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Enum: FecalContaminationIndicatorEnum

Genes, viruses, bacteria and substances measured as indicators of fecal contamination of water.

URI: FecalContaminationIndicatorEnum

Permissible Values

Value Meaning Description
crAssphage NCBITaxon:1211417 A bacteriophage of human gut Bacteroides that is abundant in human feces.
pepper mild mottle virus NCBITaxon:12239 A plant virus that enters sewage through diet and is used as a human fecal...
Bacteroides HF183 None The HF183 16S rRNA gene marker of human-associated Bacteroides.
Lachnospiraceae Lachno3 None The Lachno3 16S rRNA gene marker of human-associated Lachnospiraceae.
F+ coliphages None Bacteriophages that infect Escherichia coli through the F pilus, used as...
stercobilin CHEBI:26756 A bile pigment that gives feces their color, measured chemically as a fecal marker.

Slots

Name Description
fecal_contamination_indicator The gene, virus, bacterium or substance that was measured as an indicator of...

Comments

  • The HF183, Lachno3 and F+ coliphage values stay unmapped because the GENEPIO classes PHA4GE pins for them (GENEPIO:0101000 to GENEPIO:0101002) are not in a released GENEPIO version.

See Also

Identifier and Mapping Information

Schema Source

LinkML Source

name: FecalContaminationIndicatorEnum
description: Genes, viruses, bacteria and substances measured as indicators of fecal
  contamination of water.
comments:
- The HF183, Lachno3 and F+ coliphage values stay unmapped because the GENEPIO classes
  PHA4GE pins for them (GENEPIO:0101000 to GENEPIO:0101002) are not in a released
  GENEPIO version.
from_schema: https://w3id.org/nmdc/nmdc
see_also:
- https://github.com/pha4ge/wastewater-contextual-data-specification/releases/tag/v4.4.4
- https://github.com/cidgoh/pathogen-genomics-package/blob/PGPv5.6.5/templates/wastewater/schema.yaml
rank: 1000
permissible_values:
  crAssphage:
    text: crAssphage
    description: A bacteriophage of human gut Bacteroides that is abundant in human
      feces.
    meaning: NCBITaxon:1211417
  pepper mild mottle virus:
    text: pepper mild mottle virus
    description: A plant virus that enters sewage through diet and is used as a human
      fecal indicator and process control.
    meaning: NCBITaxon:12239
    aliases:
    - PMMoV
  Bacteroides HF183:
    text: Bacteroides HF183
    description: The HF183 16S rRNA gene marker of human-associated Bacteroides.
  Lachnospiraceae Lachno3:
    text: Lachnospiraceae Lachno3
    description: The Lachno3 16S rRNA gene marker of human-associated Lachnospiraceae.
  F+ coliphages:
    text: F+ coliphages
    description: Bacteriophages that infect Escherichia coli through the F pilus,
      used as fecal indicators.
    aliases:
    - male-specific coliphages
  stercobilin:
    text: stercobilin
    description: A bile pigment that gives feces their color, measured chemically
      as a fecal marker.
    meaning: CHEBI:26756