Desulfofundulus thermosubterraneus (DSM 16057, JCM 13837, RL50JIII)

Name: Desulfofundulus thermosubterraneus (DSM 16057, JCM 13837, RL50JIII)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 11830

Type strain

Strain Designation RL50JIII

Culture col. no. DSM 16057 JCM 13837 RL50JIII

NCBI tax ID(s) 1121432 348840

Special Collections DSMZ JCM

History <- A. H. Kaksonen, Tampere Univ. Technol., Finland; RL50JIII <- A. H. Kaksonen {2002} DSM 16057 <-- A. Kaksonen RL50JIII.

Links

Desulfofundulus thermosubterraneus RL50JIII is an anaerobe bacterium that was isolated from geothermally active underground mine.

anaerobe genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 297186

DSM 16057,JCM 13837

@ref 20215

Last LPSN update 2026-02-09 11:20:40

Domain Bacteria

Phylum Bacillota

Class Clostridia

Order Eubacteriales

Family Peptococcaceae

Genus Desulfofundulus

Species Desulfofundulus thermosubterraneus

Full scientific name Desulfofundulus thermosubterraneus (Kaksonen et al. 2006) Watanabe et al. 2018

Synonyms (1)

Desulfotomaculum thermosubterraneum

Morphology

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
6246	DESULFOVIBRIO (MV) MEDIUM (DSMZ Medium 641)		Medium recipe at MediaDive	Name: DESULFOVIBRIO (MV) MEDIUM (DSMZ Medium 641) Composition: Na-DL-lactate 2.49252 g/l Na2SO4 1.99402 g/l NH4Cl 0.997009 g/l Yeast extract 0.997009 g/l Na2CO3 0.997009 g/l MgSO4 x 7 H2O 0.997009 g/l Na2S2O3 x 5 H2O 0.997009 g/l KH2PO4 0.498504 g/l Na2S x 9 H2O 0.0997009 g/l CaCl2 x 2 H2O 0.0997009 g/l HCl 0.00249252 g/l FeCl2 x 4 H2O 0.00149551 g/l NaOH 0.000498504 g/l Sodium resazurin 0.000498504 g/l CoCl2 x 6 H2O 0.000189432 g/l MnCl2 x 4 H2O 9.97009e-05 g/l Pyridoxine hydrochloride 9.97009e-05 g/l ZnCl2 6.97906e-05 g/l Riboflavin 4.98504e-05 g/l Nicotinic acid 4.98504e-05 g/l Thiamine HCl 4.98504e-05 g/l (DL)-alpha-Lipoic acid 4.98504e-05 g/l p-Aminobenzoic acid 4.98504e-05 g/l Calcium D-(+)-pantothenate 4.98504e-05 g/l Na2MoO4 x 2 H2O 3.58923e-05 g/l NiCl2 x 6 H2O 2.39282e-05 g/l Biotin 1.99402e-05 g/l Folic acid 1.99402e-05 g/l H3BO3 5.98205e-06 g/l Na2WO4 x 2 H2O 3.98804e-06 g/l Na2SeO3 x 5 H2O 2.99103e-06 g/l CuCl2 x 2 H2O 1.99402e-06 g/l Vitamin B12 9.97009e-07 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)
6246	positive	growth	60
67770	positive	growth	60

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
6246	anaerobe
125438	anaerobe	91.546
125439	anaerobe	97.6

Observation

67770

Observationquinones: MK-7

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Engineered	#Other	#Mine

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
6246	geothermally active underground mine	Hokkaido, Toyoha mine	Japan	JPN	Asia
67770	Geothermally active underground mine		Japan	JPN	Asia

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
6246	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
67770	IMG-taxon 2585428086 annotated assembly for Desulfofundulus thermosubterraneus DSM 16057	scaffold	GCA_900142025	1121432.3	2585428086	1121432	56.46

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
6246	Desulfotomaculum thermosubterraneum strain RL50JIII 16S ribosomal RNA gene, partial sequence	DQ208688	1505		1121432

GC content

@ref	GC-content (mol%)	Method
67770	54.5	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Desulfofundulus thermosubterraneus DSM 16057
NCBI: GCA_900142025

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	anaerobe	97.60	no
125439	gram_stain	BacteriaNetⓘ	negative	80.30	no
125439	motility	BacteriaNetⓘ	yes	53.30	no
125439	spore_formation	BacteriaNetⓘ	yes	62.10	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Desulfotomaculum thermosubterraneum DSM 16057
PATRIC: 1121432.3

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	yes	59.95	no
125438	anaerobic	anaerobicⓘ	yes	91.55	yes
125438	spore-forming	spore-formingⓘ	yes	81.15	no
125438	aerobic	aerobicⓘ	no	95.51	no
125438	thermophilic	thermophileⓘ	yes	75.71	yes
125438	flagellated	motile2+ⓘ	yes	66.65	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Desulfotomaculum thermosubterraneum sp. nov., a thermophilic sulfate-reducer isolated from an underground mine located in a geothermally active area.	Kaksonen AH, Spring S, Schumann P, Kroppenstedt RM, Puhakka JA	Int J Syst Evol Microbiol	10.1099/ijs.0.64439-0	2006

References

#6246	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16057
#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 )
#67770	Japan Collection of Microorganism (JCM) ; Curators of the JCM;
#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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Desulfofundulus thermosubterraneus (DSM 16057, JCM 13837, RL50JIII)

Name and taxonomic classification

Morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Oxygen tolerance

Observation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_900142025

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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