SPECIES · STRAIN AND FUNCTION PROFILE

Eubacterium limosum

Validated caproate producer

Role labels distinguish demonstrated caproate production from community association; validate at strain level before causal interpretation.

1strain profiles

2assemblies

0MCFA marker genes

17%strain metadata coverage

Name, taxonomy and strain identifiers

Curation status: Exact match imported · Genome assembly accession · checked 2026-07-29. Exact strain-level match; curated BacDive fields imported.

Taxonomic record

Scientific name: Eubacterium limosum
Rank: species
NCBI Taxonomy: Not resolved at this level
Database role: Validated caproate producer

BacDive 5432 Type strain

Full name: Eubacterium limosum (Eggerth 1935) Prévot 1938
Culture collections: DSM 20543, ATCC 8486, NCIB 9763, CCUG 16793, JCM 6421, BCRC 14401, CIP 104169, JCM 9978, KCTC 3266, NCIMB 9763
History: Not curated
BacDive: Strain 5432

Morphology and observable traits

Strain	Gram stain	Cell shape	Motility	Spore formation	Colony morphology
BacDive 5432	Not curated	Not curated	Not curated	Not curated	Not curated

Culture and growth conditions

Strain	Medium	Temperature	pH	Atmosphere/result
BacDive 5432	PYG MEDIUM (MODIFIED) (DSMZ Medium 104)DSMZ Medium 104 · Name: PYG MEDIUM (modified) (DSMZ Medium 104) Composition: Yeast extract 10.0 g/l Peptone 5.0 g/l Trypticase peptone 5.0 g/l Beef extract 5.0 g/l Glucose 5.0 g/l L-Cysteine HCl x H2O 0.5 g/l NaHCO3 0.4 g/l NaCl 0.08 g/l K2HPO4 0.04 g/l KH2PO4 0.04 g/l MgSO4 x 7 H2O 0.02 g/l CaCl2 x 2 H2O 0.01 g/l Hemin 0.005 g/l Ethanol 0.0038 g/l Resazurin 0.001 g/l Tween 80 Vitamin K1 NaOH Distilled water	37.00 °C	—	— · yes
BacDive 5432	MEDIUM 187 - for anaerobic bacteria · Distilled water make up to (1000.000 ml);Glucose (5.000 g);Yeast extract(20.000 g);Tryptone (30.000 g);Cysteine hydrochloride (0.500 g);Hemin solution - M00149(25.000 ml)	37.00 °C	—	— · yes
BacDive 5432	CIP Medium 187 ·	37.00 °C	—	— · yes

Documented condition ranges

Profile	pH	Temperature	Electron donors	Substrates/reactor
BacDive documented cultivation conditions	?–?; optimum ?	37.00–37.00 °C; optimum ?	Not curated	—; culture-collection cultivation
Species-level documented cultivation conditions	?–?; optimum ?	37.00–37.00 °C; optimum ?	Not curated	—; species-level culture records

Physiology and metabolism

Documented substrates and products

Only approved assertions are shown. Results may be strain- and condition-specific.

Relationship	Compound/source term	Evidence	Confidence	Condition
Product	acetate	Curator assertionExisting mcfaKB curator phenotype summaries	0.800	Not recorded
Product	butyrate	Curator assertionExisting mcfaKB curator phenotype summaries	0.800	Not recorded
Product	caproate	Curator assertionExisting mcfaKB curator phenotype summaries	0.800	Not recorded
Substrate	CO	Curator assertionExisting mcfaKB curator phenotype summaries	0.800	Not recorded
Substrate	CO2	Curator assertionExisting mcfaKB curator phenotype summaries	0.800	Not recorded
Substrate	H2	Curator assertionExisting mcfaKB curator phenotype summaries	0.800	Not recorded
Substrate	methanol	Curator assertionExisting mcfaKB curator phenotype summaries	0.800	Not recorded

Predicted metabolic capabilities

Genome-derived hypotheses requiring review—not demonstrated substrates or products.

Capability	Basis/status	Confidence	Assemblies	Limitation
No genome-derived capabilities available.

Isolation, environment and safety

Strain	Isolation source	Category/location	Oxygen tolerance	Biosafety	GC content
BacDive 5432	Not curated	—	Not curated	Not curated	—%

Sequence information

Genome assemblies

Accession	Source	Level	Size/GC	Quality	BioProject
GCA_000807675.2	NCBI GenBank	Complete Genome	4422837 bp / 47.000%	—% complete; —% contamination	PRJNA270275
GCF_000807675.2	NCBI RefSeq	—	— bp / —%	—% complete; —% contamination	PRJNA270275

Marker and ribosomal sequences

Strain	Type	Accession	Length	Description
BacDive 5432	16S rRNA	M59120	1525 bp	Eubacterium limosum strain ATCC 8486 16S ribosomal RNA gene, partial sequence
BacDive 5432	16S rRNA	AB595134	1484 bp	Eubacterium limosum gene for 16S ribosomal RNA, partial sequence, strain: JCM 6421
BacDive 5432	16S rRNA	LC019782	1425 bp	Eubacterium limosum gene for 16S ribosomal RNA, partial sequence, strain: JCM 9978
BacDive 5432	Genome	GCA_000807675	— bp	ASM80767v2 assembly for Eubacterium limosum ATCC 8486

MCFA pathways and genes

Reverse β-oxidation (chain elongation)0 of 5 functions0%0%

Fatty acid biosynthesis (FAS II)0 of 7 functions0%0%

Show 0 annotation-derived MCFA genes

Gene	Locus	Function	Protein	Orthogroup
No strain-specific gene records.

Curator-approved marker pathway assessments

These summaries use approved candidate predictions only and update after every review decision.

Assembly	Pathway rule	Approved markers	Status
GCA_000807675.2	bcd_etf_module	2 / 3	Incomplete
GCA_000807675.2	ethanol_entry_support	0 / 1	Incomplete
GCA_000807675.2	fatty_acid_biosynthesis_core	6 / 8	Incomplete
GCA_000807675.2	lactate_entry_support	1 / 2	Incomplete
GCA_000807675.2	reverse_beta_oxidation_core	1 / 4	Incomplete
GCA_000807675.2	rnf_complex	6 / 6	Complete

Profile-HMM marker predictions

Approved candidates and unresolved review calls are genomic hypotheses, not evidence of expression or MCFA production.

Marker	Assembly / protein	Confidence and status	Support	Review history
accAacetyl-CoA carboxylase carboxyltransferase alpha	GCA_000807675.2WP_038353930.1 · acetyl-CoA carboxylase carboxyltransferase subunit alpha	Medium · Needs review		0 decisionsretain confidence tier and orthogroup-support fields during import
accBacetyl-CoA carboxylase biotin carboxyl carrier protein	GCA_000807675.2WP_038353933.1 · acetyl-CoA carboxylase biotin carboxyl carrier protein	Medium · Approved candidate	gene_symbol	0 decisionsstrong profile plus independent annotation support: gene_symbol
accCacetyl-CoA carboxylase biotin carboxylase	GCA_000807675.2WP_038353932.1 · acetyl-CoA carboxylase biotin carboxylase subunit	Medium · Approved candidate	gene_symbol	0 decisionsstrong profile plus independent annotation support: gene_symbol
accCacetyl-CoA carboxylase biotin carboxylase	GCA_000807675.2WP_038350825.1 · pyruvate carboxylase	Medium · Needs review		0 decisionsretain confidence tier and orthogroup-support fields during import
accDacetyl-CoA carboxylase carboxyltransferase beta	GCA_000807675.2WP_038353931.1 · acetyl-CoA carboxylase, carboxyltransferase subunit beta	High · Approved candidate	OG0000844gene_symbol	0 decisionsstrong profile and bridge orthogroup support; annotation support: gene_symbol
bcdbutyryl-CoA dehydrogenase	GCA_000807675.2WP_013378878.1 · acyl-CoA dehydrogenase	Medium · Needs review		0 decisionsretain confidence tier and orthogroup-support fields during import
bcdbutyryl-CoA dehydrogenase	GCA_000807675.2WP_038351959.1 · acyl-CoA dehydrogenase	Medium · Needs review		0 decisionsretain confidence tier and orthogroup-support fields during import
bcdbutyryl-CoA dehydrogenase	GCA_000807675.2WP_081571245.1 · acyl-CoA dehydrogenase family protein	Medium · Needs review		0 decisionsretain confidence tier and orthogroup-support fields during import
bcdbutyryl-CoA dehydrogenase	GCA_000807675.2WP_038353017.1 · acyl-CoA dehydrogenase family protein	Medium · Needs review		0 decisionsretain confidence tier and orthogroup-support fields during import
crtcrotonase/enoyl-CoA hydratase	GCA_000807675.2WP_038353019.1 · enoyl-CoA hydratase-related protein	Medium · Needs review	specific_product_name	0 decisionsextreme per-proteome copy number; profile alone is not function-specific
crtcrotonase/enoyl-CoA hydratase	GCA_000807675.2WP_038350952.1 · enoyl-CoA hydratase-related protein	High · Approved candidate	OG0002531specific_product_name	0 decisionsstrong profile and bridge orthogroup support; annotation support: specific_product_name
etfAelectron transfer flavoprotein alpha subunit	GCA_000807675.2WP_038352355.1 · lactate dehydrogenase subunit LctC	High · Approved candidate	OG0002903	0 decisionsstrong profile and bridge orthogroup support
etfAelectron transfer flavoprotein alpha subunit	GCA_000807675.2WP_013378880.1 · electron transfer flavoprotein subunit alpha/FixB family protein	Medium · Needs review		0 decisionsretain confidence tier and orthogroup-support fields during import
etfAelectron transfer flavoprotein alpha subunit	GCA_000807675.2WP_052237222.1 · electron transfer flavoprotein subunit alpha/FixB family protein	Medium · Needs review		0 decisionsretain confidence tier and orthogroup-support fields during import
etfBelectron transfer flavoprotein beta subunit	GCA_000807675.2WP_038350951.1 · electron transfer flavoprotein subunit beta/FixA family protein	Medium · Needs review		0 decisionsretain confidence tier and orthogroup-support fields during import
etfBelectron transfer flavoprotein beta subunit	GCA_000807675.2WP_038352354.1 · lactate dehydrogenase subunit LctB	High · Approved candidate	OG0002348	0 decisionsstrong profile and bridge orthogroup support
etfBelectron transfer flavoprotein beta subunit	GCA_000807675.2WP_038351909.1 · electron transfer flavoprotein subunit beta/FixA family protein	Medium · Needs review		0 decisionsretain confidence tier and orthogroup-support fields during import
etfBelectron transfer flavoprotein beta subunit	GCA_000807675.2WP_038352172.1 · electron transfer flavoprotein subunit beta/FixA family protein	High · Approved candidate	OG0002348	0 decisionsstrong profile and bridge orthogroup support
fabDmalonyl-CoA--ACP transacylase	GCA_000807675.2WP_038353926.1 · ACP S-malonyltransferase	Medium · Approved candidate	gene_symbol	0 decisionsstrong profile plus independent annotation support: gene_symbol
fabF3-oxoacyl-ACP synthase II	GCA_000807675.2WP_038353924.1 · beta-ketoacyl-ACP synthase II	Medium · Approved candidate	gene_symbol	0 decisionsstrong profile plus independent annotation support: gene_symbol
fabG3-oxoacyl-ACP reductase	GCA_000807675.2WP_172611067.1 · 3-oxoacyl-[acyl-carrier-protein] reductase	High · Approved candidate	OG0000008gene_symbol	0 decisionsstrong profile and bridge orthogroup support; annotation support: gene_symbol
fabG3-oxoacyl-ACP reductase	GCA_000807675.2WP_038351203.1 · SDR family NAD(P)-dependent oxidoreductase	Medium · Needs review		0 decisionsextreme per-proteome copy number; profile alone is not function-specific
fabG3-oxoacyl-ACP reductase	GCA_000807675.2WP_081571095.1 · SDR family NAD(P)-dependent oxidoreductase	Medium · Needs review		0 decisionsextreme per-proteome copy number; profile alone is not function-specific
fabG3-oxoacyl-ACP reductase	GCA_000807675.2WP_038353587.1 · SDR family NAD(P)-dependent oxidoreductase	Medium · Needs review		0 decisionsextreme per-proteome copy number; profile alone is not function-specific
fabG3-oxoacyl-ACP reductase	GCA_000807675.2WP_081571056.1 · SDR family NAD(P)-dependent oxidoreductase	High · Needs review	OG0000008	0 decisionsextreme per-proteome copy number; profile alone is not function-specific
fabG3-oxoacyl-ACP reductase	GCA_000807675.2WP_038351584.1 · SDR family oxidoreductase	Medium · Needs review		0 decisionsextreme per-proteome copy number; profile alone is not function-specific
fabG3-oxoacyl-ACP reductase	GCA_000807675.2WP_038350732.1 · 7alpha-hydroxysteroid dehydrogenase	Medium · Needs review		0 decisionsextreme per-proteome copy number; profile alone is not function-specific
fabG3-oxoacyl-ACP reductase	GCA_000807675.2WP_038350745.1 · SDR family NAD(P)-dependent oxidoreductase	Medium · Needs review		0 decisionsextreme per-proteome copy number; profile alone is not function-specific
fabG3-oxoacyl-ACP reductase	GCA_000807675.2WP_038353714.1 · SDR family NAD(P)-dependent oxidoreductase	Medium · Needs review	OG0000242	0 decisionsextreme per-proteome copy number; profile alone is not function-specific
fabH3-oxoacyl-ACP synthase III	GCA_000807675.2WP_038353929.1 · beta-ketoacyl-ACP synthase III	Medium · Needs review		0 decisionsno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation
fabKenoyl-ACP reductase FabK	GCA_000807675.2WP_038353928.1 · DUF561 domain-containing protein	Medium · Needs review		0 decisionsno bridge-supported orthogroup; require domain, motif, or neighborhood confirmation
fabLenoyl-ACP reductase FabL	GCA_000807675.2WP_172611067.1 · 3-oxoacyl-[acyl-carrier-protein] reductase	Medium · Needs review		0 decisionsextreme per-proteome copy number; profile alone is not function-specific
fabLenoyl-ACP reductase FabL	GCA_000807675.2WP_081571095.1 · SDR family NAD(P)-dependent oxidoreductase	Medium · Needs review		0 decisionsextreme per-proteome copy number; profile alone is not function-specific
fabLenoyl-ACP reductase FabL	GCA_000807675.2WP_038351203.1 · SDR family NAD(P)-dependent oxidoreductase	Medium · Needs review		0 decisionsextreme per-proteome copy number; profile alone is not function-specific
fabLenoyl-ACP reductase FabL	GCA_000807675.2WP_038353587.1 · SDR family NAD(P)-dependent oxidoreductase	Medium · Needs review		0 decisionsextreme per-proteome copy number; profile alone is not function-specific
fabLenoyl-ACP reductase FabL	GCA_000807675.2WP_038351584.1 · SDR family oxidoreductase	Medium · Needs review		0 decisionsextreme per-proteome copy number; profile alone is not function-specific
fabLenoyl-ACP reductase FabL	GCA_000807675.2WP_038350732.1 · 7alpha-hydroxysteroid dehydrogenase	Medium · Needs review		0 decisionsextreme per-proteome copy number; profile alone is not function-specific
fabLenoyl-ACP reductase FabL	GCA_000807675.2WP_081571056.1 · SDR family NAD(P)-dependent oxidoreductase	Medium · Needs review		0 decisionsextreme per-proteome copy number; profile alone is not function-specific
fabLenoyl-ACP reductase FabL	GCA_000807675.2WP_038350745.1 · SDR family NAD(P)-dependent oxidoreductase	Medium · Needs review		0 decisionsextreme per-proteome copy number; profile alone is not function-specific
fabZ3-hydroxyacyl-ACP dehydratase	GCA_000807675.2WP_038353923.1 · 3-hydroxyacyl-ACP dehydratase FabZ	High · Approved candidate	OG0000074gene_symbol	0 decisionsstrong profile and bridge orthogroup support; annotation support: gene_symbol
hbd3-hydroxybutyryl-CoA dehydrogenase	GCA_000807675.2WP_013378877.1 · 3-hydroxyacyl-CoA dehydrogenase family protein	Medium · Needs review		0 decisionsretain confidence tier and orthogroup-support fields during import
lctPL-lactate permease	GCA_000807675.2WP_038352356.1 · L-lactate permease	High · Approved candidate	OG0000731	0 decisionsstrong profile and bridge orthogroup support
rnfARnf complex subunit A	GCA_000807675.2WP_013380941.1 · electron transport complex subunit RsxA	High · Approved candidate	OG0001169	0 decisionsstrong profile and bridge orthogroup support
rnfBRnf complex subunit B	GCA_000807675.2WP_052237108.1 · RnfABCDGE type electron transport complex subunit B	High · Approved candidate	OG0001404	0 decisionsstrong profile and bridge orthogroup support
rnfCRnf complex subunit C	GCA_000807675.2WP_013382320.1 · 4Fe-4S dicluster domain-containing protein	Medium · Needs review		0 decisionsretain confidence tier and orthogroup-support fields during import
rnfCRnf complex subunit C	GCA_000807675.2WP_038351329.1 · electron transport complex subunit RsxC	High · Approved candidate	OG0001114	0 decisionsstrong profile and bridge orthogroup support
rnfDRnf complex subunit D	GCA_000807675.2WP_038351330.1 · RnfABCDGE type electron transport complex subunit D	High · Approved candidate	OG0001182	0 decisionsstrong profile and bridge orthogroup support
rnfERnf complex subunit E	GCA_000807675.2WP_038351331.1 · electron transport complex subunit RsxE	High · Approved candidate	OG0001153	0 decisionsstrong profile and bridge orthogroup support
rnfGRnf complex subunit G	GCA_000807675.2WP_052237107.1 · RnfABCDGE type electron transport complex subunit G	High · Approved candidate	OG0001292	0 decisionsstrong profile and bridge orthogroup support
thlacetyl-CoA acetyltransferase/thiolase	GCA_000807675.2WP_038350953.1 · acetyl-CoA C-acetyltransferase	Medium · Needs review		0 decisionsretain confidence tier and orthogroup-support fields during import

Literature and provenance

Study	DOI	Public data
No organism-linked literature indexed yet.

Profile evidence

BacDive strain record 5432: Eubacterium limosum BacDive 5432 — Curator assertion

External databases can change. mcfaKB records source links and separates experimentally reported, curator-entered and predicted information.