HabitatMech

peat soil

ENVO:00005774 ·resolve ·TERRESTRIAL ·EXACT SEEDED

A histosol which is formed by the decomposition of vegetation or organic matter. — ENVO

SEEDED workflow status. The source-seeding rules supplied this record; consult its curation history for later attributed changes. This status does not establish human review.

Source attestations

Each upstream vocabulary's own account of this habitat. Assertion counts are per-source units and are not comparable across sources — GOLD counts organisms, BacDive strains, PREGO taxa.

What each upstream vocabulary says about this habitat
SourceLabel / pathAssertionsUnit
ENVIRONMENTS_TABLE soil_organic_peat
Physicochemical parameter bands from kg-microbe's environment table.		 —
GOLD Environmental > Terrestrial > Soil > Peat
2 GOLD ecosystem node ids share this path; first shown. See data/raw/gold_ecosystem_paths.tsv.		 17 ORGANISM
MADIN peat soil 27 TAXON
PREGO peat soil 1320 TAXON

Broader habitats

Environmental parameters

Physicochemical parameters
ParameterValueSource
GRADIENTShighkg-microbe environments.csv (soil_organic_peat)
NUTRIENTShighkg-microbe environments.csv (soil_organic_peat)
ORGANIC_MATTERhighkg-microbe environments.csv (soil_organic_peat)
PHlowkg-microbe environments.csv (soil_organic_peat)
PRESSURElowkg-microbe environments.csv (soil_organic_peat)
SALINITYlowkg-microbe environments.csv (soil_organic_peat)
SALINITY_VARIABILITYsmallkg-microbe environments.csv (soil_organic_peat)
STRUCTURAL_COMPLEXITYhighkg-microbe environments.csv (soil_organic_peat)
TEMPERATUREmediumkg-microbe environments.csv (soil_organic_peat)
TEMPERATURE_VARIABILITYmediumkg-microbe environments.csv (soil_organic_peat)
WATER_AVAILABILITYmediumkg-microbe environments.csv (soil_organic_peat)
WATER_VARIABILITYoccasionally drykg-microbe environments.csv (soil_organic_peat)

Causal graphs

Peat soil acidic methane cycling

Waterlogged acidic peat accumulates plant organic matter, creates vertically stratified anaerobic carbohydrate-degradation and methanogenesis zones, and supports acidophilic methanotrophs that oxidize a fraction of the methane before it escapes.

Directed graph · arrows run from subject to object. Focus or hover over a node or arrow for details; the evidence table follows.
Peat soil acidic methane cycling 14 nodes and 15 directed relationships. Labels and evidence are also available in the adjacent table. peat soil — accumulates → Sphagnum peat organic matter; Evidence: PMID:24682299 accumulates peat soil — has condition → acidic conditions; Evidence: PMID:11837310 has condition peat soil — has condition → waterlogged peat; Evidence: PMID:12513979 has condition waterlogged peat — creates → anoxic deep peat; Evidence: PMID:24682300 creates peat soil — has structure → vertical peat stratification; Evidence: PMID:24682300 has structure anoxic deep peat — selects for → acid-tolerant methanogens; Evidence: PMID:12513979 selects for vertical peat stratification — partitions → carbohydrate degradation; Evidence: PMID:24682300 partitions Sphagnum peat organic matter — feeds → carbohydrate degradation; Evidence: PMID:24682299 feeds carbohydrate degradation — releases → H2 and CO2 methanogenesis precursors; Evidence: PMID:24682299 releases H2 and CO2 methanogenesis precursors — fuels → hydrogenotrophic methanogenesis; Evidence: PMID:12513979 fuels acid-tolerant methanogens — performs → hydrogenotrophic methanogenesis; Evidence: PMID:12513979 performs hydrogenotrophic methanogenesis — produces → methane; Evidence: PMID:16872405 produces methane — supports → acidophilic methanotrophs; Evidence: PMID:11837310 supports acidophilic methanotrophs — performs → methane oxidation; Evidence: PMID:11837310 performs methane oxidation — contributes to → Sphagnum carbon fixation; Evidence: PMID:16121180 contributes to peat soil (HABITAT); peat_soil; ENVO:00005774 HABITAT peat soil Sphagnum peat organic matter (ENVIRONMENTAL_FACTOR); sphagnum_peat_organic_matter ENVIRONMENTAL_FACTOR Sphagnum peat organic matter acidic conditions (ENVIRONMENTAL_PARAMETER); acidic_conditions ENVIRONMENTAL_PARAMETER acidic conditions waterlogged peat (ENVIRONMENTAL_PARAMETER); waterlogged_peat ENVIRONMENTAL_PARAMETER waterlogged peat anoxic deep peat (ENVIRONMENTAL_PARAMETER); anoxic_deep_peat ENVIRONMENTAL_PARAMETER anoxic deep peat vertical peat stratification (STATE); vertical_peat_stratification STATE vertical peat stratification carbohydrate degradation (PATHWAY); carbohydrate_degradation PATHWAY carbohydrate degradation H2 and CO2 methanogenesis precursors (CHEMICAL); h2_co2_precursors CHEMICAL H2 and CO2 methanogenesis precursors acid-tolerant methanogens (TAXON); acid_tolerant_methanogens TAXON acid-tolerant methanogens hydrogenotrophic methanogenesis (PATHWAY); hydrogenotrophic_methanogenesis PATHWAY hydrogenotrophic methanogenesis methane (CHEMICAL); methane CHEMICAL methane acidophilic methanotrophs (TAXON); acidophilic_methanotrophs TAXON acidophilic methanotrophs methane oxidation (PATHWAY); methane_oxidation PATHWAY methane oxidation Sphagnum carbon fixation (BIOLOGICAL_PROCESS); sphagnum_carbon_fixation BIOLOGICAL_PROCESS Sphagnum carbon fixation
peat_soil_acidic_methane_cycling edges
EdgeSubjectPredicateObjectEvidence
peat_soil_accumulates_sphagnum_organic_matter peat soil accumulates
Ombrotrophic peat soils accumulate Sphagnum-derived plant organic matter that fuels microbial carbon cycling.		 Sphagnum peat organic matter PMID:24682299
Lin and colleagues profiled organic-matter degradation potential in Sphagnum-dominated ombrotrophic peat.
peat_soil_has_acidic_conditions peat soil has condition
Sphagnum peat bogs are acidic habitats that filter their microbial communities.		 acidic conditions PMID:11837310
Dedysh and colleagues isolated an acidophilic methanotroph from an acidic Sphagnum peat bog.
peat_soil_has_waterlogged_peat peat soil has condition
Waterlogged organic soil is a defining physical state for methane-emitting peat layers.		 waterlogged peat PMID:12513979
Horn and colleagues studied methanogenesis in acidic peat from a methane-emitting bog.
waterlogging_creates_anoxic_deep_peat waterlogged peat creates
Persistent water saturation restricts oxygen penetration and creates anoxic deeper peat.		 anoxic deep peat PMID:24682300
Lin and colleagues measured vertically stratified microbial communities and chemistry in a boreal peatland profile.
peat_soil_has_vertical_stratification peat soil has structure
Peat soils contain vertical profiles with depth-stratified chemistry and microbial communities.		 vertical peat stratification PMID:24682300
Lin and colleagues linked peat depth to microbial community and functional stratification in a boreal peatland.
anoxic_peat_selects_methanogens anoxic deep peat selects for
Anoxic acidic peat selects methanogens that can produce methane at moderately acidic pH.		 acid-tolerant methanogens PMID:12513979
Horn and colleagues demonstrated hydrogenotrophic methanogenesis by methanogens from acidic peat.
peat_profile_stratifies_carbon_degradation vertical peat stratification partitions
Peat depth stratifies microbial carbohydrate-utilization genes and pathways.		 carbohydrate degradation PMID:24682300
Lin and colleagues linked vertical peatland community stratification to carbohydrate use and phosphorus limitation.
organic_matter_feeds_carbohydrate_degradation Sphagnum peat organic matter feeds
Sphagnum-derived organic matter supplies carbohydrates that peat microbes degrade along the peat profile.		 carbohydrate degradation PMID:24682299
Lin and colleagues recovered genes for plant-polymer degradation from ombrotrophic peat metagenomes.
carbohydrate_degradation_releases_methanogenesis_precursors carbohydrate degradation releases
Anaerobic carbohydrate degradation releases reduced substrates and carbon dioxide that methanogens can consume.		 H2 and CO2 methanogenesis precursors PMID:24682299
Lin and colleagues found increasing carbohydrate-metabolism potential with depth in Sphagnum peat.
h2_co2_feed_hydrogenotrophic_methanogenesis H2 and CO2 methanogenesis precursors fuels
Hydrogen and carbon dioxide fuel hydrogenotrophic methanogenesis in acidic peat.		 hydrogenotrophic methanogenesis PMID:12513979
Horn and colleagues identified hydrogenotrophic methanogenesis as a process in methane-emitting acidic peat.
methanogens_perform_hydrogenotrophic_methanogenesis acid-tolerant methanogens performs
Acid-tolerant methanogenic archaea reduce carbon dioxide with hydrogen in acidic peat.		 hydrogenotrophic methanogenesis PMID:12513979
Horn and colleagues enriched and characterized acid-tolerant methanogens from methane-emitting acidic peat.
methanogenesis_produces_methane hydrogenotrophic methanogenesis produces
Hydrogenotrophic methanogenesis produces methane in anoxic peat layers.		 methane PMID:16872405
Cadillo-Quiroz and colleagues measured methanogenic activity and methanogen distributions in acidic peatlands.
methane_supports_acidophilic_methanotrophs methane supports
Methane produced in peat supports acidophilic methanotrophic bacteria.		 acidophilic methanotrophs PMID:11837310
Dedysh and colleagues isolated the methanotroph Methylocapsa acidiphila from a Sphagnum peat bog.
methanotrophs_perform_methane_oxidation acidophilic methanotrophs performs
Acidophilic peat methanotrophs oxidize methane as a carbon and energy source.		 methane oxidation PMID:11837310
Dedysh and colleagues reported growth of Methylocapsa acidiphila on methane and methanol.
methane_oxidation_feeds_sphagnum_photosynthesis methane oxidation contributes to
Methanotrophic symbionts in peat bogs can convert methane into carbon that is reassimilated by Sphagnum.		 Sphagnum carbon fixation PMID:16121180
Raghoebarsing and colleagues demonstrated transfer of methane-derived carbon from methanotrophic symbionts to Sphagnum.

Associated taxa

Taxa reported from this habitat, which is weaker than being characteristic of it. rank is out of pool: a high rank in a pool of thousands of near-tied scores is a weak claim. Entries corroborated by a second, independent source are listed first.

Taxa reported from this habitat
TaxonSourceRankPoolCorroborated
Microbacterium trichothecenolyticum NCBITaxon:69370 PREGO 3 1320 MADIN
Saccharomonospora viridis DSM 43017 NCBITaxon:471857 PREGO 4 1320 MADIN
Pseudomonas putida NCBITaxon:303 MADIN — 27 PREGO
Mucilaginibacter polytrichastri NCBITaxon:1302689 PREGO 1 1320
Kaistella jeonii NCBITaxon:266749 PREGO 2 1320
Singulisphaera acidiphila DSM 18658 NCBITaxon:886293 PREGO 5 1320
Neoasaia chiangmaiensis NCBITaxon:320497 PREGO 6 1320
Acidithiobacillus caldus NCBITaxon:33059 PREGO 7 1320
Neisseria zalophi NCBITaxon:640030 PREGO 8 1320
Acidobacterium capsulatum NCBITaxon:33075 PREGO 9 1320
Streptomyces rochei NCBITaxon:1928 PREGO 10 1320
Isosphaera pallida NCBITaxon:128 PREGO 11 1320
Bradyrhizobium japonicum NCBITaxon:375 PREGO 12 1320
Methylocapsa acidiphila NCBITaxon:133552 PREGO 13 1320
Aspergillus fischeri NRRL 181 NCBITaxon:331117 PREGO 14 1320
Legionella pneumophila str. Paris NCBITaxon:297246 PREGO 15 1320
NCBITaxon:52061 PREGO 16 1320
Burkholderia pseudomallei 7894 NCBITaxon:441156 PREGO 17 1320
Leptospira interrogans serovar Lai str. 56601 NCBITaxon:189518 PREGO 18 1320
Sinorhizobium meliloti NCBITaxon:382 PREGO 19 1320
Ralstonia solanacearum UW551 NCBITaxon:342110 PREGO 20 1320
Burkholderia thailandensis TXDOH NCBITaxon:441165 PREGO 21 1320
Acidithiobacillus ferrooxidans ATCC 53993 NCBITaxon:380394 PREGO 22 1320
Pyrenophora tritici-repentis Pt-1C-BFP NCBITaxon:426418 PREGO 23 1320
Aspergillus oryzae RIB40 NCBITaxon:510516 PREGO 24 1320

Showing 25 of 48 kept associations.

Also called

Curation

What a curator decided about this record, and why. A record built from several source concepts can carry one decision per concept.

  1. REVIEW 2026-08-13 · claude-opus-5

    Reviewed and endorsed the seeder's own resolution. Multi-source review pass: this record is attested by more than one independent vocabulary, and this source's label or path was read against the record's ontology term to check the merge is right. It agrees. Source concepts in the same pass whose labels did not agree were re-decided rather than endorsed; see the pass's other decisions of the same date. (source concept habitatmech:GOLD.ea34835b16)

  2. REVIEW 2026-08-13 · claude-opus-5

    Reviewed and endorsed the seeder's own resolution. Multi-source review pass: this record is attested by more than one independent vocabulary, and this source's label or path was read against the record's ontology term to check the merge is right. It agrees. Source concepts in the same pass whose labels did not agree were re-decided rather than endorsed; see the pass's other decisions of the same date. (source concept habitatmech:PREGO.feb4910f1c)

  3. ADD_CAUSAL_GRAPH 2026-09-04 · codex

    Added a peat-soil acidic methane-cycling graph backed by PMID:24682299, PMID:24682300, PMID:12513979, PMID:16872405, PMID:11837310, and PMID:16121180.

Provenance

Generated by scripts/seed_from_sources.py from the committed inventories in data/raw/. View the record.