Halostagnicola larsenii (DSM 17691, CECT 7116, CGMCC 1.5338)

Name: Halostagnicola larsenii (DSM 17691, CECT 7116, CGMCC 1.5338)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 5969

Type strain

Strain Designation XH-48

Culture col. no. DSM 17691 CECT 7116 CGMCC 1.5338 JCM 13463 XH-48

NCBI tax ID(s) 797299 353800

Special Collections DSMZ JCM Literature strains

History <- A. Ventosa, Univ. Seville, Dept. Microbiol. Parasitol., Spain; XH-48 <- A. M. Castillo et al. A. Ventosa XH-48.

Links

Halostagnicola larsenii XH-48 is an aerobe, mesophilic, Gram-negative prokaryote that was isolated from sediment of saline Lake Xilinhot .

Gram-negative rod-shaped aerobe mesophilic genome sequence 16S sequence

Name and taxonomic classification

SI-ID 297210

CECT 7116,CGMCC 1.5338,DSM 17691,JCM 13463

@ref 20215

Last LPSN update 2026-02-09 11:19:06

Domain Archaea

Phylum Methanobacteriota

Class Halobacteria

Order Halobacteriales

Family Natrialbaceae

Genus Halostagnicola

Species Halostagnicola larsenii

Full scientific name Halostagnicola larsenii Castillo et al. 2006

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape	Motility	Confidence
31790	negative	01-03 µm	0.5-1 µm	rod-shaped
125438						92.5

Pigmentation

31790

Productionyes

Culture and growth conditions

Culture medium

@ref	Name	Growth	Medium link	Composition
7132	HALOPIGER MEDIUM (DSMZ Medium 1138)		Medium recipe at MediaDive	Name: HALOPIGER MEDIUM (DSMZ Medium 1138) Composition: NaCl 195.0 g/l MgSO4 x 7 H2O 50.8 g/l MgCl2 x 6 H2O 32.5 g/l Yeast extract 5.0 g/l KCl 5.0 g/l CaCl2 x 2 H2O 0.8 g/l NaBr 0.6 g/l NaHCO3 0.16 g/l Distilled water

Culture temp

@ref	Growth	Type	Temperature (°C)	Range
7132	positive	growth	37	mesophilic
31790	positive	growth	25-50
31790	positive	optimum	37	mesophilic
67770	positive	growth	37	mesophilic

Culture pH

@ref	Ability	Type	PH	PH range
31790	positive	optimum	07-08
31790	positive	growth	06-09	alkaliphile

Physiology and metabolism

Oxygen tolerance

31790

Oxygen toleranceaerobe

Spore formation

31790

Spore formationno

Halophily

@ref	Salt	Growth	Tested relation	Concentration
31790	NaCl	positive	growth	15-30 %
31790	NaCl	positive	optimum	20 %

Observation

31790

Observationaggregates in chains

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
31790	30089 ChEBI	acetate	+	carbon source
31790	22599 ChEBI	arabinose	+	carbon source
31790	28757 ChEBI	fructose	+	carbon source
31790	28260 ChEBI	galactose	+	carbon source
31790	17234 ChEBI	glucose	+	carbon source
31790	29987 ChEBI	glutamate	+	carbon source
31790	17754 ChEBI	glycerol	+	carbon source
31790	17716 ChEBI	lactose	+	carbon source
31790	17306 ChEBI	maltose	+	carbon source
31790	29864 ChEBI	mannitol	+	carbon source
31790	17632 ChEBI	nitrate	+	reduction
31790	17272 ChEBI	propionate	+	carbon source
31790	33942 ChEBI	ribose	+	carbon source
31790	27082 ChEBI	trehalose	+	carbon source
31790	18222 ChEBI	xylose	+	carbon source

Enzymes

@ref	Value	Activity	Ec
31790	catalase	+	1.11.1.6
31790	cytochrome oxidase	+	1.9.3.1

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	suberin monomers biosynthesis	100	2 of 2
66794	coenzyme A metabolism	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	gluconeogenesis	100	8 of 8
66794	ethanol fermentation	100	2 of 2
66794	molybdenum cofactor biosynthesis	100	9 of 9
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	adipate degradation	100	2 of 2
66794	factor 420 biosynthesis	100	5 of 5
66794	enterobactin biosynthesis	100	3 of 3
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	isoleucine metabolism	100	8 of 8
66794	methylglyoxal degradation	100	5 of 5
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	palmitate biosynthesis	100	22 of 22
66794	folate polyglutamylation	100	1 of 1
66794	aerobactin biosynthesis	100	1 of 1
66794	phenylacetate degradation (aerobic)	100	5 of 5
66794	biotin biosynthesis	100	4 of 4
66794	flavin biosynthesis	93.33	14 of 15
66794	glutamate and glutamine metabolism	92.86	26 of 28
66794	vitamin B1 metabolism	92.31	12 of 13
66794	proline metabolism	90.91	10 of 11
66794	Entner Doudoroff pathway	90	9 of 10
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	aspartate and asparagine metabolism	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	tetrahydrofolate metabolism	85.71	12 of 14
66794	citric acid cycle	85.71	12 of 14
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	ubiquinone biosynthesis	85.71	6 of 7
66794	urea cycle	84.62	11 of 13
66794	phenylalanine metabolism	84.62	11 of 13
66794	leucine metabolism	84.62	11 of 13
66794	pantothenate biosynthesis	83.33	5 of 6
66794	vitamin K metabolism	80	4 of 5
66794	threonine metabolism	80	8 of 10
66794	pyrimidine metabolism	80	36 of 45
66794	propionate fermentation	80	8 of 10
66794	gallate degradation	80	4 of 5
66794	glycogen metabolism	80	4 of 5
66794	ethylmalonyl-CoA pathway	80	4 of 5
66794	alanine metabolism	79.31	23 of 29
66794	valine metabolism	77.78	7 of 9
66794	glycolysis	76.47	13 of 17
66794	vitamin B12 metabolism	76.47	26 of 34
66794	acetate fermentation	75	3 of 4
66794	purine metabolism	74.47	70 of 94
66794	lipid metabolism	74.19	23 of 31
66794	NAD metabolism	72.22	13 of 18
66794	photosynthesis	71.43	10 of 14
66794	propanol degradation	71.43	5 of 7
66794	glutathione metabolism	71.43	10 of 14
66794	starch degradation	70	7 of 10
66794	methionine metabolism	69.23	18 of 26
66794	degradation of sugar acids	68	17 of 25
66794	nitrate assimilation	66.67	6 of 9
66794	cyanate degradation	66.67	2 of 3
66794	serine metabolism	66.67	6 of 9
66794	4-hydroxymandelate degradation	66.67	6 of 9
66794	octane oxidation	66.67	2 of 3
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	arginine metabolism	66.67	16 of 24
66794	glycolate and glyoxylate degradation	66.67	4 of 6
66794	L-lactaldehyde degradation	66.67	2 of 3
66794	d-mannose degradation	66.67	6 of 9
66794	acetoin degradation	66.67	2 of 3
66794	non-pathway related	65.79	25 of 38
66794	heme metabolism	64.29	9 of 14
66794	d-xylose degradation	63.64	7 of 11
66794	pentose phosphate pathway	63.64	7 of 11
66794	tryptophan metabolism	63.16	24 of 38
66794	ketogluconate metabolism	62.5	5 of 8
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	cysteine metabolism	61.11	11 of 18
66794	4-hydroxyphenylacetate degradation	60	6 of 10
66794	cellulose degradation	60	3 of 5
66794	creatinine degradation	60	3 of 5
66794	histidine metabolism	58.62	17 of 29
66794	lysine metabolism	57.14	24 of 42
66794	phenol degradation	55	11 of 20
66794	oxidative phosphorylation	54.95	50 of 91
66794	metabolism of disaccharids	54.55	6 of 11
66794	3-phenylpropionate degradation	53.33	8 of 15
66794	degradation of aromatic, nitrogen containing compounds	50	6 of 12
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	alginate biosynthesis	50	2 of 4
66794	tyrosine metabolism	50	7 of 14
66794	ribulose monophosphate pathway	50	1 of 2
66794	sulfopterin metabolism	50	2 of 4
66794	kanosamine biosynthesis II	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	coenzyme M biosynthesis	50	5 of 10
66794	glycogen biosynthesis	50	2 of 4
66794	CDP-diacylglycerol biosynthesis	50	1 of 2
66794	butanoate fermentation	50	2 of 4
66794	dolichol and dolichyl phosphate biosynthesis	50	1 of 2
66794	glycine metabolism	50	5 of 10
66794	lactate fermentation	50	2 of 4
66794	degradation of sugar alcohols	50	8 of 16
66794	degradation of pentoses	46.43	13 of 28
66794	sulfate reduction	46.15	6 of 13
66794	carotenoid biosynthesis	45.45	10 of 22
66794	degradation of hexoses	44.44	8 of 18
66794	androgen and estrogen metabolism	43.75	7 of 16
66794	cardiolipin biosynthesis	42.86	3 of 7
66794	aclacinomycin biosynthesis	42.86	3 of 7
66794	mevalonate metabolism	42.86	3 of 7
66794	methanogenesis from CO2	41.67	5 of 12
66794	lipoate biosynthesis	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	hydrogen production	40	2 of 5
66794	glycine betaine biosynthesis	40	2 of 5
66794	bacilysin biosynthesis	40	2 of 5
66794	myo-inositol biosynthesis	40	4 of 10
66794	arachidonic acid metabolism	38.89	7 of 18
66794	phosphatidylethanolamine bioynthesis	38.46	5 of 13
66794	dTDPLrhamnose biosynthesis	37.5	3 of 8
66794	cholesterol biosynthesis	36.36	4 of 11
66794	bile acid biosynthesis, neutral pathway	35.29	6 of 17
66794	polyamine pathway	34.78	8 of 23
66794	isoprenoid biosynthesis	34.62	9 of 26
66794	acetyl CoA biosynthesis	33.33	1 of 3
66794	IAA biosynthesis	33.33	1 of 3
66794	peptidoglycan biosynthesis	33.33	5 of 15
66794	sphingosine metabolism	33.33	2 of 6
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	lipid A biosynthesis	33.33	3 of 9
66794	allantoin degradation	33.33	3 of 9
66794	ascorbate metabolism	31.82	7 of 22
66794	phenylpropanoid biosynthesis	30.77	4 of 13
66794	vitamin B6 metabolism	27.27	3 of 11
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	carnitine metabolism	25	2 of 8
66794	catecholamine biosynthesis	25	1 of 4
66794	cyclohexanol degradation	25	1 of 4
66794	ppGpp biosynthesis	25	1 of 4
66794	vitamin E metabolism	25	1 of 4
66794	toluene degradation	25	1 of 4

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Lake (large)
#Environmental	#Aquatic	#Sediment
#Condition	#Saline	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent	Latitude	Longitude
7132	sediment of saline Lake Xilinhot (43° 55' N 115° 37' E)	Inner Mongolia	China	CHN	Asia	43.9167	115.617 43.9167/115.617
67770	Sediment of a saline lake (Lake Xilinhot) in Inner Mongolia		China	CHN	Asia

Taxonmaps

69479

Global distribution of 16S sequence AB663441 (>99% sequence identity) for Halostagnicola larsenii from Microbeatlas

Aquatic Samples	5
Soil Samples	1
Animal Samples
Plant Samples
Total Samples	6

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
7132	1	Risk group (German classification) According to TRBA 466

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	ASM51762v1 assembly for Halostagnicola larsenii XH-48	complete	GCA_000517625	797299.3	2510065051	797299	98.71

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Halostagnicola larsenii gene for 16S rRNA, partial sequence	AB301489	1433	797299
20218	Halostagnicola larsenii gene for 16S rRNA, complete sequence, strain: JCM 13463	AB663441	1473	797299
7132	Halostagnicola larsenii partial 16S rRNA gene, type strain XH-48T	AM117571	1372	797299

GC content

@ref	GC-content (mol%)	Method
7132	61.0	thermal denaturation, midpoint method (Tm)
31790	61
67770	61	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: Halostagnicola larsenii XH-48
NCBI: GCA_000517625

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	88.20	no
125439	motility	BacteriaNetⓘ	no	53.80	no
125439	gram_stain	BacteriaNetⓘ	negative	84.30	no
125439	oxygen_tolerance	BacteriaNetⓘ	aerobe	86.80	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Halostagnicola larsenii XH-48 XH-48
NCBI: GCA_000517625.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	77.69	yes
125438	anaerobic	anaerobicⓘ	no	84.96	yes
125438	aerobic	aerobicⓘ	yes	82.34	yes
125438	spore-forming	spore-formingⓘ	no	83.82	yes
125438	thermophilic	thermophileⓘ	no	79.63	yes
125438	flagellated	motile2+ⓘ	no	92.50	yes

Literature

Topic	Title	Authors	Journal	DOI	Year
Genetics	Evidence from phylogenetic and genome fingerprinting analyses suggests rapidly changing variation in Halorubrum and Haloarcula populations.	Ram Mohan N, Fullmer MS, Makkay AM, Wheeler R, Ventosa A, Naor A, Gogarten JP, Papke RT.	Front Microbiol	10.3389/fmicb.2014.00143	2014
Phylogeny	Halostagnicola bangensis sp. nov., an alkaliphilic haloarchaeon from a soda lake.	Corral P, Corcelli A, Ventosa A	Int J Syst Evol Microbiol	10.1099/ijs.0.000006	2014
Phylogeny	Halostagnicola alkaliphila sp. nov., an alkaliphilic haloarchaeon from commercial rock salt.	Nagaoka S, Minegishi H, Echigo A, Shimane Y, Kamekura M, Usami R	Int J Syst Evol Microbiol	10.1099/ijs.0.023119-0	2010
Phylogeny	Halostagnicola kamekurae sp. nov., an extremely halophilic archaeon from solar salt.	Nagaoka S, Minegishi H, Echigo A, Usami R	Int J Syst Evol Microbiol	10.1099/ijs.0.014449-0	2010
Phylogeny	Halostagnicola larsenii gen. nov., sp. nov., an extremely halophilic archaeon from a saline lake in Inner Mongolia, China.	Castillo AM, Gutierrez MC, Kamekura M, Xue Y, Ma Y, Cowan DA, Jones BE, Grant WD, Ventosa A	Int J Syst Evol Microbiol	10.1099/ijs.0.64286-0	2006

References

#7132	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 17691
#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 )
#20218	Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.: StrainInfo introduces electronic passports for microorganisms.. Syst Appl Microbiol. 37: 42 - 50 2014 ( DOI 10.1016/j.syapm.2013.11.002 , PubMed 24321274 )
#28061	IJSEM 1519 2006 ( DOI 10.1099/ijs.0.64286-0 , PubMed 16825623 )
#31790	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 #28061
#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) .
#66794	Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg: BRENDA, the ELIXIR core data resource in 2021: new developments and updates. Nucleic Acids Res. 49: D498 - D508 2020 ( DOI 10.1093/nar/gkaa1025 , PubMed 33211880 )
#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 .
#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 )

Rate our new design

Content

About us

Halostagnicola larsenii (DSM 17691, CECT 7116, CGMCC 1.5338)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture medium

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Halophily

Observation

Metabolite utilization

Enzymes

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_000517625

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

Help

Social Media