Halosimplex pelagicum (CGMCC 1.10586, JCM 17263, R2)

Name: Halosimplex pelagicum (CGMCC 1.10586, JCM 17263, R2)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 134075

Type strain

Strain Designation R2

Culture col. no. CGMCC 1.10586 JCM 17263 R2

NCBI tax ID(s) 869886

Special Collections JCM Literature strains

History JCM <-- H.-L. Cui; Jiangsu Univ., China; R2.

Links

Halosimplex pelagicum R2 is a motile archaeon that was isolated from salted brown algae.

motile genome sequence 16S sequence Archaea

Name and taxonomic classification

SI-ID 133769

JCM 17263

@ref 20215

Last LPSN update 2026-05-29 08:38:14

Domain Archaea

Phylum Methanobacteriota

Class Halobacteria

Order Halobacteriales

Family Haloarculaceae

Genus Halosimplex

Species Halosimplex pelagicum

Full scientific name Halosimplex pelagicum Han and Cui 2014

Morphology

Cell morphology

31179

Motilityyes

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)
31179	positive	growth	25-45
31179	positive	optimum	42
67770	positive	growth	37

Culture pH

@ref	Ability	Type	PH	PH range
31179	positive	optimum	7
31179	positive	growth	5.5-9	alkaliphile

Physiology and metabolism

Oxygen tolerance

@ref	Oxygen tolerance	Confidence
125439	facultative anaerobe	90.001

Spore formation

@ref	Spore formation	Confidence
125439		97.197

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31179	NaCl	positive	growth	1.4-4.8 %
31179	NaCl	positive	optimum	3.4 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31179	30089 ChEBI	acetate	+	carbon source
31179	16449 ChEBI	alanine	+	carbon source
31179	29016 ChEBI	arginine	+	carbon source
31179	35391 ChEBI	aspartate	+	carbon source
31179	16947 ChEBI	citrate	+	carbon source
31179	28260 ChEBI	galactose	+	carbon source
31179	17234 ChEBI	glucose	+	carbon source
31179	29987 ChEBI	glutamate	+	carbon source
31179	24996 ChEBI	lactate	+	carbon source
31179	17716 ChEBI	lactose	+	carbon source
31179	25115 ChEBI	malate	+	carbon source
31179	29864 ChEBI	mannitol	+	carbon source
31179	37684 ChEBI	mannose	+	carbon source
31179	18257 ChEBI	ornithine	+	carbon source
31179	30911 ChEBI	sorbitol	+	carbon source
31179	30031 ChEBI	succinate	+	carbon source
31179	17992 ChEBI	sucrose	+	carbon source

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Host	#Algae	#Brown Algae
#Condition	#Saline	-

Isolation

@ref	Sample type	Host species	Geographic location	Country	Country ISO 3 Code	Continent
31179	salted brown algae
67770	Salted brown alga Laminaria produced at Dalian	Laminaria	Liaoning Province	China	CHN	Asia

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM1341590v1 assembly for Halosimplex pelagicum R2	complete	GCA_013415905	869886.4	2995063238	869886	96.13

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
67770	Halosimplex pelagicum strain R2 16S ribosomal RNA gene, partial sequence	HM159602	1473		869886
67770	Halosimplex pelagicum strain R2 16S ribosomal RNA (rrnB) gene, partial sequence	KF434756	1472		869886

GC content

@ref	GC-content (mol%)	Method
31179	62.5
67770	62.5	thermal denaturation, midpoint method (Tm)

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: ASM1341590v1 assembly for Halosimplex pelagicum R2
NCBI: GCA_013415905

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	facultative anaerobe	90.00	no
125439	motility	BacteriaNetⓘ	no	64.90	no
125439	gram_stain	BacteriaNetⓘ	negative	68.73	no
125439	spore_formation	BacteriaNetⓘ	no	97.20	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Halosimplex pelagicum R2
NCBI: GCA_013415905.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	73.93	no
125438	anaerobic	anaerobicⓘ	no	81.94	no
125438	aerobic	aerobicⓘ	yes	76.44	no
125438	spore-forming	spore-formingⓘ	no	83.32	no
125438	thermophilic	thermophileⓘ	no	78.01	no
125438	flagellated	motile2+ⓘ	no	85.00	no

Literature

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Capabilities and limitations of DGGE for the analysis of hydrocarbonoclastic prokaryotic communities directly in environmental samples.	Al-Mailem DM, Kansour MK, Radwan SS.	Microbiologyopen	10.1002/mbo3.495	2017
Phylogeny	Halosimplex pelagicum sp. nov. and Halosimplex rubrum sp. nov., isolated from salted brown alga Laminaria, and emended description of the genus Halosimplex.	Han D, Cui HL	Int J Syst Evol Microbiol	10.1099/ijs.0.056887-0	2013

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 )
#27506	IJSEM 169 2014 ( DOI 10.1099/ijs.0.056887-0 , PubMed 24048865 )
#31179	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 #27506
#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;
#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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Halosimplex pelagicum (CGMCC 1.10586, JCM 17263, R2)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Metabolite utilization

Isolation, sampling and environmental information

Isolation source categories

Isolation

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_013415905

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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