plasmids exist of significant phenotypic consequence (e	MIGSBacteria
estimated_size	0..1 String	The estimated size of the genome prior to sequencing	MIGSBacteria
ref_biomaterial	1..1 String	Primary publication if isolated before genome publication; otherwise, primary...	MIGSBacteria
source_mat_id	0..1 recommended String	A unique identifier assigned to a material sample (as defined by http://rs	MIGSBacteria
pathogenicity	0..1 recommended String	To what is the entity pathogenic	MIGSBacteria
biotic_relationship	0..1 recommended BioticRelationshipEnum	Description of relationship(s) between the subject organism and other organis...	MIGSBacteria
specific_host	0..1 recommended String	Report the host's taxonomic name and/or NCBI taxonomy ID	MIGSBacteria
host_spec_range	0..1 Integer	The range and diversity of host species that an organism is capable of infect...	MIGSBacteria
host_disease_stat	0..1 recommended String	List of diseases with which the host has been diagnosed; can include multiple...	MIGSBacteria
trophic_level	0..1 recommended TrophicLevelEnum	Trophic levels are the feeding position in a food chain	MIGSBacteria
encoded_traits	0..1 String	Should include key traits like antibiotic resistance or xenobiotic degradatio...	MIGSBacteria
rel_to_oxygen	0..1 recommended RelToOxygenEnum	Is this organism an aerobe, anaerobe? Please note that aerobic and anaerobic ...	MIGSBacteria
isol_growth_condt	1..1 String	Publication reference in the form of pubmed ID (pmid), digital object identif...	MIGSBacteria
samp_collec_device	0..1 String	The device used to collect an environmental sample	MIGSBacteria
samp_collec_method	0..1 String	The method employed for collecting the sample	MIGSBacteria
samp_mat_process	0..1 String	A brief description of any processing applied to the sample during or after r...	MIGSBacteria
samp_size	0..1 QuantityValue	The total amount or size (volume (ml), mass (g) or area (m2) ) of sample coll...	MIGSBacteria
samp_vol_we_dna_ext	0..1 QuantityValue	Volume (ml) or mass (g) of total collected sample processed for DNA extractio...	MIGSBacteria
nucl_acid_ext	0..1 recommended String	A link to a literature reference, electronic resource or a standard operating...	MIGSBacteria
nucl_acid_amp	0..1 recommended String	A link to a literature reference, electronic resource or a standard operating...	MIGSBacteria
lib_size	0..1 Integer	Total number of clones in the library prepared for the project	MIGSBacteria
lib_reads_seqd	0..1 Integer	Total number of clones sequenced from the library	MIGSBacteria
lib_layout	0..1 LibLayoutEnum	Specify whether to expect single, paired, or other configuration of reads	MIGSBacteria
lib_vector	0..1 String	Cloning vector type(s) used in construction of libraries	MIGSBacteria
lib_screen	0..1 String	Specific enrichment or screening methods applied before and/or after creating...	MIGSBacteria
adapters	0..1 recommended String	Adapters provide priming sequences for both amplification and sequencing of t...	MIGSBacteria
seq_meth	1..1 String	Sequencing machine used	MIGSBacteria
tax_ident	0..1 recommended TaxIdentEnum	The phylogenetic marker(s) used to assign an organism name to the SAG or MAG	MIGSBacteria
assembly_qual	1..1 AssemblyQualEnum	The assembly quality category is based on sets of criteria outlined for each ...	MIGSBacteria
assembly_name	0..1 recommended String	Name/version of the assembly provided by the submitter that is used in the ge...	MIGSBacteria
assembly_software	1..1 String	Tool(s) used for assembly, including version number and parameters	MIGSBacteria
annot	0..1 recommended String	Tool used for annotation, or for cases where annotation was provided by a com...	MIGSBacteria
number_contig	1..1 Integer	Total number of contigs in the cleaned/submitted assembly that makes up a giv...	MIGSBacteria
feat_pred	0..1 String	Method used to predict UViGs features such as ORFs, integration site, etc	MIGSBacteria
ref_db	0..1 String	List of database(s) used for ORF annotation, along with version number and re...	MIGSBacteria
sim_search_meth	0..1 String	Tool used to compare ORFs with database, along with version and cutoffs used	MIGSBacteria
tax_class	0..1 String	Method used for taxonomic classification, along with reference database used,...	MIGSBacteria
compl_score	0..1 String	Completeness score is typically based on either the fraction of markers found...	MIGSBacteria
compl_software	0..1 String	Tools used for completion estimate, i	MIGSBacteria
associated_resource	0..1 recommended String	A related resource that is referenced, cited, or otherwise associated to the ...	MIGSBacteria
sop	0..1 recommended String	Standard operating procedures used in assembly and/or annotation of genomes, ...	MIGSBacteria
depth	0..1 QuantityValue	The vertical distance below local surface, e	Host-associated
alt	0..1 QuantityValue	Altitude is a term used to identify heights of objects such as airplanes, spa...	Host-associated
elev	0..1 QuantityValue	Elevation of the sampling site is its height above a fixed reference point, m...	Host-associated
temp	0..1 QuantityValue	Temperature of the sample at the time of sampling	Host-associated
ances_data	0..1 String	Information about either pedigree or other ancestral information description ...	Host-associated
biol_stat	0..1 BiolStatEnum	The level of genome modification	Host-associated
genetic_mod	0..1 String	Genetic modifications of the genome of an organism, which may occur naturally...	Host-associated
host_common_name	0..1 String	Common name of the host	Host-associated
samp_capt_status	0..1 SampCaptStatusEnum	Reason for the sample	Host-associated
samp_dis_stage	0..1 SampDisStageEnum	Stage of the disease at the time of sample collection, e	Host-associated
host_taxid	0..1 String	NCBI taxon id of the host, e	Host-associated
host_subject_id	0..1 String	A unique identifier by which each subject can be referred to, de-identified	Host-associated
host_age	0..1 QuantityValue	Age of host at the time of sampling; relevant scale depends on species and st...	Host-associated
host_life_stage	0..1 String	Description of life stage of host	Host-associated
host_sex	0..1 HostSexEnum	Gender or physical sex of the host	Host-associated
chem_administration	0..* String	List of chemical compounds administered to the host or site where sampling oc...	Host-associated
host_body_habitat	0..1 String	Original body habitat where the sample was obtained from	Host-associated
host_body_site	0..1 String	Name of body site where the sample was obtained from, such as a specific orga...	Host-associated
host_body_product	0..1 String	Substance produced by the body, e	Host-associated
host_tot_mass	0..1 QuantityValue	Total mass of the host at collection, the unit depends on host	Host-associated
host_height	0..1 QuantityValue	The height of subject	Host-associated
host_length	0..1 QuantityValue	The length of subject	Host-associated
host_diet	0..* String	Type of diet depending on the host, for animals omnivore, herbivore etc	Host-associated
host_last_meal	0..* String	Content of last meal and time since feeding; can include multiple values	Host-associated
host_growth_cond	0..1 String	Literature reference giving growth conditions of the host	Host-associated
host_substrate	0..1 String	The growth substrate of the host	Host-associated
host_family_relation	0..* String	Familial relationships to other hosts in the same study; can include multiple...	Host-associated
host_subspecf_genlin	0..* String	Information about the genetic distinctness of the host organism below the sub...	Host-associated
host_genotype	0..1 String	Observed genotype	Host-associated
host_phenotype	0..1 String	Phenotype of human or other host	Host-associated
host_body_temp	0..1 QuantityValue	Core body temperature of the host when sample was collected	Host-associated
host_dry_mass	0..1 QuantityValue	Measurement of dry mass	Host-associated
blood_press_diast	0..1 QuantityValue	Resting diastolic blood pressure, measured as mm mercury	Host-associated
blood_press_syst	0..1 QuantityValue	Resting systolic blood pressure, measured as mm mercury	Host-associated
host_color	0..1 String	The color of host	Host-associated
host_shape	0..1 String	Morphological shape of host	Host-associated
gravidity	0..1 String	Whether or not subject is gravid, and if yes date due or date post-conception...	Host-associated
perturbation	0..* String	Type of perturbation, e	Host-associated
salinity	0..1 QuantityValue	The total concentration of all dissolved salts in a liquid or solid sample	Host-associated
oxy_stat_samp	0..1 OxyStatSampEnum	Oxygenation status of sample	Host-associated
organism_count	0..* OrganismCountEnum	Total cell count of any organism (or group of organisms) per gram, volume or ...	Host-associated
samp_store_temp	0..1 QuantityValue	Temperature at which sample was stored, e	Host-associated
samp_store_dur	0..1 String	Duration for which the sample was stored	Host-associated
samp_store_loc	0..1 String	Location at which sample was stored, usually name of a specific freezer/room	Host-associated
host_symbiont	0..* String	The taxonomic name of the organism(s) found living in mutualistic, commensali...	Host-associated
misc_param	0..* String	Any other measurement performed or parameter collected, that is not listed he...	Host-associated

Identifier and Mapping Information

Schema Source

• from schema: http://w3id.org/mixs

Mappings

Mapping Type	Mapped Value
self	MIXS:Host-associatedMIGSBacteria
native	MIXS:Host-associatedMIGSBacteria

LinkML Source

Direct

name: host-associated MIGS bacteria
description: 'Combinatorial checklist Minimal Information about a Genome Sequence:
  cultured bacteria/archaea with environmental package host-associated'
from_schema: http://w3id.org/mixs
is_a: host-associated
mixins:
- MIGS bacteria

Induced

name: host-associated MIGS bacteria
description: 'Combinatorial checklist Minimal Information about a Genome Sequence:
  cultured bacteria/archaea with environmental package host-associated'
from_schema: http://w3id.org/mixs
is_a: host-associated
mixins:
- MIGS bacteria
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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMARKS survey
    range: string
    recommended: true
  num_replicons:
    name: num_replicons
    description: Reports the number of replicons in a nuclear genome of eukaryotes,
      in the genome of a bacterium or archaea or the number of segments in a segmented
      virus. Always applied to the haploid chromosome count of a eukaryote
    title: number of replicons
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    slot_uri: MIXS:0000022
    multivalued: false
    alias: num_replicons
    owner: host-associated MIGS bacteria
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS virus
    range: integer
    required: true
  extrachrom_elements:
    name: extrachrom_elements
    description: Do plasmids exist of significant phenotypic consequence (e.g. ones
      that determine virulence or antibiotic resistance). Megaplasmids? Other plasmids
      (borrelia has 15+ plasmids)
    title: extrachromosomal elements
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    slot_uri: MIXS:0000023
    multivalued: false
    alias: extrachrom_elements
    owner: host-associated MIGS bacteria
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS org
    - MIMARKS survey
    range: integer
    recommended: true
  estimated_size:
    name: estimated_size
    description: The estimated size of the genome prior to sequencing. Of particular
      importance in the sequencing of (eukaryotic) genome which could remain in draft
      form for a long or unspecified period.
    title: estimated size
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    string_serialization: '{integer} bp'
    slot_uri: MIXS:0000024
    multivalued: false
    alias: estimated_size
    owner: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MISAG
    - MIMAG
    - MIUVIG
    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: host-associated MIGS bacteria
    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
  pathogenicity:
    name: pathogenicity
    description: To what is the entity pathogenic
    title: known pathogenicity
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    string_serialization: '{text}'
    slot_uri: MIXS:0000027
    multivalued: false
    alias: pathogenicity
    owner: host-associated MIGS bacteria
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS virus
    - MIUVIG
    range: string
    recommended: true
  biotic_relationship:
    name: biotic_relationship
    description: Description of relationship(s) between the subject organism and other
      organism(s) it is associated with. E.g., parasite on species X; mutualist with
      species Y. The target organism is the subject of the relationship, and the other
      organism(s) is the object
    title: observed biotic relationship
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    slot_uri: MIXS:0000028
    multivalued: false
    alias: biotic_relationship
    owner: host-associated MIGS bacteria
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS virus
    - MIMARKS survey
    - MIUVIG
    range: biotic_relationship_enum
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIUVIG
    range: integer
    required: false
  host_disease_stat:
    name: host_disease_stat
    description: List of diseases with which the host has been diagnosed; can include
      multiple diagnoses. The value of the field depends on host; for humans the terms
      should be chosen from the DO (Human Disease Ontology) at https://www.disease-ontology.org,
      non-human host diseases are free text
    title: host disease status
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    string_serialization: '{termLabel} {[termID]}|{text}'
    slot_uri: MIXS:0000031
    multivalued: false
    alias: host_disease_stat
    owner: host-associated MIGS bacteria
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS virus
    - MIUVIG
    range: string
    required: false
    recommended: true
  trophic_level:
    name: trophic_level
    description: Trophic levels are the feeding position in a food chain. Microbes
      can be a range of producers (e.g. chemolithotroph)
    title: trophic level
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    slot_uri: MIXS:0000032
    multivalued: false
    alias: trophic_level
    owner: host-associated MIGS bacteria
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIMARKS survey
    range: trophic_level_enum
    recommended: 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: host-associated MIGS bacteria
    domain_of:
    - core
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    range: string
    required: false
  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: host-associated MIGS bacteria
    domain_of:
    - core
    - MIGS bacteria
    - MIMS
    - MIMARKS specimen
    - MIMARKS survey
    - MISAG
    - MIMAG
    range: rel_to_oxygen_enum
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MISAG
    - MIMAG
    - MIUVIG
    range: assembly_qual_enum
    required: true
  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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MISAG
    - MIMAG
    - MIUVIG
    range: integer
    required: true
  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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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
  alt:
    name: alt
    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
    from_schema: http://w3id.org/mixs
    is_a: environment field
    slot_uri: MIXS:0000094
    multivalued: false
    alias: alt
    owner: host-associated MIGS bacteria
    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
  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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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
  ances_data:
    name: ances_data
    description: Information about either pedigree or other ancestral information
      description (e.g. parental variety in case of mutant or selection), e.g. A/3*B
      (meaning [(A x B) x B] x B)
    title: ancestral data
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000247
    multivalued: false
    alias: ances_data
    owner: host-associated MIGS bacteria
    domain_of:
    - plant-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: string
    required: false
  biol_stat:
    name: biol_stat
    description: The level of genome modification.
    title: biological status
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000858
    multivalued: false
    alias: biol_stat
    owner: host-associated MIGS bacteria
    domain_of:
    - plant-associated
    - host-associated
    range: biol_stat_enum
    required: false
  genetic_mod:
    name: genetic_mod
    description: Genetic modifications of the genome of an organism, which may occur
      naturally by spontaneous mutation, or be introduced by some experimental means,
      e.g. specification of a transgene or the gene knocked-out or details of transient
      transfection
    title: genetic modification
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{PMID}|{DOI}|{URL}|{text}'
    slot_uri: MIXS:0000859
    multivalued: false
    alias: genetic_mod
    owner: host-associated MIGS bacteria
    domain_of:
    - plant-associated
    - host-associated
    - food-human foods
    - food-food production facility
    - food-farm environment
    - agriculture
    range: string
    required: false
  host_common_name:
    name: host_common_name
    description: Common name of the host.
    title: host common name
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000248
    multivalued: false
    alias: host_common_name
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - plant-associated
    - host-associated
    - agriculture
    range: string
    required: false
  samp_capt_status:
    name: samp_capt_status
    description: Reason for the sample
    title: sample capture status
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000860
    multivalued: false
    alias: samp_capt_status
    owner: host-associated MIGS bacteria
    domain_of:
    - plant-associated
    - host-associated
    range: samp_capt_status_enum
    required: false
  samp_dis_stage:
    name: samp_dis_stage
    description: Stage of the disease at the time of sample collection, e.g. inoculation,
      penetration, infection, growth and reproduction, dissemination of pathogen.
    title: sample disease stage
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000249
    multivalued: false
    alias: samp_dis_stage
    owner: host-associated MIGS bacteria
    domain_of:
    - plant-associated
    - host-associated
    range: samp_dis_stage_enum
    required: false
  host_taxid:
    name: host_taxid
    description: NCBI taxon id of the host, e.g. 9606
    title: host taxid
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{NCBI taxid}'
    slot_uri: MIXS:0000250
    multivalued: false
    alias: host_taxid
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - plant-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: string
    required: false
  host_subject_id:
    name: host_subject_id
    description: A unique identifier by which each subject can be referred to, de-identified.
    title: host subject id
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000861
    multivalued: false
    alias: host_subject_id
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    range: string
    required: false
  host_age:
    name: host_age
    description: Age of host at the time of sampling; relevant scale depends on species
      and study, e.g. Could be seconds for amoebae or centuries for trees
    title: host age
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000255
    multivalued: false
    alias: host_age
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - plant-associated
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  host_life_stage:
    name: host_life_stage
    description: Description of life stage of host
    title: host life stage
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000251
    multivalued: false
    alias: host_life_stage
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - plant-associated
    - host-associated
    - agriculture
    range: string
    required: false
  host_sex:
    name: host_sex
    description: Gender or physical sex of the host.
    title: host sex
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000811
    multivalued: false
    alias: host_sex
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    range: host_sex_enum
    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: host-associated MIGS bacteria
    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
  host_body_habitat:
    name: host_body_habitat
    description: Original body habitat where the sample was obtained from
    title: host body habitat
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000866
    multivalued: false
    alias: host_body_habitat
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - host-associated
    range: string
    required: false
  host_body_site:
    name: host_body_site
    description: Name of body site where the sample was obtained from, such as a specific
      organ or tissue (tongue, lung etc...). For foundational model of anatomy ontology
      (fma) (v 4.11.0) or Uber-anatomy ontology (UBERON) (v releases/2014-06-15) terms,
      please see http://purl.bioontology.org/ontology/FMA or http://purl.bioontology.org/ontology/UBERON
    title: host body site
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0000867
    multivalued: false
    alias: host_body_site
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    range: string
    required: false
  host_body_product:
    name: host_body_product
    description: Substance produced by the body, e.g. Stool, mucus, where the sample
      was obtained from. For foundational model of anatomy ontology (fma) or Uber-anatomy
      ontology (UBERON) terms, please see https://www.ebi.ac.uk/ols/ontologies/fma
      or https://www.ebi.ac.uk/ols/ontologies/uberon
    title: host body product
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0000888
    multivalued: false
    alias: host_body_product
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    range: string
    required: false
  host_tot_mass:
    name: host_tot_mass
    description: Total mass of the host at collection, the unit depends on host
    title: host total mass
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000263
    multivalued: false
    alias: host_tot_mass
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - plant-associated
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  host_height:
    name: host_height
    description: The height of subject
    title: host height
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000264
    multivalued: false
    alias: host_height
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - plant-associated
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  host_length:
    name: host_length
    description: The length of subject
    title: host length
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000256
    multivalued: false
    alias: host_length
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - plant-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  host_diet:
    name: host_diet
    description: Type of diet depending on the host, for animals omnivore, herbivore
      etc., for humans high-fat, meditteranean etc.; can include multiple diet types
    title: host diet
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000869
    multivalued: true
    alias: host_diet
    owner: host-associated MIGS bacteria
    domain_of:
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    range: string
    required: false
  host_last_meal:
    name: host_last_meal
    description: Content of last meal and time since feeding; can include multiple
      values
    title: host last meal
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{duration}'
    slot_uri: MIXS:0000870
    multivalued: true
    alias: host_last_meal
    owner: host-associated MIGS bacteria
    domain_of:
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    range: string
    required: false
  host_growth_cond:
    name: host_growth_cond
    description: Literature reference giving growth conditions of the host
    title: host growth conditions
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{PMID}|{DOI}|{URL}|{text}'
    slot_uri: MIXS:0000871
    multivalued: false
    alias: host_growth_cond
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - host-associated
    range: string
    required: false
  host_substrate:
    name: host_substrate
    description: The growth substrate of the host.
    title: host substrate
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000252
    multivalued: false
    alias: host_substrate
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - host-associated
    range: string
    required: false
  host_family_relation:
    name: host_family_relation
    description: Familial relationships to other hosts in the same study; can include
      multiple relationships
    title: host family relationship
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{text}'
    slot_uri: MIXS:0000872
    multivalued: true
    alias: host_family_relation
    owner: host-associated MIGS bacteria
    domain_of:
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    range: string
    required: false
  host_subspecf_genlin:
    name: host_subspecf_genlin
    description: Information about the genetic distinctness of the host organism below
      the subspecies level e.g., serovar, serotype, biotype, ecotype, variety, cultivar,
      or any relevant genetic typing schemes like Group I plasmid. Subspecies should
      not be recorded in this term, but in the NCBI taxonomy. Supply both the lineage
      name and the lineage rank separated by a colon, e.g., biovar:abc123.
    title: host subspecific genetic lineage
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{rank name}:{text}'
    slot_uri: MIXS:0001318
    multivalued: true
    alias: host_subspecf_genlin
    owner: host-associated MIGS bacteria
    domain_of:
    - plant-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: string
    required: false
  host_genotype:
    name: host_genotype
    description: Observed genotype
    title: host genotype
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000365
    multivalued: false
    alias: host_genotype
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - plant-associated
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: string
    required: false
  host_phenotype:
    name: host_phenotype
    description: Phenotype of human or other host. For phenotypic quality ontology
      (pato) (v 2018-03-27) terms, please see http://purl.bioontology.org/ontology/pato.
      For Human Phenotype Ontology (HP) (v 2018-06-13) please see http://purl.bioontology.org/ontology/HP
    title: host phenotype
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{termLabel} {[termID]}'
    slot_uri: MIXS:0000874
    multivalued: false
    alias: host_phenotype
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - plant-associated
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: string
    required: false
  host_body_temp:
    name: host_body_temp
    description: Core body temperature of the host when sample was collected
    title: host body temperature
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000274
    multivalued: false
    alias: host_body_temp
    owner: host-associated MIGS bacteria
    domain_of:
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    range: quantity value
    required: false
  host_dry_mass:
    name: host_dry_mass
    description: Measurement of dry mass
    title: host dry mass
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000257
    multivalued: false
    alias: host_dry_mass
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - plant-associated
    - host-associated
    - food-farm environment
    - agriculture
    range: quantity value
    required: false
  blood_press_diast:
    name: blood_press_diast
    description: Resting diastolic blood pressure, measured as mm mercury
    title: host blood pressure diastolic
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000258
    multivalued: false
    alias: blood_press_diast
    owner: host-associated MIGS bacteria
    domain_of:
    - host-associated
    range: quantity value
    required: false
  blood_press_syst:
    name: blood_press_syst
    description: Resting systolic blood pressure, measured as mm mercury
    title: host blood pressure systolic
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000259
    multivalued: false
    alias: blood_press_syst
    owner: host-associated MIGS bacteria
    domain_of:
    - host-associated
    range: quantity value
    required: false
  host_color:
    name: host_color
    description: The color of host
    title: host color
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000260
    multivalued: false
    alias: host_color
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - host-associated
    range: string
    required: false
  host_shape:
    name: host_shape
    description: Morphological shape of host
    title: host shape
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000261
    multivalued: false
    alias: host_shape
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - host-associated
    range: string
    required: false
  gravidity:
    name: gravidity
    description: Whether or not subject is gravid, and if yes date due or date post-conception,
      specifying which is used
    title: gravidity
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{boolean};{timestamp}'
    slot_uri: MIXS:0000875
    multivalued: false
    alias: gravidity
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - host-associated
    range: string
    required: false
  perturbation:
    name: perturbation
    description: Type of perturbation, e.g. chemical administration, physical disturbance,
      etc., coupled with perturbation regimen including how many times the perturbation
      was repeated, how long each perturbation lasted, and the start and end time
      of the entire perturbation period; can include multiple perturbation types
    title: perturbation
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{Rn/start_time/end_time/duration}'
    slot_uri: MIXS:0000754
    multivalued: true
    alias: perturbation
    owner: host-associated MIGS bacteria
    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
  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: host-associated MIGS bacteria
    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
  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: host-associated MIGS bacteria
    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
  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: host-associated MIGS bacteria
    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
  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: host-associated MIGS bacteria
    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
  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: host-associated MIGS bacteria
    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: host-associated MIGS bacteria
    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
  host_symbiont:
    name: host_symbiont
    description: The taxonomic name of the organism(s) found living in mutualistic,
      commensalistic, or parasitic symbiosis with the specific host.
    title: observed host symbionts
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0001298
    multivalued: true
    alias: host_symbiont
    owner: host-associated MIGS bacteria
    domain_of:
    - symbiont-associated
    - plant-associated
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - agriculture
    range: string
    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: host-associated MIGS bacteria
    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