CultureScope

Culture profile

Clostridium fimetarium

  • First described 1997
  • Risk group 1
  • TaxID 99656
  • 52 evidence sentences
  • 18 sources
  • Literature 1971–2025

cellular organisms; Bacteria; Bacillati; Bacillota; Clostridia; Lachnospirales; Lachnospiraceae; Lachnoclostridium

unreviewed

Built 25 Aug 2026 · 47 days ago

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At a glance

1 Media low

Thioglycollate broth · Blood agar

2 Temperature moderate

35–37 °C

3 Growth time low

2 h

4 Colony low

The PelA recombinant colonies were cultured and induced for expression for approximately 96 h in Pichia pastoris , as described by Mattanovich et al.

5 Gram moderate

Gram-negative (rod, curved rod)

6 Biochemical tests moderate

16S rRNA gene sequencing · Catalase — reported negative · Hydrogen sulfide (H2S) — reported positive +3 more

Evidence base by publication year

How current the underlying literature is. Recent work is weighted more heavily, but classical descriptions still count — that is often where the phenotype was characterised properly.

1971 — 1 source1972 — 1 source1995 — 1 source2002 — 2 sources2007 — 1 source2009 — 2 sources2015 — 1 source2016 — 4 sources2019 — 1 source2022 — 1 source2023 — 1 source2024 — 1 source2025 — 1 source197120162025

Latest literature

The newest publications that fed this profile.

1 Media used

low

2 Optimum temperature for growth

moderate

35–37 °C

Moderate confidence · score 6.97 · 3 sources

Evidence (6)
Other values reported (4)

3 Time required to grow

low

2 h

Low confidence · score 1.5 · 1 source

Evidence (1)
  • Isolation and characterization of anaerobic microbes from marine environments in Korea. 유기산을 생산하는 발효미생물을 획득하기 위해 갯벌, 심해, 염전 등의 퇴적토와 해초시료 등의 시료에 대해 methanogen 배지, acetogen 배지, Clostridium용 배지 등을 이용하여 농후 배양을 실시하였다. 총 8개 시료로부터 65주의 혐기성 미생물을 분리하였으며 이 중 신규성이 높거나 활용성이 높다고 알려진 11종에 대해 계통분석, 성장 양식(growth pattern), 유기산 생산 평가 등을 시도하였다. 분석이 수행된 균주 중 Bacteroidia 강에 속하는 1주 외에는 모두 Clostridia 강에 속하였으며 성장속도는 $1.2h^{-1}$ 이상이었다. 분석이 수행된 7종 중 6종은 아세트산을 생성하였으며, 부가적으로 2균주는 부틸산을, 4균주는 개미산을 생산하였다. Isolation and characterization of anaerobic microbes from marine environments in Korea — OpenAlex, 2016
Other values reported (4)
Sources disagree: "2 h" (score 1.5) versus "12 h" (score 1.4). Both are shown; a reviewer should decide.

4 Colony morphology

low

The PelA recombinant colonies were cultured and induced for expression for approximately 96 h in Pichia pastoris , as described by Mattanovich et al. [ 30 ].

Low confidence · score 1.09 · 1 source

Evidence (1)

5 Gram character

moderate

Gram-negative (rod, curved rod)

Moderate confidence · score 6.9 · 5 sources

Evidence (5)
Other values reported (1)
Sources disagree: "Gram-negative (rod, curved rod)" (score 6.9) versus "Gram-positive (rod)" (score 6.13). Both are shown; a reviewer should decide.

6 Biochemical tests for identification

moderate

7 References used

18 sources
  1. Molecular Characterization of a Novel Alkaline Endo-Pectate Lyase from Paenibacillus borealis and Over-Production in Bioreactor Realized by Constructing the Tandem Expression Cassettes in Host Genome 2025
    PMC12430865 · via PubMed Central (open access) · supported: Growth time, Colony, Temperature
  2. Comparative time-series analyses of gut microbiome profiles in genetically and chemically induced lupus-prone mice and the impacts of fecal transplantation 2024
    PMC11530527 · via PubMed Central (open access) · supported: Growth time
  3. Genomic potential and physiological characteristics of C1 metabolism in novel acetogenic bacteria 2023
    https://openalex.org/W4387773887 · via OpenAlex · supported: Growth time
  4. Characterization of cervical canal and vaginal bacteria in pregnant women with cervical incompetence 2022
    c4f08d864e49434f91befd3abbb6d8a6 · via DOAJ · supported: Biochemical tests
  5. Impact of Pristine Graphene on Intestinal Microbiota Assessed Using a Bioreactor-Rotary Cell Culture System. 2019
    MED:31260263 doi:10.1021/acsami.9b07635 · via Europe PMC · supported: Growth time, Biochemical tests
  6. Falcatimonas natans gen. nov., sp. nov., a strictly anaerobic, amino-acid-decomposing bacterium isolated from a methanogenic reactor of cattle waste. 2016
    PMID:27506535 · via PubMed (NCBI E-utilities) · supported: Gram, Temperature, Biochemical tests
  7. Falcatimonas natans gen. nov., sp. nov., a strictly anaerobic, amino-acid-decomposing bacterium isolated from a methanogenic reactor of cattle waste. 2016
    MED:27506535 doi:10.1099/ijsem.0.001403 · via Europe PMC · supported: Gram, Temperature, Biochemical tests
  8. Isolation and characterization of anaerobic microbes from marine environments in Korea 2016
    https://openalex.org/W2501951381 · via OpenAlex · supported: Growth time, Biochemical tests
  9. Startup of Microbial Fuel Cells with Pure Ferric Iron-reducing Bacteria Isolates 2016
    https://openalex.org/W3091826724 · via OpenAlex · supported: Gram
  10. Roles of Commensal Microbiota in Pancreas Homeostasis and Pancreatic Pathologies 2015
    PMC4544440 · via PubMed Central (open access) · supported: Media, Gram
  11. Anaerobic psychrophiles from Lake Zub and Lake Untersee, Antarctica 2009
    https://openalex.org/W1990691253 · via OpenAlex · supported: Biochemical tests, Temperature
  12. Psychrophilic and Psychrotolerant Microbial Extremophiles in Polar Environments 2009
    https://openalex.org/W181884455 · via OpenAlex · supported: Biochemical tests
  13. Microbial community analysis in sludge of anaerobic wastewater treatment systems : integrated culture-dependent and culture-independent approaches 2007
    https://openalex.org/W2153442936 · via OpenAlex · supported: Biochemical tests
  14. Partitioning of Bacterial Communities between Seawater and Healthy, Black Band Diseased, and Dead Coral Surfaces 2002
    PMC127591 · via PubMed Central (open access) · supported: Biochemical tests
  15. Partitioning of bacterial communities between seawater and healthy, black band diseased, and dead coral surfaces. 2002
    MED:11976091 doi:10.1128/aem.68.5.2214-2228.2002 · via Europe PMC · supported: Biochemical tests
  16. [A new psychroactive bacterium, Clostridium fimentarium, isolated from cattle manure fermented at a low temperature]. 1995
    PMID:8643039 · via PubMed (NCBI E-utilities) · supported: Gram, Biochemical tests
  17. Chemically Defined Medium for Growth and Sporulation of Clostridium perfringens 1972
    doi:10.1128/am.24.5.755-759.1972 · via Crossref · supported: Media
  18. Chemically Defined Medium for the Growth of Clostridium perfringens 1971
    doi:10.1128/am.22.4.738-739.1971 · via Crossref · supported: Media

Catalogues to check by hand

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Scan log — what each database returned
DatabaseStatusRecordsEvidenceTimeNote
NCBI Taxonomy — lineage and accepted name empty 0 0 1426 ms TaxID 99656 (species).
LPSN — nomenclatural status skipped 0 0 0 ms Skipped — LPSN credentials not configured (free registration).
StrainInfo — strain cross-references empty 0 0 1152 ms No response (endpoint may require a different path).
GBIF — name resolution empty 0 0 672 ms Matched as Clostridium fimetarium Kotsyurbenko et al., 1997 (ACCEPTED).
Wikidata — identifier bridge empty 0 0 897 ms Item Q3681061 matched.
DSMZ MediaDive — curated growth media empty 0 0 691 ms No media entries matched this name in MediaDive.
BacDive — curated strain phenotypes skipped 0 0 0 ms Skipped — BacDive credentials not configured. This is the single highest-value source; registration is free.
PubMed — culture and cultivation query hit 2 7 1798 ms 2 abstracts retrieved (culture query).
PubMed — morphology and identification query hit 1 5 2367 ms 1 abstracts retrieved (pheno query).
PubMed Central — open-access Methods sections hit 5 18 7044 ms 5 open-access full texts mined.
Europe PMC — abstract search hit 8 8 5960 ms 8 records from Europe PMC.
Europe PMC — full-text mining empty 0 0 3323 ms 0 full texts mined for Methods detail.
Crossref — DOI metadata hit 25 3 1142 ms 25 DOI records (abstracts only where deposited).
OpenAlex — open scholarly graph hit 25 10 2471 ms 25 works (inverted abstracts reconstructed locally).
Semantic Scholar — abstracts empty 0 0 1140 ms Rate-limited or unavailable (keyless access is throttled).
DOAJ — open-access journals hit 1 1 720 ms 1 open-access articles.
OpenAIRE — repository publications empty 0 0 818 ms 0 repository publications.
SciELO — regional journals empty 0 0 566 ms No parseable SciELO response (their JSON output is unstable; a deep link is still provided).
NCBI Bookshelf — reference texts hit 8 0 1334 ms 8 reference-text chapters listed.
CORE — aggregated repositories skipped 0 0 0 ms Skipped — no API key configured.
Springer Nature — publisher metadata skipped 0 0 0 ms Skipped — no API key configured.
ScienceDirect — publisher metadata skipped 0 0 0 ms Skipped — no API key configured.
bioRxiv / medRxiv — preprints empty 0 0 1550 ms 0 preprints (not peer reviewed — weighted down).
Zenodo — datasets and protocols empty 0 0 706 ms 0 deposits (datasets, theses, protocols).
Wikipedia — orientation only empty 0 0 966 ms No article found.
ATCC — deep link empty 0 0 0 ms Deep link prepared — open manually.
NCTC / UKHSA — deep link empty 0 0 0 ms Deep link prepared — open manually.
Google Scholar — deep link (not crawled) empty 0 0 0 ms Deep link prepared — open manually.
protocols.io — deep link empty 0 0 0 ms Deep link prepared — open manually.
ResearchGate — deep link empty 0 0 0 ms Deep link prepared — open manually.