Name: Caldichromatium japonicum No.7
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 164869

Type strain:

Species: Caldichromatium japonicum

Strain Designation: No.7

Culture col. no.: JCM 39101, DSM 110881

Strain history: S. Hanada; Tokyo Metropolitan Univ., Japan; No.7.

NCBI tax ID(s): 2699430 (species)

SI-ID 403101

DSM 110881

Section

Caldichromatium japonicum No.7 is an anaerobe, thermophilic, Gram-negative bacterium that was isolated from Nakabusa hot springs is located in the Japanese Alps in Nagano Prefecture.

Gram-negative
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	*Gammaproteobacteria*
	Order	*Chromatiales*
	Family	*Chromatiaceae*
	Genus	*Caldichromatium*
	Species	**Caldichromatium japonicum**
	Full Scientific Name (LPSN)	Caldichromatium japonicum Saini et al. 2020

Information on morphological and physiological properties Morphology

[Ref.: #69480]	Gram stain	negative Confidence in %99.999

[Ref.: #69480]	Motility	yes Confidence in %94.395

Information on culture and growth conditions Culture and growth conditions

[Ref.: #68694]

Culture medium

PFENNIG'S MEDIUM III (DSMZ Medium 1761)

[Ref.: #68694]

Culture medium growth

[Ref.: #68694]

Culture medium link

Medium recipe provided by DSMZ

	Temperatures	Kind of temperature		Temperature
[Ref.: #67770]			growth	50 °C
[Ref.: #68694]			growth	50 °C

[Ref.: #67770]	Temperature range	thermophilic
[Ref.: #68694]	Temperature range	thermophilic

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Oxygen tolerance

anaerobe Confidence in %99.508

[Ref.: #69480]	Ability of spore formation	no Confidence in %99.931
[Ref.: #69481]	Ability of spore formation	no Confidence in %99

[Ref.: #67770]

Observation

quinones: Q-8

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

[Ref.: #67770]	Sample type/isolated from	Nakabusa hot springs is located in the Japanese Alps in Nagano Prefecture
[Ref.: #67770]	Country	Japan
[Ref.: #67770]	Country ISO 3 Code	JPN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

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.: #67770]	Chromatiaceae bacterium No.7 16S ribosomal RNA gene, partial sequence	MN999710	1486	ENA	2699430 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #67770]	Caldichromatium japonicum No.7	GCA_011290485	complete	GenBank	2699430 tax ID

[Ref.: #67770]	GC-content	61.2 mol%	genome sequence analysis
[Ref.: #68694]	GC-content	61.2 mol%	sequence analysis

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: Caldichromatium japonicum No.7 NCBI: GCA_011290485.1
[Ref.: #69481]	spore-forming	no	99	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Caldichromatium japonicum No.7 NCBI: GCA_011290485.1
[Ref.: #69480]	motile	yes	91.879	no
[Ref.: #69480]	flagellated	no	50	no
[Ref.: #69480]	gram-positive	no	99.269	no
[Ref.: #69480]	anaerobic	yes	98.139	no
[Ref.: #69480]	aerobic	no	97.167	no
[Ref.: #69480]	halophile	no	87.741	no
[Ref.: #69480]	spore-forming	no	91.457	no
[Ref.: #69480]	thermophile	yes	85.524	yes
[Ref.: #69480]	glucose-util	yes	57.224	no
[Ref.: #69480]	glucose-ferment	no	79.666	no

Availability in culture collections External links

[Ref.: #67770]

Culture collection no.

JCM 39101, DSM 110881

[Ref.: #114293]

SI-ID 403101

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Caldichromatium japonicum gen. nov., sp. nov., a novel thermophilic phototrophic purple sulphur bacterium of the Chromatiaceae isolated from Nakabusa hot springs, Japan.	Saini MK, ChihChe W, Soulier N, Sebastian A, Albert I, Thiel V, Bryant DA, Hanada S, Tank M	Int J Syst Evol Microbiol	10.1099/ijsem.0.004465	2020	*

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 )

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

#68694

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 110881

#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 )

#114293

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-ID403101.1 )

* These data were automatically processed and therefore are not curated

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