Caldanaerobacter subterraneus (DSM 13054, CNCM I-2383, 7858)

Name: Caldanaerobacter subterraneus (DSM 13054, CNCM I-2383, 7858)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 16794

Type strain

Strain Designation 7858

Culture col. no. DSM 13054 CNCM I-2383 7858

NCBI tax ID(s) 911092 111823

Special Collections DSMZ

History DSMZ <- M.-L. Fardeau, Universités de Provence et de la Méditerranée, ESIL, Marseille, France; 7858 <- M.-L. Fardeau {1996}

Links

Caldanaerobacter subterraneus 7858 is an anaerobe bacterium that was isolated from oil field.

anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 45452

ATCC BAA-225,DSM 13054

@ref 20215

Last LPSN update 2026-05-29 08:28:51

Domain Bacteria

Phylum Bacillota

Class Clostridia

Order Thermoanaerobacterales

Family Thermoanaerobacteraceae

Genus Caldanaerobacter

Species Caldanaerobacter subterraneus

Full scientific name Caldanaerobacter subterraneus (Fardeau et al. 2000) Fardeau et al. 2004

Synonyms (1)

Thermoanaerobacter subterraneus

BacDive ID	Other strains from **Caldanaerobacter subterraneus** (3)	Type strain
16792	C. subterraneus OCA1, DSM 15729
16795	C. subterraneus SL9, DSM 14441
138398	C. subterraneus SL9, CIP 107100

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
4887	CALDANAEROBACTER MEDIUM (DSMZ Medium 899)		Medium recipe at MediaDive	Name: CALDANAEROBACTER MEDIUM (DSMZ Medium 899) Composition: D-Glucose 3.9604 g/l Na2S2O3 x 5 H2O 2.47525 g/l Yeast extract 1.9802 g/l NH4Cl 0.990099 g/l Na2CO3 0.990099 g/l MgCl2 x 6 H2O 0.990099 g/l L-Cysteine HCl x H2O 0.49505 g/l Na2S x 9 H2O 0.445545 g/l K2HPO4 0.29703 g/l KH2PO4 0.29703 g/l KCl 0.19802 g/l MgSO4 x 7 H2O 0.029703 g/l Nitrilotriacetic acid 0.0148515 g/l NaCl 0.00990099 g/l MnSO4 x H2O 0.00495049 g/l CoSO4 x 7 H2O 0.00178218 g/l ZnSO4 x 7 H2O 0.00178218 g/l CaCl2 x 2 H2O 0.000990099 g/l FeSO4 x 7 H2O 0.000990099 g/l Sodium resazurin 0.00049505 g/l NiCl2 x 6 H2O 0.00029703 g/l AlK(SO4)2 x 12 H2O 0.00019802 g/l CuSO4 x 5 H2O 9.90099e-05 g/l H3BO3 9.90099e-05 g/l Na2MoO4 x 2 H2O 9.90099e-05 g/l Na2WO4 x 2 H2O 3.9604e-06 g/l Na2SeO3 x 5 H2O 2.9703e-06 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
4887	positive	growth	65

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
4887	anaerobe
125439	anaerobe	99.606

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Industrial	#Oil reservoir
#Environmental	#Terrestrial	#Geologic

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
4887	oil field	Lacq Supérieur	France	FRA	Europe

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
4887	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM434567v1 assembly for Caldanaerobacter subterraneus DSM 13054	scaffold	GCA_004345675	911092.6	2802428857	911092	60.86

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
4887	Caldanaerobacter subterraneus partial 16S rRNA gene, type strain DSM 13054T, clone 1	HE582758	1562	911092
4887	Caldanaerobacter subterraneus partial 16S rRNA gene, type strain DSM 13054T, clone 2	HE582759	1526	911092
4887	Caldanaerobacter subterraneus partial 16S rRNA gene, type strain DSM 13054T, clone 3	HE582760	1525	911092
4887	Caldanaerobacter subterraneus partial 16S rRNA gene, type strain DSM 13054T, clone 4	HE582761	1531	911092

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM434567v1 assembly for Caldanaerobacter subterraneus DSM 13054
NCBI: GCA_004345675

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	99.61	no
125439	gram_stain	BacteriaNetⓘ	variable	69.50	no
125439	motility	BacteriaNetⓘ	yes	66.43	no
125439	spore_formation	BacteriaNetⓘ	yes	59.52	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Caldanaerobacter subterraneus DSM 13054
NCBI: GCA_004345675.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	60.85	no
125438	anaerobic	anaerobicⓘ	yes	89.83	yes
125438	aerobic	aerobicⓘ	no	95.28	yes
125438	spore-forming	spore-formingⓘ	yes	70.24	no
125438	thermophilic	thermophileⓘ	yes	73.86	yes
125438	flagellated	motile2+ⓘ	yes	73.47	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Expansion segments in bacterial and archaeal 5S ribosomal RNAs.	Stepanov VG, Fox GE.	RNA	10.1261/rna.077123.120	2021
	Fermentation of Mannitol Extracts From Brown Macro Algae by Thermophilic Clostridia.	Chades T, Scully SM, Ingvadottir EM, Orlygsson J.	Front Microbiol	10.3389/fmicb.2018.01931	2018
Phylogeny	Isolation from oil reservoirs of novel thermophilic anaerobes phylogenetically related to Thermoanaerobacter subterraneus: reassignment of T. subterraneus, Thermoanaerobacter yonseiensis, Thermoanaerobacter tengcongensis and Carboxydibrachium pacificum to Caldanaerobacter subterraneus gen. nov., sp. nov., comb. nov. as four novel subspecies.	Fardeau ML, Salinas MB, L'Haridon S, Jeanthon C, Verhe F, Cayol JL, Patel BKC, Garcia JL, Ollivier B	Int J Syst Evol Microbiol	10.1099/ijs.0.02711-0	2004
Phylogeny	Thermoanaerobacter subterraneus sp. nov., a novel thermophile isolated from oilfield water.	Fardeau ML, Magot M, Patel BK, Thomas P, Garcia JL, Ollivier B	Int J Syst Evol Microbiol	10.1099/00207713-50-6-2141	2000

References

#4887	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 13054
#20215	Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.: List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ. IJSEM ( DOI 10.1099/ijsem.0.004332 )
#66792	Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Caldanaerobacter subterraneus (DSM 13054, CNCM I-2383, 7858)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_004345675

16S sequences

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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