Halomonas xianhensis (CGMCC 1.6848, JCM 14849, A-1)

Name: Halomonas xianhensis (CGMCC 1.6848, JCM 14849, A-1)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 133645

Type strain

Strain Designation A-1

Culture col. no. CGMCC 1.6848 JCM 14849 A-1

NCBI tax ID(s) 442341

Special Collections JCM Literature strains

Links

Halomonas xianhensis A-1 is an aerobe, Gram-negative, rod-shaped prokaryote that was isolated from soil.

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

Name and taxonomic classification

SI-ID 290484

JCM 14849

@ref 20215

Last LPSN update 2025-12-16 10:01:50

Domain Pseudomonadati

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Oceanospirillales

Family Halomonadaceae

Genus Halomonas

Species Halomonas xianhensis

Full scientific name Halomonas xianhensis Zhao et al. 2012

Synonyms (1)

Modicisalibacter xianhensis

Morphology

Cell morphology

@ref	Gram stain	Cell length	Cell width	Cell shape
29905	negative	1.2-1.4 µm	0.5-0.6 µm	rod-shaped
125438	negative
125439	negative

Pigmentation

29905

Productionyes

Culture and growth conditions

Culture temp

@ref	Growth	Type	Temperature (°C)
29905	positive	growth	10-42
29905	positive	optimum	30
67770	positive	growth	30

Culture pH

@ref	Ability	Type	PH
29905	positive	optimum	7.2
29905	positive	growth	5.5-9.0

Physiology and metabolism

Oxygen tolerance

29905

Oxygen toleranceaerobe

Spore formation

@ref	Spore formation	Confidence
125439		99.5

Observation

67770

Observationquinones: Q-9

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
29905	16449 ChEBI	alanine	+	carbon source
29905	22599 ChEBI	arabinose	+	carbon source
29905	17057 ChEBI	cellobiose	+	carbon source
29905	4853 ChEBI	esculin	+	hydrolysis
29905	28757 ChEBI	fructose	+	carbon source
29905	28260 ChEBI	galactose	+	carbon source
29905	17234 ChEBI	glucose	+	carbon source
29905	17754 ChEBI	glycerol	+	carbon source
29905	17716 ChEBI	lactose	+	carbon source
29905	15792 ChEBI	malonate	+	carbon source
29905	29864 ChEBI	mannitol	+	carbon source
29905	37684 ChEBI	mannose	+	carbon source
29905	17632 ChEBI	nitrate	+	reduction
29905	26271 ChEBI	proline	+	carbon source
29905	16634 ChEBI	raffinose	+	carbon source
29905	33942 ChEBI	ribose	+	carbon source
29905	30911 ChEBI	sorbitol	+	carbon source

Enzymes

@ref	Value	Activity	Ec
29905	acid phosphatase	+	3.1.3.2
29905	alkaline phosphatase	+	3.1.3.1
29905	catalase	+	1.11.1.6
29905	cytochrome oxidase	+	1.9.3.1
29905	urease	+	3.5.1.5

Pathway annotation

Computationally determined by

@ref	pathway	enzyme coverage	annotated reactions
66794	quinate degradation	100	2 of 2
66794	4-hydroxymandelate degradation	100	9 of 9
66794	adipate degradation	100	2 of 2
66794	ethanol fermentation	100	2 of 2
66794	threonine metabolism	100	10 of 10
66794	cis-vaccenate biosynthesis	100	2 of 2
66794	Entner Doudoroff pathway	100	10 of 10
66794	allantoin degradation	100	9 of 9
66794	glycogen metabolism	100	5 of 5
66794	photosynthesis	100	14 of 14
66794	palmitate biosynthesis	100	22 of 22
66794	methylglyoxal degradation	100	5 of 5
66794	valine metabolism	100	9 of 9
66794	resorcinol degradation	100	2 of 2
66794	butanoate fermentation	100	4 of 4
66794	biotin biosynthesis	100	4 of 4
66794	L-lactaldehyde degradation	100	3 of 3
66794	starch degradation	100	10 of 10
66794	ppGpp biosynthesis	100	4 of 4
66794	acetate fermentation	100	4 of 4
66794	tetrahydrofolate metabolism	100	14 of 14
66794	denitrification	100	2 of 2
66794	ubiquinone biosynthesis	100	7 of 7
66794	CDP-diacylglycerol biosynthesis	100	2 of 2
66794	UDP-GlcNAc biosynthesis	100	3 of 3
66794	aerobactin biosynthesis	100	1 of 1
66794	suberin monomers biosynthesis	100	2 of 2
66794	ceramide biosynthesis	100	1 of 1
66794	folate polyglutamylation	100	1 of 1
66794	coenzyme A metabolism	100	4 of 4
66794	formaldehyde oxidation	100	3 of 3
66794	gluconeogenesis	100	8 of 8
66794	anapleurotic synthesis of oxalacetate	100	1 of 1
66794	glutamate and glutamine metabolism	92.86	26 of 28
66794	leucine metabolism	92.31	12 of 13
66794	serine metabolism	88.89	8 of 9
66794	CO2 fixation in Crenarchaeota	88.89	8 of 9
66794	molybdenum cofactor biosynthesis	88.89	8 of 9
66794	chorismate metabolism	88.89	8 of 9
66794	arginine metabolism	87.5	21 of 24
66794	ketogluconate metabolism	87.5	7 of 8
66794	C4 and CAM-carbon fixation	87.5	7 of 8
66794	isoleucine metabolism	87.5	7 of 8
66794	reductive acetyl coenzyme A pathway	85.71	6 of 7
66794	propanol degradation	85.71	6 of 7
66794	phenylalanine metabolism	84.62	11 of 13
66794	vitamin B1 metabolism	84.62	11 of 13
66794	urea cycle	84.62	11 of 13
66794	NAD metabolism	83.33	15 of 18
66794	glycolate and glyoxylate degradation	83.33	5 of 6
66794	vitamin B12 metabolism	82.35	28 of 34
66794	pentose phosphate pathway	81.82	9 of 11
66794	vitamin B6 metabolism	81.82	9 of 11
66794	3-chlorocatechol degradation	80	4 of 5
66794	peptidoglycan biosynthesis	80	12 of 15
66794	degradation of sugar acids	80	20 of 25
66794	hydrogen production	80	4 of 5
66794	cellulose degradation	80	4 of 5
66794	purine metabolism	79.79	75 of 94
66794	heme metabolism	78.57	11 of 14
66794	citric acid cycle	78.57	11 of 14
66794	lipid A biosynthesis	77.78	7 of 9
66794	d-mannose degradation	77.78	7 of 9
66794	lipid metabolism	77.42	24 of 31
66794	glycolysis	76.47	13 of 17
66794	glycogen biosynthesis	75	3 of 4
66794	sulfopterin metabolism	75	3 of 4
66794	alginate biosynthesis	75	3 of 4
66794	CMP-KDO biosynthesis	75	3 of 4
66794	flavin biosynthesis	73.33	11 of 15
66794	proline metabolism	72.73	8 of 11
66794	metabolism of disaccharids	72.73	8 of 11
66794	alanine metabolism	72.41	21 of 29
66794	glutathione metabolism	71.43	10 of 14
66794	cardiolipin biosynthesis	71.43	5 of 7
66794	propionate fermentation	70	7 of 10
66794	methionine metabolism	69.23	18 of 26
66794	aspartate and asparagine metabolism	66.67	6 of 9
66794	octane oxidation	66.67	2 of 3
66794	acetyl CoA biosynthesis	66.67	2 of 3
66794	methane metabolism	66.67	2 of 3
66794	pyrimidine metabolism	66.67	30 of 45
66794	selenocysteine biosynthesis	66.67	4 of 6
66794	sulfoquinovose degradation	66.67	2 of 3
66794	acetoin degradation	66.67	2 of 3
66794	cyanate degradation	66.67	2 of 3
66794	non-pathway related	65.79	25 of 38
66794	histidine metabolism	65.52	19 of 29
66794	lysine metabolism	64.29	27 of 42
66794	oxidative phosphorylation	63.74	58 of 91
66794	degradation of sugar alcohols	62.5	10 of 16
66794	6-hydroxymethyl-dihydropterin diphosphate biosynthesis	62.5	5 of 8
66794	carnitine metabolism	62.5	5 of 8
66794	tryptophan metabolism	60.53	23 of 38
66794	phenol degradation	60	12 of 20
66794	factor 420 biosynthesis	60	3 of 5
66794	gallate degradation	60	3 of 5
66794	lipoate biosynthesis	60	3 of 5
66794	coenzyme M biosynthesis	60	6 of 10
66794	degradation of aromatic, nitrogen containing compounds	58.33	7 of 12
66794	isoprenoid biosynthesis	57.69	15 of 26
66794	polyamine pathway	56.52	13 of 23
66794	nitrate assimilation	55.56	5 of 9
66794	sulfate reduction	53.85	7 of 13
66794	phenylpropanoid biosynthesis	53.85	7 of 13
66794	degradation of pentoses	53.57	15 of 28
66794	3-phenylpropionate degradation	53.33	8 of 15
66794	degradation of hexoses	50	9 of 18
66794	glycine metabolism	50	5 of 10
66794	cyclohexanol degradation	50	2 of 4
66794	tyrosine metabolism	50	7 of 14
66794	mannosylglycerate biosynthesis	50	1 of 2
66794	lactate fermentation	50	2 of 4
66794	arachidonic acid metabolism	50	9 of 18
66794	aminopropanol phosphate biosynthesis	50	1 of 2
66794	phenylmercury acetate degradation	50	1 of 2
66794	dTDPLrhamnose biosynthesis	50	4 of 8
66794	pantothenate biosynthesis	50	3 of 6
66794	cysteine metabolism	50	9 of 18
66794	phosphatidylethanolamine bioynthesis	46.15	6 of 13
66794	ascorbate metabolism	45.45	10 of 22
66794	glycine betaine biosynthesis	40	2 of 5
66794	creatinine degradation	40	2 of 5
66794	D-cycloserine biosynthesis	40	2 of 5
66794	metabolism of amino sugars and derivatives	40	2 of 5
66794	arachidonate biosynthesis	40	2 of 5
66794	androgen and estrogen metabolism	37.5	6 of 16
66794	enterobactin biosynthesis	33.33	1 of 3
66794	IAA biosynthesis	33.33	1 of 3
66794	sphingosine metabolism	33.33	2 of 6
66794	(5R)-carbapenem carboxylate biosynthesis	33.33	1 of 3
66794	carotenoid biosynthesis	31.82	7 of 22
66794	benzoyl-CoA degradation	28.57	2 of 7
66794	cholesterol biosynthesis	27.27	3 of 11
66794	dolichyl-diphosphooligosaccharide biosynthesis	27.27	3 of 11
66794	catecholamine biosynthesis	25	1 of 4
66794	toluene degradation	25	1 of 4

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Terrestrial	#Soil

Isolation

@ref	Sample type
29905	soil
67770	Oil-polluted saline soil from Xianhe

Taxonmaps

69479

Global distribution of 16S sequence EF421176 (>99% sequence identity) for Halomonas xianhensis subclade from Microbeatlas

Aquatic Samples	343
Soil Samples	74
Animal Samples	201
Plant Samples	11
Total Samples	629

Interaction and safety

Sequence information

Genome sequences

@ref	Description	Assembly level	INSDC accession	BV-BRC accession	IMG accession	NCBI tax ID	Score
66792	IMG-taxon 2617270878 annotated assembly for Modicisalibacter xianhensis CGMCC 1.6848	scaffold	GCA_900113605	442341.9	2617270878	442341	69.16

Genome browser: GCA_900113605

16S sequences

@ref	Description	Accession	Length	Database	NCBI tax ID
29905	Halomonas xianhensis strain A-1 16S ribosomal RNA gene, partial sequence	EF421176	1499		442341

GC content

@ref	GC-content (mol%)
29905	67.1
67770	67.1

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Halomonas xianhensis CGMCC 1.6848
NCBI: GCA_900113605

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	spore_formation	BacteriaNetⓘ	no	99.50	no
125439	motility	BacteriaNetⓘ	yes	85.90	no
125439	gram_stain	BacteriaNetⓘ	negative	99.30	no
125439	oxygen_tolerance	BacteriaNetⓘ	facultative aerobe	62.90	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Halomonas xianhensis CGMCC 1.6848
NCBI: GCA_900113605.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	100.00	yes
125438	anaerobic	anaerobicⓘ	no	95.62	yes
125438	aerobic	aerobicⓘ	yes	78.79	no
125438	spore-forming	spore-formingⓘ	no	87.60	no
125438	thermophilic	thermophileⓘ	no	98.98	yes
125438	flagellated	motile2+ⓘ	yes	84.41	no

Literature

Title	Authors	Journal	DOI	Year
Validation List no. 216. Valid publication of new names and new combinations effectively published outside the IJSEM.	Oren A, Goker M.	Int J Syst Evol Microbiol	10.1099/ijsem.0.006229	2024
Environmental DNA-Based Ecological Risk Assessment of PAHs in Aged Petroleum-Contaminated Soils.	Huang J, Zhou C, Song F, Li T, Wang J, Fu X.	Toxics	10.3390/toxics13050357	2025
A long-awaited taxogenomic investigation of the family Halomonadaceae.	de la Haba RR, Arahal DR, Sanchez-Porro C, Chuvochina M, Wittouck S, Hugenholtz P, Ventosa A.	Front Microbiol	10.3389/fmicb.2023.1293707	2023
High bioreactor production and emulsifying activity of an unusual exopolymer by Chromohalobacter canadensis 28.	Radchenkova N, Boyadzhieva I, Haskoylu ME, Atanasova N, Yildiz SY, Kuncheva MJ, Panchev I, Kisov H, Vassilev S, Oner ET, Kambourova MS.	Eng Life Sci	10.1002/elsc.202000012	2020
Metabolic potential of the moderate halophile Yangia sp. ND199 for co-production of polyhydroxyalkanoates and exopolysaccharides.	Romero Soto L, Thabet H, Maghembe R, Gameiro D, Van-Thuoc D, Dishisha T, Hatti-Kaul R.	Microbiologyopen	10.1002/mbo3.1160	2021
Aerobic Denitrification and Heterotrophic Sulfur Oxidation in the Genus Halomonas Revealed by Six Novel Species Characterizations and Genome-Based Analysis.	Wang L, Shao Z.	Front Microbiol	10.3389/fmicb.2021.652766	2021
Halomonas xianhensis sp. nov., a moderately halophilic bacterium isolated from a saline soil contaminated with crude oil.	Zhao B, Wang H, Mao X, Li R, Zhang YJ, Tang S, Li WJ	Int J Syst Evol Microbiol	10.1099/ijs.0.025627-0	2011

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 )
#29905	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 #26277 (see below)
#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 )

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Halomonas xianhensis (CGMCC 1.6848, JCM 14849, A-1)

Name and taxonomic classification

Morphology

Cell morphology

Pigmentation

Culture and growth conditions

Culture temp

Culture pH

Physiology and metabolism

Oxygen tolerance

Spore formation

Observation

Metabolite utilization

Enzymes

Pathway annotation

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Sequence information

Genome sequences

Genome browser: GCA_900113605

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

BacDive

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