Salarchaeum japonicum (CECT 7563, JCM 16327)

Name: Salarchaeum japonicum (CECT 7563, JCM 16327)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 161761

Type strain

Culture col. no. CECT 7563 JCM 16327

NCBI tax ID(s) 555573

Special Collections JCM

Links

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

mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 378128

CECT 7563,JCM 16327

@ref 20215

Last LPSN update 2025-12-16 10:08:49

Domain Methanobacteriati

Phylum Methanobacteriota

Class Halobacteria

Order Halobacteriales

Family Halobacteriaceae

Genus Salarchaeum

Species Salarchaeum japonicum

Full scientific name Salarchaeum japonicum Shimane et al. 2011

Morphology

Cell morphology

@ref	Gram stain	Confidence
125439	positive	95.4

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
67770	positive	growth	37	mesophilic

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	obligate anaerobe	98.2

Spore formation

@ref	Spore formation	Confidence
125438		90.984

Isolation, sampling and environmental information

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
67770	Commercial salt made from seawater in Yonaguni island	Okinawa	Japan	JPN	Asia

Taxonmaps

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

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	Salarchaeum japonicum strain JCM 16327	complete		555573.4		555573	99.6
66792	ASM2061439v1 assembly for Salarchaeum japonicum JCM 16327	complete	GCA_020614395	555573.3	8062092953	555573	98.37
124043	ASM3952264v1 assembly for Salarchaeum japonicum JCM 16327	contig	GCA_039522645			555573	77.96

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Salarchaeum japonicum gene for 16S ribosomal RNA, partial sequence	AB454051	1420		555573
124043	Salarchaeum japonicum gene for 16S rRNA, complete sequence, strain: JCM 16327.	AB663433	1473		555573

GC content

@ref	GC-content (mol%)	Method
67770	64	high performance liquid chromatography (HPLC)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Salarchaeum japonicum JCM 16327
NCBI: GCA_020614395

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	51.70	no
125439	motility	BacteriaNetⓘ	no	82.70	no
125439	gram_stain	BacteriaNetⓘ	positive	95.40	no
125439	oxygen_tolerance	BacteriaNetⓘ	obligate anaerobe	98.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Salarchaeum japonicum JCM 16327
NCBI: GCA_020614395.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	72.31	no
125438	anaerobic	anaerobicⓘ	no	85.75	no
125438	aerobic	aerobicⓘ	yes	80.22	no
125438	spore-forming	spore-formingⓘ	no	90.98	no
125438	thermophilic	thermophileⓘ	no	84.14	yes
125438	flagellated	motile2+ⓘ	no	89.25	no

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 .
#124043	Isabel Schober, Julia Koblitz: Data extracted from sequence databases, automatically matched based on designation and taxonomy .
#125438	Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann: Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets. 2024 ( DOI 10.1101/2024.08.12.607695 )
#125439	Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardy: deepG: Deep Learning for Genome Sequence Data. R package version 0.3.1 .
#126262	A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. Reimer: StrainInfo—the central database for linked microbial strain identifiers. ( DOI 10.1093/database/baaf059 )

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Salarchaeum japonicum (CECT 7563, JCM 16327)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture temp

Physiology and metabolism

Oxygen tolerance

Spore formation

Isolation, sampling and environmental information

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_020614395

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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