HabitatMech

deep marine sediment

ENVO:00002113 ·resolve ·AQUATIC ·EXACT SEEDED

Sediment that accumulates in the flat or very gently sloping areas of the deep ocean basin floor. The three main types of deep marine sediment, also known as pelagic sediment, are siliceous oozes, calcareous oozes, and red clays. — 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 sediment_marine_deep
Physicochemical parameter bands from kg-microbe's environment table.		 —
MADIN deep marine sediment 19 TAXON
PREGO deep marine sediment 2065 TAXON

Broader habitats

Environmental parameters

Physicochemical parameters
ParameterValueSource
GRADIENTShighkg-microbe environments.csv (sediment_marine_deep)
PHhighkg-microbe environments.csv (sediment_marine_deep)
PRESSUREhighkg-microbe environments.csv (sediment_marine_deep)
SALINITYhighkg-microbe environments.csv (sediment_marine_deep)
SALINITY_VARIABILITYsmallkg-microbe environments.csv (sediment_marine_deep)
STRUCTURAL_COMPLEXITYmediumkg-microbe environments.csv (sediment_marine_deep)
TEMPERATURElowkg-microbe environments.csv (sediment_marine_deep)
TEMPERATURE_VARIABILITYlowkg-microbe environments.csv (sediment_marine_deep)
WATER_AVAILABILITYhighkg-microbe environments.csv (sediment_marine_deep)
WATER_VARIABILITYpermanently wetkg-microbe environments.csv (sediment_marine_deep)

Causal graphs

Deep marine sediment sulfate-methane transition

Buried marine organic matter in anoxic deep sediment fuels slow sulfate reduction and methanogenesis, creating sulfate-methane transition zones where ANME archaea and sulfate-reducing bacteria anaerobically oxidize methane.

Directed graph · arrows run from subject to object. Focus or hover over a node or arrow for details; the evidence table follows.
Deep marine sediment sulfate-methane transition 12 nodes and 15 directed relationships. Labels and evidence are also available in the adjacent table. deep marine sediment — accumulates → buried marine organic matter; Evidence: PMID:15618510 accumulates buried marine organic matter — contributes to → anoxic porewater; Evidence: PMID:35308366 contributes to deep marine sediment — receives → seawater sulfate; Evidence: PMID:30194429 receives anoxic porewater — selects for → sulfate-reducing microorganisms; Evidence: PMID:35308366 selects for sulfate-reducing microorganisms — performs → sulfate reduction; Evidence: PMID:35308366 performs sulfate reduction — consumes → buried marine organic matter; Evidence: PMID:35308366 consumes sulfate reduction — creates → methanogenic sediment; Evidence: PMID:15618510 creates methanogenic sediment — produces → methane; Evidence: PMID:15618510 produces methane — overlaps with sulfate in → sulfate-methane transition zone; Evidence: PMID:30194429 overlaps with sulfate in seawater sulfate — overlaps with methane in → sulfate-methane transition zone; Evidence: PMID:30194429 overlaps with methane in sulfate-methane transition zone — hosts → ANME archaea; Evidence: PMID:30194429 hosts sulfate-methane transition zone — hosts → sulfate-reducing bacteria; Evidence: PMID:11034209 hosts ANME archaea — performs → anaerobic methane oxidation; Evidence: PMID:30194429 performs sulfate-reducing bacteria — contributes to → anaerobic methane oxidation; Evidence: PMID:11034209 contributes to anaerobic methane oxidation — consumes → methane; Evidence: PMID:30194429 consumes deep marine sediment (HABITAT); deep_marine_sediment; ENVO:00002113 HABITAT deep marine sediment buried marine organic matter (CHEMICAL); buried_marine_organic_matter CHEMICAL buried marine organic matter anoxic porewater (ENVIRONMENTAL_PARAMETER); anoxic_porewater ENVIRONMENTAL_PARAMETER anoxic porewater seawater sulfate (CHEMICAL); seawater_sulfate CHEMICAL seawater sulfate sulfate-reducing microorganisms (TAXON); sulfate_reducing_microorganisms TAXON sulfate-reducing microorganisms sulfate reduction (PATHWAY); sulfate_reduction PATHWAY sulfate reduction methanogenic sediment (ENVIRONMENTAL_PARAMETER); methanogenic_sediment ENVIRONMENTAL_PARAMETER methanogenic sediment methane (CHEMICAL); methane CHEMICAL methane sulfate-methane transition zone (STATE); sulfate_methane_transition_zone STATE sulfate-methane transition zone ANME archaea (TAXON); anme_archaea TAXON ANME archaea sulfate-reducing bacteria (TAXON); sulfate_reducing_bacteria TAXON sulfate-reducing bacteria anaerobic methane oxidation (PATHWAY); anaerobic_methane_oxidation PATHWAY anaerobic methane oxidation
deep_marine_sediment_sulfate_methane_transition edges
EdgeSubjectPredicateObjectEvidence
deep_sediment_buries_marine_organic_matter deep marine sediment accumulates
Deep marine sediments accumulate buried organic matter that supports subseafloor microbial activity.		 buried marine organic matter PMID:15618510
D'Hondt and colleagues mapped microbial activity in deep subseafloor sediments.
organic_burial_creates_anoxic_porewater buried marine organic matter contributes to
Buried organic matter degradation consumes oxidants and leaves deep marine porewaters anoxic.		 anoxic porewater PMID:35308366
Nagakura and colleagues studied microbial sulfate reduction in anoxic deep subseafloor sediment.
seawater_supplies_sulfate deep marine sediment receives
Deep marine sediment porewaters receive sulfate from overlying seawater and sulfate persists into the upper anoxic column.		 seawater sulfate PMID:30194429
Beulig and colleagues assayed sediments where seawater-derived sulfate overlaps methane in sulfate-methane transition zones.
anoxic_sediment_selects_sulfate_reducers anoxic porewater selects for
Anoxic marine sediment with sulfate selects microorganisms that conserve energy by sulfate reduction.		 sulfate-reducing microorganisms PMID:35308366
Nagakura and colleagues summarize sulfate reduction as the major organic-matter-degradation process in anoxic marine sediment.
sulfate_reducers_perform_sulfate_reduction sulfate-reducing microorganisms performs
Sulfate-reducing microorganisms mineralize organic matter with sulfate as the terminal electron acceptor.		 sulfate reduction PMID:35308366
Nagakura and colleagues measured biological sulfate reduction in deep subseafloor sediment.
sulfate_reduction_consumes_organic_matter sulfate reduction consumes
Sulfate reduction degrades buried organic matter in the anoxic sediment column.		 buried marine organic matter PMID:35308366
Nagakura and colleagues quantified sulfate reduction in organic-rich deep subseafloor sediments from Guaymas Basin.
depleted_sulfate_permits_methanogenic_sediment sulfate reduction creates
Sulfate depletion at depth allows methanogenic sediment zones to underlie sulfate-reducing marine sediment.		 methanogenic sediment PMID:15618510
D'Hondt and colleagues compared sulfate-reducing and methanogenic activity distributions in deep marine sediments.
methanogenic_sediment_produces_methane methanogenic sediment produces
Methanogenic deep sediment produces methane below the sulfate-reducing zone.		 methane PMID:15618510
D'Hondt and colleagues quantified sediment-column methanogenesis in ocean drilling cores.
methane_and_sulfate_form_smtz methane overlaps with sulfate in
Methane diffusing upward from methanogenic sediment meets sulfate diffusing downward in the sulfate-methane transition zone.		 sulfate-methane transition zone PMID:30194429
Beulig and colleagues resolved methane cycling at the marine sulfate-methane transition.
sulfate_and_methane_form_smtz seawater sulfate overlaps with methane in
Downward sulfate supply overlaps upward methane supply at the sulfate-methane transition.		 sulfate-methane transition zone PMID:30194429
Beulig and colleagues studied marine sediment horizons where sulfate and methane coexist and are consumed by cryptic methane cycling.
smtz_hosts_anme sulfate-methane transition zone hosts
Marine sulfate-methane transition zones host anaerobic methanotrophic archaea.		 ANME archaea PMID:30194429
Beulig and colleagues linked cryptic methane cycling in the marine sulfate-methane transition to ANME-1 archaea.
smtz_hosts_sulfate_reducers sulfate-methane transition zone hosts
Marine sulfate-methane transition zones host sulfate-reducing bacterial partners for anaerobic methane oxidation.		 sulfate-reducing bacteria PMID:11034209
Boetius and colleagues reported sulfate-reducing bacteria in a methane-oxidizing marine microbial consortium.
anme_perform_anaerobic_methane_oxidation ANME archaea performs
ANME archaea mediate anaerobic oxidation of methane in marine sulfate-methane transition zones.		 anaerobic methane oxidation PMID:30194429
Beulig and colleagues identify ANME-1 archaea as likely mediators of cryptic methane cycling in marine sulfate-methane transition zones.
sulfate_reducers_support_aom sulfate-reducing bacteria contributes to
Sulfate-reducing bacteria partner with methanotrophic archaea during anaerobic methane oxidation.		 anaerobic methane oxidation PMID:11034209
Boetius and colleagues described a consortium of methane-oxidizing archaea and sulfate-reducing bacteria.
aom_consumes_methane anaerobic methane oxidation consumes
Anaerobic methane oxidation consumes much of the methane that diffuses toward the overlying ocean.		 methane PMID:30194429
Beulig and colleagues summarize sulfate-coupled anaerobic oxidation as the dominant methane sink before seabed methane reaches seawater.

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
Pseudoalteromonas sp. SM9913 NCBITaxon:234831 MADIN — 19 PREGO
microbulbifer_thermotolerans NCBITaxon:252514 MADIN — 19 PREGO
Thermosediminibacter oceani DSM 16646 NCBITaxon:555079 MADIN — 19 PREGO
Marinoscillum furvescens NCBITaxon:1026 PREGO 1 2065
Rhodobacter capsulatus NCBITaxon:1061 PREGO 2 2065
Tenacibaculum maritimum NCBITaxon:107401 PREGO 3 2065
Magnetospirillum fulvum NCBITaxon:1082 PREGO 4 2065
Rhodospirillum rubrum NCBITaxon:1085 PREGO 5 2065
Rhodothalassium salexigens NCBITaxon:1086 PREGO 6 2065
Rhodovibrio salinarum NCBITaxon:1087 PREGO 7 2065
Thiothrix fructosivorans NCBITaxon:111770 PREGO 8 2065
Ignatzschineria larvae NCBITaxon:112009 PREGO 9 2065
Seinonella peptonophila NCBITaxon:112248 PREGO 10 2065
Marinomonas mediterranea NCBITaxon:119864 PREGO 11 2065
Nitrosococcus oceani NCBITaxon:1229 PREGO 12 2065
Piscirickettsia salmonis NCBITaxon:1238 PREGO 13 2065
Ruminococcus flavefaciens NCBITaxon:1265 PREGO 14 2065
Alkalilimnicola NCBITaxon:133193 PREGO 15 2065
Bacillus sp. (in: firmicutes) NCBITaxon:1409 PREGO 16 2065
Clostridium NCBITaxon:1485 PREGO 17 2065
Paraclostridium sordellii NCBITaxon:1505 PREGO 18 2065
Metabacillus litoralis NCBITaxon:152268 PREGO 19 2065
Desulforegula conservatrix NCBITaxon:153026 PREGO 20 2065
Romboutsia lituseburensis NCBITaxon:1537 PREGO 21 2065
NCBITaxon:158080 PREGO 22 2065

Showing 25 of 44 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. ADD_CAUSAL_GRAPH 2026-09-04 · codex

    Added a deep marine sediment sulfate-methane-transition graph backed by PMID:15618510, PMID:35308366, PMID:30194429, and PMID:11034209.

Provenance

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