Name: Caminibacter mediatlanticus TB-2
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 10428

Type strain:

Species: Caminibacter mediatlanticus

Strain Designation: TB-2

Culture col. no.: DSM 16658, JCM 12641

Strain history: C. Vetriani TB-2.

NCBI tax ID(s): 391592 (strain), 291048 (species)

SI-ID 137999

DSM 16658, JCM 12641

Section

Caminibacter mediatlanticus TB-2 is an anaerobe, thermophilic, Gram-negative bacterium that was isolated from walls of an active deep-sea hydrothermal vent chimney.

Gram-negative
motile
rod-shaped
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	*Pseudomonadota*
	Class	*Epsilonproteobacteria*
	Order	*Nautiliales*
	Family	*Nautiliaceae*
	Genus	*Caminibacter*
	Species	**Caminibacter mediatlanticus**
	Full Scientific Name (LPSN)	Caminibacter mediatlanticus Voordeckers et al. 2005

Information on morphological and physiological properties Morphology

[Ref.: #31378]	Gram stain	negative

[Ref.: #31378]	Cell length	1.5 µm

[Ref.: #31378]	Cell width	0.75 µm

[Ref.: #31378]	Cell shape	rod-shaped

[Ref.: #31378]	Motility	yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #6556]

Culture medium

CAMINIBACTER MEDIATLANTICUS MEDIUM (DSMZ Medium 792b)

[Ref.: #6556]

Culture medium growth

[Ref.: #6556]

Culture medium link

Medium recipe at MediaDive

[Ref.: #6556]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #6556]	growth	55 °C
[Ref.: #31378]	growth	45-70 °C
[Ref.: #31378]	optimum	55 °C
[Ref.: #67770]	growth	55 °C

[Ref.: #6556]	Temperature range	thermophilic
[Ref.: #31378]	Temperature range	thermophilic
[Ref.: #67770]	Temperature range	thermophilic

	pH	Kind of pH		pH
[Ref.: #31378]			optimum	5.5
[Ref.: #31378]			growth	4.5-7.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #6556]	Oxygen tolerance	anaerobe
[Ref.: #31378]	Oxygen tolerance	anaerobe

[Ref.: #31378]

Ability of spore formation

	Metabolite production	Metabolite	Production
[Ref.: #31378]		hydrogen sulfide ChEBI	yes

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #31378]		catalase	+	1.11.1.6

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

[Ref.: #6556]	Sample type/isolated from	walls of an active deep-sea hydrothermal vent chimney
[Ref.: #6556]	Geographic location (country and/or sea, region)	Mid-Atlantic Ridge
[Ref.: #6556]	Country	International waters
[Ref.: #6556]	Geographic location	36.2333°/-33.9000°

[Ref.: #67770]	Sample type/isolated from	Deep-sea hydrothermal vent chimney on the Mid-Atlantic Ridge
* 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 AY691430 (>99% sequence identity) for Caminibacter mediatlanticus subclade from Microbeatlas

Aquatic Samples	495
Soil Samples	52
Animal Samples	265
Plant Samples	15
Total Samples	827

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

[Ref.: #6556]

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.: #6556]	Caminibacter mediatlanticus 16S ribosomal RNA gene, partial sequence	AY691430	1358	ENA	391592 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Caminibacter mediatlanticus TB-2	GCA_000170735	contig	GenBank	391592 tax ID
[Ref.: #66792]	Caminibacter mediatlanticus TB-2	GCA_005843985	complete	GenBank	391592 tax ID	*
[Ref.: #66792]	Caminibacter mediatlanticus TB-2	391592.5	wgs	PATRIC	391592 tax ID	*
[Ref.: #66792]	Caminibacter mediatlanticus TB-2	640963039	draft	JGI IMG/M	391592 tax ID	*

[Ref.: #6556]

GC-content

25.6 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Caminibacter mediatlanticus TB-2 TB-2 NCBI: GCA_005843985.1
[Ref.: #69480]	motile	yes	88.329	yes
[Ref.: #69480]	flagellated	no	77.779	no
[Ref.: #69480]	gram-positive	no	99.061	yes
[Ref.: #69480]	anaerobic	yes	97.009	yes
[Ref.: #69480]	aerobic	no	97.915	yes
[Ref.: #69480]	halophile	no	82.767	no
[Ref.: #69480]	spore-forming	no	94.446	yes
[Ref.: #69480]	glucose-util	no	80.05	no
[Ref.: #69480]	thermophile	yes	98.6	no
[Ref.: #69480]	glucose-ferment	no	87.089	no

Availability in culture collections External links

[Ref.: #6556]

Culture collection no.

DSM 16658, JCM 12641

[Ref.: #79710]

SI-ID 137999

Literature:

Topic	Title	Authors	Journal	DOI	Year
Genetics	Draft genome sequence of Caminibacter mediatlanticus strain TB-2, an epsilonproteobacterium isolated from a deep-sea hydrothermal vent.	Giovannelli D, Ferriera S, Johnson J, Kravitz S, Perez-Rodriguez I, Ricci J, O'Brien C, Voordeckers JW, Bini E, Vetriani C	Stand Genomic Sci	10.4056/sigs.2094859	2011	*
Phylogeny	Caminibacter mediatlanticus sp. nov., a thermophilic, chemolithoautotrophic, nitrate-ammonifying bacterium isolated from a deep-sea hydrothermal vent on the Mid-Atlantic Ridge.	Voordeckers JW, Starovoytov V, Vetriani C	Int J Syst Evol Microbiol	10.1099/ijs.0.63430-0	2005	*

References

#6556

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 16658

#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 )

#31378

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 #27691 (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) .

#67770 Japan Collection of Microorganism (JCM) ; Curators of the JCM;

#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) .

#79710

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-ID137999.1 )

#27691

IJSEM 773 2005 ( DOI 10.1099/ijs.0.63430-0 , PubMed 15774661 )

* These data were automatically processed and therefore are not curated

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Caminibacter mediatlanticus TB-2 TB-2

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