Name: Tepidibacter formicigenes DV 1184
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 11851

Type strain:

Species: Tepidibacter formicigenes

Strain Designation: DV 1184

Culture col. no.: DSM 15518, CIP 107893

Strain history: <- L. Urios, IFREMER Centre de Brest, Plouzané, France; DV 1184 <- L. Urios {2002}

NCBI tax ID(s): 1123349 (strain), 227138 (species)

SI-ID 131437

CIP 107893, DSM 15518

Section

Tepidibacter formicigenes DV 1184 is an anaerobe, spore-forming, thermophilic bacterium that was isolated from hydrothermal vent fluid.

Gram-positive
motile
rod-shaped
spore-forming
anaerobe
thermophilic
16S sequence
Bacteria
genome sequence

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Bacillota*
	Class	*Clostridia*
	Order	*Eubacteriales*
	Family	*Peptostreptococcaceae*
	Genus	*Tepidibacter*
	Species	**Tepidibacter formicigenes**
	Full Scientific Name (LPSN)	Tepidibacter formicigenes Urios et al. 2004

Information on morphological and physiological properties Morphology

[Ref.: #30019]	Gram stain	positive
[Ref.: #69480]	Gram stain	positive Confidence in %100

[Ref.: #30019]	Cell length	4 µm

[Ref.: #30019]	Cell width	0.8 µm

[Ref.: #30019]	Cell shape	rod-shaped

[Ref.: #30019]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #5976]

Culture medium

MARINE DESULFOVIBRIO COMPLEX MEDIUM (DSMZ Medium 1040)

[Ref.: #5976]

Culture medium growth

[Ref.: #5976]

Culture medium link

Medium recipe at MediaDive

[Ref.: #5976]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #5976]	growth	45 °C
[Ref.: #30019]	growth	35-55 °C
[Ref.: #30019]	optimum	45 °C

[Ref.: #5976]	Temperature range	thermophilic
[Ref.: #30019]	Temperature range	thermophilic
[Ref.: #69480]	Temperature range	thermophilic Confidence in %99.998

	pH	Kind of pH		pH
[Ref.: #30019]			optimum	6
[Ref.: #30019]			growth	5.0-8.0

Information on physiology and metabolism Physiology and metabolism

[Ref.: #5976]	Oxygen tolerance	anaerobe
[Ref.: #30019]	Oxygen tolerance	anaerobe
[Ref.: #69480]	Oxygen tolerance	anaerobe Confidence in %99.574

[Ref.: #30019]	Ability of spore formation	yes
[Ref.: #69481]	Ability of spore formation	yes Confidence in %99
[Ref.: #69480]	Ability of spore formation	yes Confidence in %100

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #30019]	acetate ChEBI	+	carbon source
[Ref.: #30019]	cellobiose ChEBI	+	carbon source
[Ref.: #30019]	ethanol ChEBI	+	carbon source
[Ref.: #30019]	galactose ChEBI	+	carbon source
[Ref.: #30019]	glucose ChEBI	+	carbon source
[Ref.: #30019]	mannose ChEBI	+	carbon source
[Ref.: #30019]	rhamnose ChEBI	+	carbon source
[Ref.: #30019]	sucrose ChEBI	+	carbon source
[Ref.: #30019]	trehalose ChEBI	+	carbon source
[Ref.: #30019]	xylose ChEBI	+	carbon source

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #5976]	Sample type/isolated from	hydrothermal vent fluid
[Ref.: #5976]	Geographic location (country and/or sea, region)	Mid Atlantic Ridge, Menez-Gwen hydrothermal site
[Ref.: #5976]	Country	Portugal
[Ref.: #5976]	Country ISO 3 Code	PRT
[Ref.: #5976]	Continent	Europe
[Ref.: #5976]	Geographic location	37.8500°/-31.5167°
* marker position based on {}

Isolation sources categories

#Environmental	#Aquatic	#Hydrothermal vent
#Condition	#Thermophilic (>45°C)	-

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AY245527 (>99% sequence identity) for Tepidibacter formicigenes subclade from Microbeatlas

Aquatic Samples	443
Soil Samples	319
Animal Samples	554
Plant Samples	34
Total Samples	1350

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #5976]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #5976]	Tepidibacter formicigenes 16S ribosomal RNA gene, partial sequence	AY245527	1380	ENA	227138 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Tepidibacter formicigenes DSM 15518	GCA_900142235	scaffold	GenBank	1123349 tax ID	*
[Ref.: #66792]	Tepidibacter formicigenes DSM 15518	1123349.3	wgs	PATRIC	1123349 tax ID	*
[Ref.: #66792]	Tepidibacter formicigenes DSM 15518	2585428175	draft	JGI IMG/M	1123349 tax ID	*

[Ref.: #5976]

GC-content

29 mol%

Data predicted using genome information as a basis Genome-based predictions

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Tepidibacter formicigenes DSM 15518 DSM 15518 NCBI: GCA_900142235.1
[Ref.: #69481]	spore-forming	yes	99	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Tepidibacter formicigenes DSM 15518 DSM 15518 NCBI: GCA_900142235.1
[Ref.: #69480]	motile	yes	89.457	yes
[Ref.: #69480]	flagellated	no	63.293	no
[Ref.: #69480]	gram-positive	yes	59.217	no
[Ref.: #69480]	anaerobic	yes	99.15	yes
[Ref.: #69480]	aerobic	no	97.534	yes
[Ref.: #69480]	halophile	no	79.507	no
[Ref.: #69480]	spore-forming	yes	94.674	yes
[Ref.: #69480]	thermophile	yes	82.381	no
[Ref.: #69480]	glucose-util	yes	87.378	no
[Ref.: #69480]	glucose-ferment	yes	60.423	no

Availability in culture collections External links

[Ref.: #5976]

Culture collection no.

DSM 15518, CIP 107893

[Ref.: #81069]

SI-ID 131437

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Tepidibacter formicigenes sp. nov., a novel spore-forming bacterium isolated from a Mid-Atlantic Ridge hydrothermal vent.	Urios L, Cueff V, Pignet P, Barbier G	Int J Syst Evol Microbiol	10.1099/ijs.0.02836-0	2004	*

References

#5976

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15518

#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 )

#30019

Barberan A, Caceres Velazquez H, Jones S, Fierer N.: Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information. mSphere 2: 2017 ( DOI 10.1128/mSphere.00237-17 , PubMed 28776041 ) - originally annotated from #26383 (see below)

#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) .

#69479

João F Matias Rodrigues, Janko Tackmann,Gregor Rot, Thomas SB Schmidt, Lukas Malfertheiner, Mihai Danaila,Marija Dmitrijeva, Daniela Gaio, Nicolas Näpflin and Christian von Mering. University of Zurich.: MicrobeAtlas 1.0 beta .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#81069

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID131437.1 )

#26383

IJSEM 439 2004 ( DOI 10.1099/ijs.0.02836-0 , PubMed 15023956 )

* These data were automatically processed and therefore are not curated

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Tepidibacter formicigenes DSM 15518 DSM 15518

Tepidibacter formicigenes DSM 15518 DSM 15518

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