Name: Salarchaeum japonicum JCM 16327
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 161761

Type strain:

Species: Salarchaeum japonicum

Culture col. no.: JCM 16327, CECT 7563

Strain history: Y. Shimane YSM-79.

NCBI tax ID(s): 555573 (species)

SI-ID 378128

CECT 7563, JCM 16327

Special Collections

Section

Salarchaeum japonicum JCM 16327 is a mesophilic archaeon that was isolated from Commercial salt made from seawater in Yonaguni island.

mesophilic
16S sequence
Archaea
genome sequence

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

	Last LPSN update	09-12-2024 (DD-MM-YYYY)
	Domain	*Archaea*
	Phylum	*Methanobacteriota*
	Class	*Halobacteria*
	Order	*Halobacteriales*
	Family	*Halobacteriaceae*
	Genus	*Salarchaeum*
	Species	**Salarchaeum japonicum**
	Full Scientific Name (LPSN)	Salarchaeum japonicum Shimane et al. 2011

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #67770]			growth	37 °C

Information on physiology and metabolism Physiology and metabolism

[Ref.: #69480]

Ability of spore formation

no Confidence in %90.984

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

[Ref.: #67770]	Sample type/isolated from	Commercial salt made from seawater in Yonaguni island
[Ref.: #67770]	Geographic location (country and/or sea, region)	Okinawa
[Ref.: #67770]	Country	Japan
[Ref.: #67770]	Country ISO 3 Code	JPN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

[Ref.: #69479]

Global distribution of 16S sequence AB454051 (>99% sequence identity) for Salarchaeum japonicum subclade from Microbeatlas

Aquatic Samples	12
Soil Samples
Animal Samples
Plant Samples
Total Samples	12

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]	Salarchaeum japonicum gene for 16S ribosomal RNA, partial sequence	AB454051	1420	GenBank ENA	555573 tax ID
[Ref.: #124043]	Salarchaeum japonicum gene for 16S rRNA, complete sequence, strain: JCM 16327.	AB663433	1473	GenBank ENA	555573 tax ID	*

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Salarchaeum japonicum JCM 16327	GCA_020614395	complete	GenBank ENA	555573 tax ID	*
[Ref.: #66792]	Salarchaeum japonicum strain JCM 16327	555573.4	complete	PATRIC	555573 tax ID	*
[Ref.: #66792]	Salarchaeum japonicum strain JCM 16327	555573.3	complete	PATRIC	555573 tax ID	*

[Ref.: #67770]

GC-content

64 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 GenomeNet Sporulation v. 1 based on: Salarchaeum japonicum JCM 16327 NCBI: GCA_020614395.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	80	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Salarchaeum japonicum JCM 16327 NCBI: GCA_020614395.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	72.314	no
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	85.745	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	80.218	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	90.984	no
[Ref.: #69480]	thermophilic	thermophileⓘ	no	84.141	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	no	89.25	no

Availability in culture collections External links

[Ref.: #67770]

Culture collection no.

JCM 16327, CECT 7563

[Ref.: #113472]

SI-ID 378128

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Halocalculus aciditolerans gen. nov., sp. nov., an acid-tolerant haloarchaeon isolated from commercial salt.	Minegishi H, Echigo A, Kuwahara A, Shimane Y, Kamekura M, Itoh T, Ohkuma M, Usami R	Int J Syst Evol Microbiol	10.1099/ijs.0.000152	2015	*
Phylogeny	Salarchaeum japonicum gen. nov., sp. nov., an aerobic, extremely halophilic member of the Archaea isolated from commercial salt.	Shimane Y, Hatada Y, Minegishi H, Echigo A, Nagaoka S, Miyazaki M, Ohta Y, Maruyama T, Usami R, Grant WD, Horikoshi K	Int J Syst Evol Microbiol	10.1099/ijs.0.025064-0	2010	*

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 )

#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) .

#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 )

#113472

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-ID378128.1 )

#124043

Dr. Isabel Schober, Dr. Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .

* These data were automatically processed and therefore are not curated

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