Name: Halomonas hamiltonii W1025
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 6073

Type strain:

Species: Halomonas hamiltonii

Strain Designation: W1025

Culture col. no.: DSM 21196, KCTC 22154

Strain history: <- K. K. Kim, KCTC; W1025 <- D. A. Stevens, Santa Clara Valley Medical Center (SCVMC), San Jose, California, USA

NCBI tax ID(s): 502829 (species)

SI-ID 402727

DSM 21196

Special Collections

Section

Halomonas hamiltonii W1025 is an aerobe, Gram-negative, motile bacterium that was isolated from dialysis machine drain.

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

Information on the name and the taxonomic classification. Name and taxonomic classification

	Last LPSN update	14-12-2023 (DD-MM-YYYY)
	Domain	"Bacteria"
	Phylum	*Pseudomonadota*
	Class	*Gammaproteobacteria*
	Order	*Oceanospirillales*
	Family	*Halomonadaceae*
	Genus	*Halomonas*
	Species	**Halomonas hamiltonii**
	Full Scientific Name (LPSN)	Halomonas hamiltonii Kim et al. 2010

Synonym

"Vreelandella hamiltonii"

Information on morphological and physiological properties Morphology

[Ref.: #29031]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.985

[Ref.: #29031]	Cell length	2.5 µm

[Ref.: #29031]	Cell width	0.95 µm

[Ref.: #29031]	Cell shape	rod-shaped

[Ref.: #29031]	Motility	yes

[Ref.: #29031]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

[Ref.: #15438]

Culture medium

TRYPTONE SOYA BROTH (TSB) (DSMZ Medium 545)

[Ref.: #15438]

Culture medium growth

[Ref.: #15438]

Culture medium link

Medium recipe at MediaDive

[Ref.: #15438]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #15438]	growth	28 °C
[Ref.: #29031]	growth	10-40 °C
[Ref.: #29031]	optimum	32.5 °C

	pH	Kind of pH		pH
[Ref.: #29031]			optimum	8.5
[Ref.: #29031]			growth	06-10

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29031]

Oxygen tolerance

aerobe

[Ref.: #29031]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #29031]		NaCl		growth	0-20	%
[Ref.: #29031]		NaCl		optimum	6.25	%

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #29031]	4-hydroxybenzoate ChEBI	+	carbon source
[Ref.: #29031]	acetate ChEBI	+	carbon source
[Ref.: #29031]	adipate ChEBI	+	carbon source
[Ref.: #29031]	alanine ChEBI	+	carbon source
[Ref.: #29031]	citrate ChEBI	+	carbon source
[Ref.: #29031]	ethanol ChEBI	+	carbon source
[Ref.: #29031]	fructose ChEBI	+	carbon source
[Ref.: #29031]	galactose ChEBI	+	carbon source
[Ref.: #29031]	gluconate ChEBI	+	carbon source
[Ref.: #29031]	glucose ChEBI	+	carbon source
[Ref.: #29031]	glycerol ChEBI	+	carbon source
[Ref.: #29031]	malate ChEBI	+	carbon source
[Ref.: #29031]	malonate ChEBI	+	carbon source
[Ref.: #29031]	mannitol ChEBI	+	carbon source
[Ref.: #29031]	proline ChEBI	+	carbon source
[Ref.: #29031]	propionate ChEBI	+	carbon source
[Ref.: #29031]	serine ChEBI	+	carbon source
[Ref.: #29031]	sorbitol ChEBI	+	carbon source
[Ref.: #29031]	succinate ChEBI	+	carbon source
[Ref.: #29031]	sucrose ChEBI	+	carbon source
[Ref.: #29031]	trehalose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #29031]		hydrogen sulfide ChEBI	yes

	Enzymes	Enzyme	Enzyme activity	EC number
[Ref.: #29031]		catalase	+	1.11.1.6
[Ref.: #29031]		cytochrome oxidase	+	1.9.3.1

Information on isolation source, the sampling and environmental conditions Isolation, sampling and environmental information

[Ref.: #15438]	Sample type/isolated from	dialysis machine drain
[Ref.: #15438]	Geographic location (country and/or sea, region)	California, San Jose, Santa Clara Valley Medical Center
[Ref.: #15438]	Country	USA
[Ref.: #15438]	Country ISO 3 Code	USA
[Ref.: #15438]	Continent	North America
* marker position based on {}

Isolation sources categories

#Infection

#Medical device

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence AM941396 (>99% sequence identity) for Halomonas from Microbeatlas

Aquatic Samples	3901
Soil Samples	614
Animal Samples	4865
Plant Samples	81
Total Samples	9461

Information on possible application of the strain and its possible interaction with e.g. potential hosts Safety information

[Ref.: #15438]

Biosafety level

Risk group (German classification)
According to TRBA 466

Information on genomic background e.g. entries in nucleic sequence databass Sequence information

16S Sequence information:

	Sequence accession description	Seq. accession number	Sequence length (bp)	Sequence database	Associated NCBI tax ID
[Ref.: #15438]	Halomonas hamiltonii partial 16S rRNA gene, type strain W1025T	AM941396	1455	GenBank ENA	502829 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Halomonas hamiltonii KCTC 22154	GCA_014651775	scaffold	GenBank ENA	502829 tax ID	*
[Ref.: #66792]	Halomonas hamiltonii strain KCTC 22154	502829.3	wgs	PATRIC	502829 tax ID	*

[Ref.: #15438]	GC-content	64.6 mol%	high performance liquid chromatography (HPLC)
[Ref.: #29031]	GC-content	64.6 mol%

Data predicted using genome information as a basis Genome-based predictions

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Halomonas hamiltonii KCTC 22154 NCBI: GCA_014651775.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	100	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Halomonas hamiltonii KCTC 22154 NCBI: GCA_014651775.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	no	99.985	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	96.698	no
[Ref.: #69480]	aerobic	aerobicⓘ	yes	83.456	no
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	89.1	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	95.875	yes
[Ref.: #69480]	flagellated	motile2+ⓘ	yes	82.228	no

Availability in culture collections External links

[Ref.: #15438]

Culture collection no.

DSM 21196, KCTC 22154

[Ref.: #75560]

SI-ID 402727

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Halomonas montanilacus sp. nov., isolated from hypersaline Lake Pengyanco on the Tibetan Plateau.	Lu H, Xing P, Zhai L, Li H, Wu Q	Int J Syst Evol Microbiol	10.1099/ijsem.0.004109	2020	*
Phylogeny	Halomonas songnenensis sp. nov., a moderately halophilic bacterium isolated from saline and alkaline soils.	Jiang J, Pan Y, Hu S, Zhang X, Hu B, Huang H, Hong S, Meng J, Li C, Wang K	Int J Syst Evol Microbiol	10.1099/ijs.0.056499-0	2014	*
Phylogeny	Halomonas stevensii sp. nov., Halomonas hamiltonii sp. nov. and Halomonas johnsoniae sp. nov., isolated from a renal care centre.	Kim KK, Lee KC, Oh HM, Lee JS	Int J Syst Evol Microbiol	10.1099/ijs.0.004424-0	2009	*

References

#15438

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 21196

#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 )

#29031

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 #25461 (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) .

#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 .

#69480

Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann: Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) .

#69481

Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch: Predictions based on the model GenomeNet Sporulation v. 1 . ( DOI 10.21203/rs.3.rs-2527258/v1 )

#75560

Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.: StrainInfo: A central database for resolving microbial strain identifiers . ( DOI 10.60712/SI-ID402727.1 )

#25461

IJSEM 369 2010 ( DOI 10.1099/ijs.0.004424-0 , PubMed 19651714 )

* These data were automatically processed and therefore are not curated

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Halomonas hamiltonii KCTC 22154

Halomonas hamiltonii KCTC 22154

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