Name: Caminibacter pacificus EPR-TB6
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 130468

Type strain:

Species: Caminibacter pacificus

Strain Designation: EPR-TB6, TB-6

Culture col. no.: DSM 27783, JCM 19563

Strain history: C. Vetriani TB-6.

NCBI tax ID(s): 1424653 (species)

SI-ID 402491

DSM 27783

Special Collections

DSMZ
JCM

Section

Caminibacter pacificus EPR-TB6 is an anaerobe, Gram-negative bacterium that was isolated from sulfide chimney fragments from an active deep-sea hydrothermal vent, depth 2500 m.

Gram-negative
anaerobe
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 pacificus**
	Full Scientific Name (LPSN)	Caminibacter pacificus (Grosche et al. 2015) Shiotani et al. 2021

Synonym

Cetia pacifica

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %95.484

Information on culture and growth conditions Culture and growth conditions

[Ref.: #22153]

Culture medium

THERMOVIBRIO AMMONIFICANS MEDIUM (DSMZ Medium 792a)

[Ref.: #22153]

Culture medium growth

[Ref.: #22153]

Culture medium link

Medium recipe at MediaDive

[Ref.: #22153]

Culture medium composition

expand / minimize

	Temperatures	Kind of temperature		Temperature
[Ref.: #22153]			growth	55 °C
[Ref.: #67770]			growth	55 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #22153]

Oxygen tolerance

anaerobe

[Ref.: #69480]

Ability of spore formation

no Confidence in %95.349

[Ref.: #67770]

Observation

quinones: MK-7, MMK-7

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

[Ref.: #22153]	Sample type/isolated from	sulfide chimney fragments from an active deep-sea hydrothermal vent, depth 2500 m
[Ref.: #22153]	Geographic location (country and/or sea, region)	East Pacific Rise, Bio 9 Vent
[Ref.: #22153]	Country	International waters
[Ref.: #22153]	Geographic location	9.8167°/-104.2830°

[Ref.: #67770]	Sample type/isolated from	Chimney fragments from an active deep-sea hydrothermal vent on the East Pacific Rise
* marker position based on {}

Isolation sources categories

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

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence KF648717 (>99% sequence identity) for Cetia pacifica subclade from Microbeatlas

Aquatic Samples	130
Soil Samples
Animal Samples	11
Plant Samples
Total Samples	141

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

[Ref.: #22153]

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.: #22153]	Caminibacter pacificus strain TB-6 16S ribosomal RNA gene, partial sequence	KF648717	1482	GenBank ENA	1424653 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Caminibacter pacificus DSM 27783	GCA_003752135	contig	GenBank ENA	1424653 tax ID
[Ref.: #66792]	Cetia pacifica strain DSM 27783	1424653.31	wgs	PATRIC	1424653 tax ID	*
[Ref.: #66792]	Cetia pacifica DSM 27783	2788499860	draft	JGI IMG/M	1424653 tax ID	*

[Ref.: #22153]

GC-content

36.8 mol%

high performance liquid chromatography (HPLC)

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

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Cetia pacifica strain DSM 27783 PATRIC: 1424653.31
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	95.484	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	yes	74.196	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	95.349	no
[Ref.: #69480]	aerobic	aerobicⓘ	no	96.27	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	69.614	no
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	57.417	no

Availability in culture collections External links

[Ref.: #22153]

Culture collection no.

DSM 27783, JCM 19563

[Ref.: #88997]

SI-ID 402491

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Nitrosophilus alvini gen. nov., sp. nov., a hydrogen-oxidizing chemolithoautotroph isolated from a deep-sea hydrothermal vent in the East Pacific Rise, inferred by a genome-based taxonomy of the phylum "Campylobacterota".	Shiotani T, Mino S, Sato W, Nishikawa S, Yonezawa M, Sievert SM, Sawabe T	PLoS One	10.1371/journal.pone.0241366	2020	*
Phylogeny	Cetia pacifica gen. nov., sp. nov., a chemolithoautotrophic, thermophilic, nitrate-ammonifying bacterium from a deep-sea hydrothermal vent.	Grosche A, Sekaran H, Perez-Rodriguez I, Starovoytov V, Vetriani C	Int J Syst Evol Microbiol	10.1099/ijs.0.000070	2015	*

References

#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 )

#22153

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 27783

#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) .

#88997

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-ID402491.1 )

* These data were automatically processed and therefore are not curated

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Cetia pacifica strain DSM 27783

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