Halomonas utahensis (DSM 3051, III 65, IAM 14440)

Name: Halomonas utahensis (DSM 3051, III 65, IAM 14440)
Creator: BacDive
License: http://creativecommons.org/licenses/by/4.0/

BacDive ID 6025

Type strain

Strain Designation 65

Culture col. no. DSM 3051 III 65 IAM 14440 65 NBRC 102410 4 more

NCBI tax ID(s) 86177

Special Collections DSMZ JCM CIP

History DSMZ <- C. Fendrich, TU Braunschweig JCM <-- IAM 14440 <-- DSM 3051 <-- C. Fendrich, III. CIP <- 1998, DSMZ <- C. Fendrich, TU Braunschweig

Links

Halomonas utahensis 65 is a Gram-negative, motile, rod-shaped bacterium that was isolated from hypersaline surface water.

Gram-negative motile rod-shaped genome sequence 16S sequence Bacteria

Name and taxonomic classification

SI-ID 42376

BCRC 17786,ATCC 49240,DSM 3051,CIP 105504,IAM 14440,NCIMB 12993,NBRC 102410,JCM 21223,LMG 23828

@ref 20215

Last LPSN update 2026-05-29 08:26:18

Domain Bacteria

Phylum Pseudomonadota

Class Gammaproteobacteria

Order Oceanospirillales

Family Halomonadaceae

Genus Halomonas

Species Halomonas utahensis

Full scientific name Halomonas utahensis Sorokin and Tindall 2006

Synonyms (3)

Pseudomonas halophila
Vreelandella utahensis
Vreelandella halophila

Morphology

Cell morphology

@ref	Gram stain	Cell shape	Confidence
123798	negative	rod-shaped
125438	negative		98.75
125439	negative		90.622

Culture and growth conditions

Culture medium

@ref	Name	Medium link	Composition
1286	MEDIUM 514 PLUS ADDITIONAL SALT (DSMZ Medium 514b)	Medium recipe at MediaDive	Name: MEDIUM 514 plus additional salt (DSMZ Medium 514b) Composition: NaCl 19.45 g/l Agar 17.5 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
1286	HALOVIBRIO VARIABILIS MEDIUM (DSMZ Medium 598)	Medium recipe at MediaDive	Name: HALOVIBRIO VARIABILIS MEDIUM (DSMZ Medium 598) Composition: NaCl 95.0 g/l MgSO4 x 7 H2O 81.0 g/l Yeast extract 7.5 g/l Proteose peptone 2.5 g/l KCl 1.0 g/l Na2-EDTA 0.005 g/l H3BO3 0.003 g/l FeSO4 x 7 H2O 0.002 g/l CoCl2 x 6 H2O 0.002 g/l ZnSO4 x 7 H2O 0.001 g/l MnCl2 x 4 H2O 0.0003 g/l Na2MoO4 x 2 H2O 0.0003 g/l NiCl2 x 6 H2O 0.0002 g/l CuCl2 x 2 H2O 0.0001 g/l Pyridoxine hydrochloride 1e-05 g/l Pantothenic acid 5e-06 g/l p-Aminobenzoic acid 5e-06 g/l Nicotinic acid 5e-06 g/l Thiamine-HCl x 2 H2O 5e-06 g/l Riboflavin 5e-06 g/l Lipoic acid 5e-06 g/l Biotin 2e-06 g/l Folic acid 2e-06 g/l Vitamin B12 1e-07 g/l Distilled water
40186	MEDIUM 286 - for Halomonas variabilis		Distilled water make up to (980.000 ml);Sodium chloride (95.000 g);Potassium chloride (1.000 g);Magnesium sulphate heptahydrate (81.000 g);Agar (20.000 g);Yeastextract (7.500 g);Proteose Peptone N°3 (2.500 g);Solution SL-4 - M00546 (10.000 ml);Vitamins so
123798	CIP Medium 286	Medium recipe at CIP

Culture temp

@ref	Growth	Type	Temperature (°C)
1286	positive	growth	30
40186	positive	growth	30
67770	positive	growth	30
123798	positive	growth	15-37
123798	negative	growth	5
123798	negative	growth	45

Physiology and metabolism

Spore formation

@ref	Spore formation	Confidence
125439		99.421

Halophily

@ref	Salt	Growth	Tested relation	Concentration
123798	NaCl	positive	growth	4-10 %
123798	NaCl		growth	0 %
123798	NaCl		growth	2 %

Metabolite utilization

@ref	Chebi-ID	Metabolite	Utilization activity	Kind of utilization tested
123798	4853 ChEBI	esculin	-	hydrolysis
123798	606565 ChEBI	hippurate	-	hydrolysis
123798	15792 ChEBI	malonate	-	assimilation
123798	17632 ChEBI	nitrate	-	builds gas from
123798	17632 ChEBI	nitrate	-	reduction
123798	16301 ChEBI	nitrite	-	builds gas from
123798	16301 ChEBI	nitrite	-	reduction

Metabolite production

@ref	Chebi-ID	Metabolite	Production
123798	35581 ChEBI	indole

Metabolite tests

@ref	Chebi-ID	Metabolite	Voges-proskauer-test	Methylred-test
123798	15688 ChEBI	acetoin	-
123798	17234 ChEBI	glucose		-

Enzymes

@ref	Value	Activity	Ec
68382	acid phosphatase	-	3.1.3.2	from API zym
123798	alcohol dehydrogenase	-	1.1.1.1
68382	alkaline phosphatase	-	3.1.3.1	from API zym
68382	alpha-chymotrypsin	-	3.4.21.1	from API zym
68382	alpha-fucosidase	-	3.2.1.51	from API zym
68382	alpha-galactosidase	-	3.2.1.22	from API zym
68382	alpha-glucosidase	-	3.2.1.20	from API zym
68382	alpha-mannosidase	-	3.2.1.24	from API zym
123798	amylase	-
68382	beta-galactosidase	-	3.2.1.23	from API zym
123798	beta-galactosidase	+	3.2.1.23
68382	beta-glucosidase	-	3.2.1.21	from API zym
68382	beta-glucuronidase	-	3.2.1.31	from API zym
123798	caseinase	-	3.4.21.50
123798	catalase	+	1.11.1.6
68382	cystine arylamidase	-	3.4.11.3	from API zym
68382	esterase (C 4)	+		from API zym
68382	esterase lipase (C 8)	+		from API zym
123798	gamma-glutamyltransferase	+	2.3.2.2
123798	gelatinase	-
123798	lecithinase	-
68382	leucine arylamidase	+	3.4.11.1	from API zym
123798	lipase	-
68382	lipase (C 14)	-		from API zym
123798	lysine decarboxylase	-	4.1.1.18
68382	N-acetyl-beta-glucosaminidase	-	3.2.1.52	from API zym
68382	naphthol-AS-BI-phosphohydrolase	+		from API zym
123798	ornithine decarboxylase	-	4.1.1.17
123798	oxidase	+
123798	phenylalanine ammonia-lyase	-	4.3.1.24
68382	trypsin	-	3.4.21.4	from API zym
123798	tryptophan deaminase	-
123798	tween esterase	-
123798	urease	-	3.5.1.5
68382	valine arylamidase	-		from API zym

API zym

@ref	Control	Alkaline phosphatase	Esterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	Lipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	Trypsin	alpha- Chymotrypsin	Acid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	alpha- Galactosidase	beta- Galactosidase	beta- Glucuronidase	alpha- Glucosidase	beta- Glucosidase	N-acetyl-beta- glucosaminidase	alpha- Mannosidase	alpha- Fucosidase
123798	-	-	+	+	-	+	-	-	-	-	-	+	-	-	-	-	-	-	-	-

API biotype100

@ref	ControlQ	D-glucose as carbon sourceGLU	D-fructose as carbon sourceFRU	D-galactose as carbon sourceGAL	D-trehalose as carbon sourceTRE	D-mannose as carbon sourceMNE	L-sorbose as carbon sourceSBE	D-melibiose as carbon sourceMEL	sucrose as carbon sourceSAC	D-raffinose as carbon sourceRAF	maltotriose as carbon sourceMTE	maltose as carbon sourceMAL	lactose as carbon sourceLAC	lactulose as carbon sourceLTE	1-O-methyl-beta-galactopyranoside as carbon sourceMbGa	1-O-methyl-alpha-galactopyranoside as carbon sourceMaGa	D-cellobiose as carbon sourceCEL	gentiobiose as carbon sourceGEN	1-O-methyl-beta-D-glucopyranoside as carbon sourceMbGu	esculin as carbon sourceESC	D-ribose as carbon sourceRIB	L-arabinose as carbon sourceARA	D-xylose as carbon sourceXYL	palatinose as carbon sourcePLE	L-rhamnose as carbon sourceRHA	L-fucose as carbon sourceFUC	D-melezitose as carbon sourceMLZ	D-arabitol as carbon sourceDARL	L-arabitol as carbon sourceLARL	xylitol as carbon sourceXLT	dulcitol as carbon sourceDUL	D-tagatose as carbon sourceTAG	glycerol as carbon sourceGLY	myo-inositol as carbon sourceINO	D-mannitol as carbon sourceMAN	maltitol as carbon sourceMTL	D-turanose as carbon sourceTUR	D-sorbitol as carbon sourceSOR	adonitol as carbon sourceADO	hydroxyquinoline-beta-glucuronide as carbon sourceHBG	D-lyxose as carbon sourceLYX	i-erythritol as carbon sourceERY	1-O-methyl-alpha-D-glucoside as carbon sourceMDG	3-O-methyl-D-glucose as carbon source3MDG	D-saccharate as carbon sourceSAT	mucate as carbon sourceMUC	L-tartrate as carbon sourceLTAT	D-tartrate as carbon sourceDTAT	meso-tartrate as carbon sourceMTAT	D-malate as carbon sourceDMLT	L-malate as carbon sourceLMLT	cis-aconitate as carbon sourceCATE	trans-aconitate as carbon sourceTATE	tricarballylate as carbon sourceTTE	citrate as carbon sourceCIT	D-glucuronate as carbon sourceGRT	D-galacturonate as carbon sourceGAT	2-ketogluconate as carbon source2KG	5-ketogluconate as carbon source5KG	tryptophan as carbon sourceTRY	N-acetyl-D-glucosamine as carbon sourceNAG	D-gluconate as carbon sourceGNT	phenylacetate as carbon sourcePAC	protocatechuate as carbon sourcePAT	4-hydroxybenzoate as carbon sourcepOBE	quinate as carbon sourceQAT	gentisate as carbon sourceGTE	3-hydroxybenzoate as carbon sourcemOBE	benzoate as carbon sourceBAT	3-phenylpropionate as carbon sourcePPAT	m-coumarate as carbon sourceCMT	trigonelline as carbon sourceTGE	betaine as carbon sourceBET	putrescine as carbon sourcePCE	4-aminobutyrate as carbon sourceABT	histamine as carbon sourceHIN	DL-lactate as carbon sourceLAT	caprate as carbon sourceCAP	caprylate as carbon sourceCYT	L-histidine as carbon sourceHIS	succinate as carbon sourceSUC	fumarate as carbon sourceFUM	glutarate as carbon sourceGRE	DL-glycerate as carbon sourceGYT	5-aminovalerate as carbon sourceAVT	ethanolamine as carbon sourceETN	tryptamine as carbon sourceTTN	D-glucosamine as carbon sourceGLN	itaconate as carbon sourceITA	3-hydroxybutyrate as carbon source3OBU	L-aspartate as carbon sourceAPT	L-glutamate as carbon sourceGTT	L-proline as carbon sourcePRO	D-alanine as carbon sourceDALA	L-alanine as carbon sourceLALA	L-serine as carbon sourceSER	malonate as carbon sourceMNT	propionate as carbon sourcePROP	L-tyrosine as carbon sourceTYR	2-ketoglutarate as carbon source2KT
123798	not determinedn.d.	+	+	+	+	-	-	-	+	-	+	+	-	-	-	-	+	+	+	+	-	+	+	-	-	-	-	+	-	-	-	-	+	-	+	-	+	+	-	+	-	-	-	-	+	-	-	-	-	+	+	+	-	-	+	-	-	-	-	-	-	+	-	-	-	-	-	-	-	-	-	-	+	-	+	-	+	-	-	-	+	+	-	-	-	-	-	-	-	+	-	+	+	+	-	-	-	+	-	-

Isolation, sampling and environmental information

Isolation source categories

Cat1	Cat2	Cat3
#Environmental	#Aquatic	#Surface water
#Condition	#Saline	-

Isolation

@ref	Sample type	Geographic location	Country	Country ISO 3 Code	Continent
1286	hypersaline surface water	Utah, Great salt lake of the north Arm	USA	USA	North America
67770	Surface water from the North Arm of Great Salt Lake	UT	USA	USA	North America
123798	Environment, Hypersaline surface water		Germany	DEU	Europe

Taxonmaps

69479

Global distribution of 16S sequence AJ306893 (>99% sequence identity) for Halomonas from Microbeatlas

Aquatic Samples	3268
Soil Samples	321
Animal Samples	696
Plant Samples	83
Total Samples	4368

Interaction and safety

Risk assessment

@ref	Biosafety level	Biosafety level comment
1286	1	Risk group (German classification) According to TRBA 466
123798	1	Risk group (French 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	Halomonas utahensis strain DSM 3051	contig		86177.9		86177	76.47
66792	ASM1990342v1 assembly for Vreelandella halophila DSM 3051	scaffold	GCA_019903425	86177.10		86177	69.95
66792	ASM799117v1 assembly for Halovibrio variabilis NBRC 102410	contig	GCA_007991175	31910.4	2994750043	31910	68.75

16S sequences

@ref	Description	Accession	Length	NCBI tax ID
20218	Halovibrio variabilis (DSM 3051) 16S ribosomal RNA (16S rRNA) gene	M93357	1470	31910
20218	Halomonas variabilis gene for 16S rRNA, partial sequence, strain: NBRC 102410	AB681766	1458	31910
1286	Halomonas variabilis partial 16S rRNA gene, strain DSM 3051	AJ306893	1528	31910

GC content

@ref	GC-content (mol%)	Method
1286	58	thermal denaturation, midpoint method (Tm)
67770	61

Genome-based predictions

Predictions

Predictions from Deep Learning for Genome Sequence Data. R package version 0.3.1 based on: Halomonas utahensis strain DSM 3051
BV-BRC: 86177.9

@ref	Trait	Model	Prediction	Confidence in %	In training data
125439	oxygen_tolerance	BacteriaNetⓘ	obligate anaerobe	65.50	no
125439	gram_stain	BacteriaNetⓘ	negative	90.62	no
125439	motility	BacteriaNetⓘ	yes	76.21	no
125439	spore_formation	BacteriaNetⓘ	no	99.42	no

Predictions from bacterial phenotypic traits through improved machine learning using high-quality, curated datasets based on: Halomonas utahensis DSM 3051
NCBI: GCA_019903425.1

@ref	Trait	Model	Prediction	Confidence in %	In training data
125438	gram-positive	gram-positiveⓘ	no	98.75	no
125438	anaerobic	anaerobicⓘ	no	92.80	no
125438	aerobic	aerobicⓘ	yes	73.60	no
125438	spore-forming	spore-formingⓘ	no	86.57	no
125438	thermophilic	thermophileⓘ	no	94.74	no
125438	flagellated	motile2+ⓘ	yes	87.99	no

Literature

Topic	Title	Authors	Journal	DOI	Year
	Discovery of the selenium-containing antioxidant ovoselenol derived from convergent evolution.	Kayrouz CM, Ireland KA, Ying VY, Davis KM, Seyedsayamdost MR.	Nat Chem	10.1038/s41557-024-01600-2	2024
	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
Phylogeny	The designated type strain of Pseudomonas halophila Fendrich 1989 is DSM 3051, the designated type strain of Halovibrio variabilis Fendrich 1989 is DSM 3050, the new name Halomonas utahensis (Fendrich 1989) Sorokin and Tindall 2006 is created for the species represented by DSM 3051 when treated as a member of the genus Halomonas, the combination Halomonas variabilis (Fendrich 1989) Dobson and Franzmann 1996 is rejected, and the combination Halovibrio denitrificans Sorokin et al. 2006 is validly published with an emendation of the description of the genus Halovibrio Fendrich 1989 emend. Sorokin et al. 2006. Opinion 93. Judicial Commission of the International Committee on Systematics of Prokaryotes.	Tindall BJ	Int J Syst Evol Microbiol	10.1099/ijs.0.069195-0	2014
Phylogeny	The status of the genus name Halovibrio Fendrich 1989 and the identity of the strains Pseudomonas halophila DSM 3050 and Halomonas variabilis DSM 3051. Request for an opinion.	Sorokin DY, Tindall BJ	Int J Syst Evol Microbiol	10.1099/ijs.0.63965-0	2006
Phylogeny	Extremely halophilic denitrifying bacteria from hypersaline inland lakes, Halovibrio denitrificans sp. nov. and Halospina denitrificans gen. nov., sp. nov., and evidence that the genus name Halovibrio Fendrich 1989 with the type species Halovibrio variabilis should be associated with DSM 3050.	Sorokin DY, Tourova TP, Galinski EA, Belloch C, Tindall BJ	Int J Syst Evol Microbiol	10.1099/ijs.0.63964-0	2006

References

#1286	Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 3051
#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 )
#40186	; Curators of the CIP;
#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;
#68382	Automatically annotated from API zym .
#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 .
#123798	Collection of Institut Pasteur ; Curators of the CIP; CIP 105504
#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 )

Content

About us

Halomonas utahensis (DSM 3051, III 65, IAM 14440)

Name and taxonomic classification

Morphology

Cell morphology

Culture and growth conditions

Culture medium

Culture temp

Physiology and metabolism

Spore formation

Halophily

Metabolite utilization

Metabolite production

Metabolite tests

Enzymes

API zym

API biotype100

Isolation, sampling and environmental information

Isolation source categories

Isolation

Taxonmaps

Interaction and safety

Risk assessment

Sequence information

Genome sequences

Genome browser: GCA_019903425

16S sequences

GC content

Genome-based predictions

Predictions

Literature

Literature

References

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