Class: WastewaterSludgeMISAG

Combinatorial checklist Minimum Information About a Single Amplified Genome with environmental package wastewater_sludge

URI: MIXS:WastewaterSludgeMISAG

Inheritance

• WastewaterSludge
  • WastewaterSludgeMISAG [ MISAG]

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...	MISAG
samp_taxon_id	1..1 String	NCBI taxon id of the sample	MISAG
project_name	1..1 String	Name of the project within which the sequencing was organized	MISAG
experimental_factor	0..1 recommended String	Experimental factors are essentially the variable aspects of an experiment de...	MISAG
lat_lon	1..1 String	The geographical origin of the sample as defined by latitude and longitude	WastewaterSludge, MISAG
geo_loc_name	1..1 String	The geographical origin of the sample as defined by the country or sea name f...	WastewaterSludge, MISAG
collection_date	1..1 Date	The time of sampling, either as an instance (single point in time) or interva...	WastewaterSludge, MISAG
neg_cont_type	0..1 recommended NegContTypeEnum	The substance or equipment used as a negative control in an investigation	MISAG
pos_cont_type	0..1 recommended String	The substance, mixture, product, or apparatus used to verify that a process w...	MISAG
env_broad_scale	1..1 String	Report the major environmental system the sample or specimen came from	WastewaterSludge, MISAG
env_local_scale	1..1 String	Report the entity or entities which are in the sample or specimen’s local vic...	WastewaterSludge, MISAG
env_medium	1..1 String	Report the environmental material(s) immediately surrounding the sample or sp...	WastewaterSludge, MISAG
ref_biomaterial	0..1 String	Primary publication if isolated before genome publication; otherwise, primary...	MISAG
source_mat_id	0..1 recommended String	A unique identifier assigned to a material sample (as defined by http://rs	MISAG
rel_to_oxygen	0..1 RelToOxygenEnum	Is this organism an aerobe, anaerobe? Please note that aerobic and anaerobic ...	MISAG
samp_collec_device	0..1 recommended String	The device used to collect an environmental sample	MISAG
samp_collec_method	0..1 recommended String	The method employed for collecting the sample	MISAG
samp_mat_process	0..1 recommended String	A brief description of any processing applied to the sample during or after r...	MISAG
size_frac	0..1 String	Filtering pore size used in sample preparation	MISAG
samp_size	0..1 recommended QuantityValue	The total amount or size (volume (ml), mass (g) or area (m2) ) of sample coll...	MISAG
samp_vol_we_dna_ext	0..1 QuantityValue	Volume (ml) or mass (g) of total collected sample processed for DNA extractio...	MISAG
nucl_acid_ext	0..1 recommended String	A link to a literature reference, electronic resource or a standard operating...	MISAG
nucl_acid_amp	0..1 recommended String	A link to a literature reference, electronic resource or a standard operating...	MISAG
lib_size	0..1 recommended Integer	Total number of clones in the library prepared for the project	MISAG
lib_reads_seqd	0..1 recommended Integer	Total number of clones sequenced from the library	MISAG
lib_layout	0..1 recommended LibLayoutEnum	Specify whether to expect single, paired, or other configuration of reads	MISAG
lib_vector	0..1 recommended String	Cloning vector type(s) used in construction of libraries	MISAG
lib_screen	0..1 recommended String	Specific enrichment or screening methods applied before and/or after creating...	MISAG
mid	0..1 recommended String	Molecular barcodes, called Multiplex Identifiers (MIDs), that are used to spe...	MISAG
adapters	0..1 recommended String	Adapters provide priming sequences for both amplification and sequencing of t...	MISAG
seq_meth	1..1 String	Sequencing machine used	MISAG
tax_ident	1..1 TaxIdentEnum	The phylogenetic marker(s) used to assign an organism name to the SAG or MAG	MISAG
assembly_qual	1..1 AssemblyQualEnum	The assembly quality category is based on sets of criteria outlined for each ...	MISAG
assembly_name	0..1 recommended String	Name/version of the assembly provided by the submitter that is used in the ge...	MISAG
assembly_software	1..1 String	Tool(s) used for assembly, including version number and parameters	MISAG
annot	0..1 String	Tool used for annotation, or for cases where annotation was provided by a com...	MISAG
number_contig	0..1 Integer	Total number of contigs in the cleaned/submitted assembly that makes up a giv...	MISAG
feat_pred	0..1 String	Method used to predict UViGs features such as ORFs, integration site, etc	MISAG
ref_db	0..1 String	List of database(s) used for ORF annotation, along with version number and re...	MISAG
sim_search_meth	0..1 String	Tool used to compare ORFs with database, along with version and cutoffs used	MISAG
tax_class	0..1 String	Method used for taxonomic classification, along with reference database used,...	MISAG
x_16s_recover	0..1 String	Can a 16S gene be recovered from the submitted SAG or MAG?	MISAG
x_16s_recover_software	0..1 String	Tools used for 16S rRNA gene extraction	MISAG
trnas	0..1 Integer	The total number of tRNAs identified from the SAG or MAG	MISAG
trna_ext_software	0..1 String	Tools used for tRNA identification	MISAG
compl_score	1..1 String	Completeness score is typically based on either the fraction of markers found...	MISAG
compl_software	1..1 String	Tools used for completion estimate, i	MISAG
compl_appr	0..1 ComplApprEnum	The approach used to determine the completeness of a given genomic assembly, ...	MISAG
contam_score	1..1 String	The contamination score is based on the fraction of single-copy genes that ar...	MISAG
contam_screen_input	0..1 String	The type of sequence data used as input	MISAG
contam_screen_param	0..1 String	Specific parameters used in the decontamination sofware, such as reference da...	MISAG
decontam_software	0..1 DecontamSoftwareEnum	Tool(s) used in contamination screening	MISAG
sort_tech	1..1 SortTechEnum	Method used to sort/isolate cells or particles of interest	MISAG
single_cell_lysis_appr	1..1 SingleCellLysisApprEnum	Method used to free DNA from interior of the cell(s) or particle(s)	MISAG
single_cell_lysis_prot	0..1 String	Name of the kit or standard protocol used for cell(s) or particle(s) lysis	MISAG
wga_amp_appr	1..1 String	Method used to amplify genomic DNA in preparation for sequencing	MISAG
wga_amp_kit	0..1 String	Kit used to amplify genomic DNA in preparation for sequencing	MISAG
associated_resource	0..1 recommended String	A related resource that is referenced, cited, or otherwise associated to the ...	MISAG
sop	0..1 recommended String	Standard operating procedures used in assembly and/or annotation of genomes, ...	MISAG
depth	0..1 QuantityValue	The vertical distance below local surface, e	WastewaterSludge
alt	0..1 QuantityValue	Altitude is a term used to identify heights of objects such as airplanes, spa...	WastewaterSludge
elev	0..1 QuantityValue	Elevation of the sampling site is its height above a fixed reference point, m...	WastewaterSludge
temp	0..1 QuantityValue	Temperature of the sample at the time of sampling	WastewaterSludge
alkalinity	0..1 QuantityValue	Alkalinity, the ability of a solution to neutralize acids to the equivalence ...	WastewaterSludge
biochem_oxygen_dem	0..1 QuantityValue	Amount of dissolved oxygen needed by aerobic biological organisms in a body o...	WastewaterSludge
chem_administration	0..* String	List of chemical compounds administered to the host or site where sampling oc...	WastewaterSludge
chem_oxygen_dem	0..1 QuantityValue	A measure of the capacity of water to consume oxygen during the decomposition...	WastewaterSludge
efficiency_percent	0..1 QuantityValue	Percentage of volatile solids removed from the anaerobic digestor	WastewaterSludge
emulsions	0..* String	Amount or concentration of substances such as paints, adhesives, mayonnaise, ...	WastewaterSludge
gaseous_substances	0..* String	Amount or concentration of substances such as hydrogen sulfide, carbon dioxid...	WastewaterSludge
indust_eff_percent	0..1 QuantityValue	Percentage of industrial effluents received by wastewater treatment plant	WastewaterSludge
inorg_particles	0..* String	Concentration of particles such as sand, grit, metal particles, ceramics, etc	WastewaterSludge
misc_param	0..* String	Any other measurement performed or parameter collected, that is not listed he...	WastewaterSludge
nitrate	0..1 QuantityValue	Concentration of nitrate in the sample	WastewaterSludge
org_particles	0..* String	Concentration of particles such as faeces, hairs, food, vomit, paper fibers, ...	WastewaterSludge
organism_count	0..* OrganismCountEnum	Total cell count of any organism (or group of organisms) per gram, volume or ...	WastewaterSludge
oxy_stat_samp	0..1 OxyStatSampEnum	Oxygenation status of sample	WastewaterSludge
ph	0..1 Double	Ph measurement of the sample, or liquid portion of sample, or aqueous phase o...	WastewaterSludge
perturbation	0..* String	Type of perturbation, e	WastewaterSludge
phosphate	0..1 QuantityValue	Concentration of phosphate	WastewaterSludge
pre_treatment	0..1 String	The process of pre-treatment removes materials that can be easily collected f...	WastewaterSludge
primary_treatment	0..1 String	The process to produce both a generally homogeneous liquid capable of being t...	WastewaterSludge
reactor_type	0..1 String	Anaerobic digesters can be designed and engineered to operate using a number ...	WastewaterSludge
salinity	0..1 QuantityValue	The total concentration of all dissolved salts in a liquid or solid sample	WastewaterSludge
samp_store_dur	0..1 String	Duration for which the sample was stored	WastewaterSludge
samp_store_loc	0..1 String	Location at which sample was stored, usually name of a specific freezer/room	WastewaterSludge
samp_store_temp	0..1 QuantityValue	Temperature at which sample was stored, e	WastewaterSludge
secondary_treatment	0..1 String	The process for substantially degrading the biological content of the sewage	WastewaterSludge
sewage_type	0..1 String	Type of wastewater treatment plant as municipial or industrial	WastewaterSludge
sludge_retent_time	0..1 QuantityValue	The time activated sludge remains in reactor	WastewaterSludge
sodium	0..1 QuantityValue	Sodium concentration in the sample	WastewaterSludge
soluble_inorg_mat	0..* String	Concentration of substances such as ammonia, road-salt, sea-salt, cyanide, hy...	WastewaterSludge
soluble_org_mat	0..* String	Concentration of substances such as urea, fruit sugars, soluble proteins, dru...	WastewaterSludge
suspend_solids	0..* String	Concentration of substances including a wide variety of material, such as sil...	WastewaterSludge
tertiary_treatment	0..1 String	The process providing a final treatment stage to raise the effluent quality b...	WastewaterSludge
tot_nitro	0..1 QuantityValue	Total nitrogen concentration of water samples, calculated by: total nitrogen ...	WastewaterSludge
tot_phosphate	0..1 QuantityValue	Total amount or concentration of phosphate	WastewaterSludge
wastewater_type	0..1 String	The origin of wastewater such as human waste, rainfall, storm drains, etc	WastewaterSludge

Identifier and Mapping Information

Schema Source

• from schema: http://w3id.org/mixs

Mappings

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

LinkML Source

Direct

name: wastewater_sludge MISAG
description: Combinatorial checklist Minimum Information About a Single Amplified
  Genome with environmental package wastewater_sludge
from_schema: http://w3id.org/mixs
is_a: wastewater_sludge
mixins:
- MISAG

Induced

name: wastewater_sludge MISAG
description: Combinatorial checklist Minimum Information About a Single Amplified
  Genome with environmental package wastewater_sludge
from_schema: http://w3id.org/mixs
is_a: wastewater_sludge
mixins:
- MISAG
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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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
  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: wastewater_sludge MISAG
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: false
  source_mat_id:
    name: source_mat_id
    description: A unique identifier assigned to a material sample (as defined by
      http://rs.tdwg.org/dwc/terms/materialSampleID, and as opposed to a particular
      digital record of a material sample) used for extracting nucleic acids, and
      subsequent sequencing. The identifier can refer either to the original material
      collected or to any derived sub-samples. The INSDC qualifiers /specimen_voucher,
      /bio_material, or /culture_collection may or may not share the same value as
      the source_mat_id field. For instance, the /specimen_voucher qualifier and source_mat_id
      may both contain 'UAM:Herps:14' , referring to both the specimen voucher and
      sampled tissue with the same identifier. However, the /culture_collection qualifier
      may refer to a value from an initial culture (e.g. ATCC:11775) while source_mat_id
      would refer to an identifier from some derived culture from which the nucleic
      acids were extracted (e.g. xatc123 or ark:/2154/R2).
    title: source material identifiers
    from_schema: http://w3id.org/mixs
    is_a: nucleic acid sequence source field
    string_serialization: '{text}'
    slot_uri: MIXS:0000026
    multivalued: false
    alias: source_mat_id
    owner: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MIMARKS specimen
    - MISAG
    - MIMAG
    - MIUVIG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MISAG
    - MIMAG
    - MIUVIG
    range: tax_ident_enum
    required: 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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: false
  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: wastewater_sludge MISAG
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MISAG
    - MIMAG
    - MIUVIG
    range: integer
    required: false
  feat_pred:
    name: feat_pred
    description: Method used to predict UViGs features such as ORFs, integration site,
      etc.
    title: feature prediction
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{software};{version};{parameters}'
    slot_uri: MIXS:0000061
    multivalued: false
    alias: feat_pred
    owner: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MIMS
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: false
  x_16s_recover:
    name: x_16s_recover
    description: Can a 16S gene be recovered from the submitted SAG or MAG?
    title: 16S recovered
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{boolean}'
    slot_uri: MIXS:0000065
    multivalued: false
    alias: x_16s_recover
    owner: wastewater_sludge MISAG
    domain_of:
    - core
    - MISAG
    - MIMAG
    range: string
    required: false
  x_16s_recover_software:
    name: x_16s_recover_software
    description: Tools used for 16S rRNA gene extraction
    title: 16S recovery software
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{software};{version};{parameters}'
    slot_uri: MIXS:0000066
    multivalued: false
    alias: x_16s_recover_software
    owner: wastewater_sludge MISAG
    domain_of:
    - core
    - MISAG
    - MIMAG
    range: string
    required: false
  trnas:
    name: trnas
    description: The total number of tRNAs identified from the SAG or MAG
    title: number of standard tRNAs extracted
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    slot_uri: MIXS:0000067
    multivalued: false
    alias: trnas
    owner: wastewater_sludge MISAG
    domain_of:
    - core
    - MISAG
    - MIMAG
    - MIUVIG
    range: integer
    required: false
  trna_ext_software:
    name: trna_ext_software
    description: Tools used for tRNA identification
    title: tRNA extraction software
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{software};{version};{parameters}'
    slot_uri: MIXS:0000068
    multivalued: false
    alias: trna_ext_software
    owner: wastewater_sludge MISAG
    domain_of:
    - core
    - 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: wastewater_sludge MISAG
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: true
    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: wastewater_sludge MISAG
    domain_of:
    - core
    - MIGS eukaryote
    - MIGS bacteria
    - MIGS plant
    - MIGS virus
    - MIGS org
    - MISAG
    - MIMAG
    - MIUVIG
    range: string
    required: true
  compl_appr:
    name: compl_appr
    description: The approach used to determine the completeness of a given genomic
      assembly, which would typically make use of a set of conserved marker genes
      or a closely related reference genome. For UViG completeness, include reference
      genome or group used, and contig feature suggesting a complete genome
    title: completeness approach
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    slot_uri: MIXS:0000071
    multivalued: false
    alias: compl_appr
    owner: wastewater_sludge MISAG
    domain_of:
    - core
    - MISAG
    - MIMAG
    - MIUVIG
    range: compl_appr_enum
    required: false
  contam_score:
    name: contam_score
    description: 'The contamination score is based on the fraction of single-copy
      genes that are observed more than once in a query genome. The following scores
      are acceptable for; High Quality Draft: < 5%, Medium Quality Draft: < 10%, Low
      Quality Draft: < 10%. Contamination must be below 5% for a SAG or MAG to be
      deposited into any of the public databases'
    title: contamination score
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{float} percentage'
    slot_uri: MIXS:0000072
    multivalued: false
    alias: contam_score
    owner: wastewater_sludge MISAG
    domain_of:
    - core
    - MISAG
    - MIMAG
    range: string
    required: true
  contam_screen_input:
    name: contam_screen_input
    description: The type of sequence data used as input
    title: contamination screening input
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '[reads| contigs]'
    slot_uri: MIXS:0000005
    multivalued: false
    alias: contam_screen_input
    owner: wastewater_sludge MISAG
    domain_of:
    - core
    - MISAG
    - MIMAG
    range: string
    required: false
  contam_screen_param:
    name: contam_screen_param
    description: Specific parameters used in the decontamination sofware, such as
      reference database, coverage, and kmers. Combinations of these parameters may
      also be used, i.e. kmer and coverage, or reference database and kmer
    title: contamination screening parameters
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    slot_uri: MIXS:0000073
    multivalued: false
    alias: contam_screen_param
    owner: wastewater_sludge MISAG
    domain_of:
    - core
    - MISAG
    - MIMAG
    range: string
    required: false
    pattern: ^(ref db|kmer|coverage|combination);.+
  decontam_software:
    name: decontam_software
    description: Tool(s) used in contamination screening
    title: decontamination software
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    slot_uri: MIXS:0000074
    multivalued: false
    alias: decontam_software
    owner: wastewater_sludge MISAG
    domain_of:
    - core
    - MISAG
    - MIMAG
    range: decontam_software_enum
    required: false
  sort_tech:
    name: sort_tech
    description: Method used to sort/isolate cells or particles of interest
    title: sorting technology
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    slot_uri: MIXS:0000075
    multivalued: false
    alias: sort_tech
    owner: wastewater_sludge MISAG
    domain_of:
    - core
    - MISAG
    - MIUVIG
    range: sort_tech_enum
    required: true
  single_cell_lysis_appr:
    name: single_cell_lysis_appr
    description: Method used to free DNA from interior of the cell(s) or particle(s)
    title: single cell or viral particle lysis approach
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    slot_uri: MIXS:0000076
    multivalued: false
    alias: single_cell_lysis_appr
    owner: wastewater_sludge MISAG
    domain_of:
    - core
    - MISAG
    - MIUVIG
    range: single_cell_lysis_appr_enum
    required: true
  single_cell_lysis_prot:
    name: single_cell_lysis_prot
    description: Name of the kit or standard protocol used for cell(s) or particle(s)
      lysis
    title: single cell or viral particle lysis kit protocol
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{text}'
    slot_uri: MIXS:0000054
    multivalued: false
    alias: single_cell_lysis_prot
    owner: wastewater_sludge MISAG
    domain_of:
    - core
    - MISAG
    - MIUVIG
    range: string
    required: false
  wga_amp_appr:
    name: wga_amp_appr
    description: Method used to amplify genomic DNA in preparation for sequencing
    title: WGA amplification approach
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '[pcr based|mda based]'
    slot_uri: MIXS:0000055
    multivalued: false
    alias: wga_amp_appr
    owner: wastewater_sludge MISAG
    domain_of:
    - core
    - MISAG
    - MIUVIG
    range: string
    required: true
  wga_amp_kit:
    name: wga_amp_kit
    description: Kit used to amplify genomic DNA in preparation for sequencing
    title: WGA amplification kit
    from_schema: http://w3id.org/mixs
    is_a: sequencing field
    string_serialization: '{text}'
    slot_uri: MIXS:0000006
    multivalued: false
    alias: wga_amp_kit
    owner: wastewater_sludge MISAG
    domain_of:
    - core
    - MISAG
    - 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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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
    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: wastewater_sludge MISAG
    domain_of:
    - water
    - wastewater_sludge
    - symbiont-associated
    - soil
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - core
    - built environment
    - air
    - agriculture
    range: quantity value
  elev:
    name: elev
    annotations:
      expected_value:
        tag: expected_value
        value: measurement value
    description: Elevation of the sampling site is its height above a fixed reference
      point, most commonly the mean sea level. Elevation is mainly used when referring
      to points on the earth's surface, while altitude is used for points above the
      surface, such as an aircraft in flight or a spacecraft in orbit.
    title: elevation
    examples:
    - value: 100 meter
    from_schema: http://w3id.org/mixs
    aliases:
    - elevation
    is_a: environment field
    slot_uri: MIXS:0000093
    multivalued: false
    alias: elev
    owner: wastewater_sludge MISAG
    domain_of:
    - water
    - wastewater_sludge
    - symbiont-associated
    - soil
    - sediment
    - plant-associated
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - human-vaginal
    - human-skin
    - human-oral
    - human-gut
    - human-associated
    - host-associated
    - food-human foods
    - food-food production facility
    - food-farm environment
    - food-animal and animal feed
    - core
    - built environment
    - air
    - agriculture
    range: quantity value
  temp:
    name: temp
    description: Temperature of the sample at the time of sampling.
    title: temperature
    from_schema: http://w3id.org/mixs
    is_a: environment field
    slot_uri: MIXS:0000113
    multivalued: false
    alias: temp
    owner: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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
  biochem_oxygen_dem:
    name: biochem_oxygen_dem
    description: Amount of dissolved oxygen needed by aerobic biological organisms
      in a body of water to break down organic material present in a given water sample
      at certain temperature over a specific time period
    title: biochemical oxygen demand
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000653
    multivalued: false
    alias: biochem_oxygen_dem
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    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: wastewater_sludge MISAG
    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
  chem_oxygen_dem:
    name: chem_oxygen_dem
    description: A measure of the capacity of water to consume oxygen during the decomposition
      of organic matter and the oxidation of inorganic chemicals such as ammonia and
      nitrite
    title: chemical oxygen demand
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000656
    multivalued: false
    alias: chem_oxygen_dem
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    range: quantity value
    required: false
  efficiency_percent:
    name: efficiency_percent
    description: Percentage of volatile solids removed from the anaerobic digestor
    title: efficiency percent
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000657
    multivalued: false
    alias: efficiency_percent
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    range: quantity value
    required: false
  emulsions:
    name: emulsions
    description: Amount or concentration of substances such as paints, adhesives,
      mayonnaise, hair colorants, emulsified oils, etc.; can include multiple emulsion
      types
    title: emulsions
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000660
    multivalued: true
    alias: emulsions
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    range: string
    required: false
  gaseous_substances:
    name: gaseous_substances
    description: Amount or concentration of substances such as hydrogen sulfide, carbon
      dioxide, methane, etc.; can include multiple substances
    title: gaseous substances
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000661
    multivalued: true
    alias: gaseous_substances
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    range: string
    required: false
  indust_eff_percent:
    name: indust_eff_percent
    description: Percentage of industrial effluents received by wastewater treatment
      plant
    title: industrial effluent percent
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000662
    multivalued: false
    alias: indust_eff_percent
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    range: quantity value
    required: false
  inorg_particles:
    name: inorg_particles
    description: Concentration of particles such as sand, grit, metal particles, ceramics,
      etc.; can include multiple particles
    title: inorganic particles
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000664
    multivalued: true
    alias: inorg_particles
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    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: wastewater_sludge MISAG
    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
  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: wastewater_sludge MISAG
    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
  org_particles:
    name: org_particles
    description: Concentration of particles such as faeces, hairs, food, vomit, paper
      fibers, plant material, humus, etc.
    title: organic particles
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000665
    multivalued: true
    alias: org_particles
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    range: string
    required: false
  organism_count:
    name: organism_count
    description: 'Total cell count of any organism (or group of organisms) per gram,
      volume or area of sample, should include name of organism followed by count.
      The method that was used for the enumeration (e.g. qPCR, atp, mpn, etc.) Should
      also be provided. (example: total prokaryotes; 3.5e7 cells per ml; qpcr)'
    title: organism count
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000103
    multivalued: true
    alias: organism_count
    owner: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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
  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: wastewater_sludge MISAG
    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
  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: wastewater_sludge MISAG
    domain_of:
    - water
    - wastewater_sludge
    - sediment
    - miscellaneous natural or artificial environment
    - microbial mat_biofilm
    range: quantity value
    required: false
  pre_treatment:
    name: pre_treatment
    description: The process of pre-treatment removes materials that can be easily
      collected from the raw wastewater
    title: pre-treatment
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000348
    multivalued: false
    alias: pre_treatment
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    range: string
    required: false
  primary_treatment:
    name: primary_treatment
    description: The process to produce both a generally homogeneous liquid capable
      of being treated biologically and a sludge that can be separately treated or
      processed
    title: primary treatment
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000349
    multivalued: false
    alias: primary_treatment
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    range: string
    required: false
  reactor_type:
    name: reactor_type
    description: Anaerobic digesters can be designed and engineered to operate using
      a number of different process configurations, as batch or continuous, mesophilic,
      high solid or low solid, and single stage or multistage
    title: reactor type
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000350
    multivalued: false
    alias: reactor_type
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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: wastewater_sludge MISAG
    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
  secondary_treatment:
    name: secondary_treatment
    description: The process for substantially degrading the biological content of
      the sewage
    title: secondary treatment
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000351
    multivalued: false
    alias: secondary_treatment
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    range: string
    required: false
  sewage_type:
    name: sewage_type
    description: Type of wastewater treatment plant as municipial or industrial
    title: sewage type
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000215
    multivalued: false
    alias: sewage_type
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    range: string
    required: false
  sludge_retent_time:
    name: sludge_retent_time
    description: The time activated sludge remains in reactor
    title: sludge retention time
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000669
    multivalued: false
    alias: sludge_retent_time
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    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: wastewater_sludge MISAG
    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_inorg_mat:
    name: soluble_inorg_mat
    description: Concentration of substances such as ammonia, road-salt, sea-salt,
      cyanide, hydrogen sulfide, thiocyanates, thiosulfates, etc.
    title: soluble inorganic material
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000672
    multivalued: true
    alias: soluble_inorg_mat
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    range: string
    required: false
  soluble_org_mat:
    name: soluble_org_mat
    description: Concentration of substances such as urea, fruit sugars, soluble proteins,
      drugs, pharmaceuticals, etc.
    title: soluble organic material
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000673
    multivalued: true
    alias: soluble_org_mat
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    range: string
    required: false
  suspend_solids:
    name: suspend_solids
    description: Concentration of substances including a wide variety of material,
      such as silt, decaying plant and animal matter; can include multiple substances
    title: suspended solids
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text};{float} {unit}'
    slot_uri: MIXS:0000150
    multivalued: true
    alias: suspend_solids
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    range: string
    required: false
  tertiary_treatment:
    name: tertiary_treatment
    description: The process providing a final treatment stage to raise the effluent
      quality before it is discharged to the receiving environment
    title: tertiary treatment
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000352
    multivalued: false
    alias: tertiary_treatment
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    range: string
    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: wastewater_sludge MISAG
    domain_of:
    - water
    - wastewater_sludge
    - hydrocarbon resources-fluids_swabs
    - hydrocarbon resources-cores
    - agriculture
    range: quantity value
    required: false
  tot_phosphate:
    name: tot_phosphate
    description: Total amount or concentration of phosphate
    title: total phosphate
    from_schema: http://w3id.org/mixs
    is_a: core field
    slot_uri: MIXS:0000689
    multivalued: false
    alias: tot_phosphate
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    range: quantity value
    required: false
  wastewater_type:
    name: wastewater_type
    description: The origin of wastewater such as human waste, rainfall, storm drains,
      etc.
    title: wastewater type
    from_schema: http://w3id.org/mixs
    is_a: core field
    string_serialization: '{text}'
    slot_uri: MIXS:0000353
    multivalued: false
    alias: wastewater_type
    owner: wastewater_sludge MISAG
    domain_of:
    - wastewater_sludge
    range: string
    required: false