Name: Halomonas desiderata DQD2-30
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 134359

Type strain:

Species: Halomonas desiderata

Strain Designation: DQD2-30

Culture col. no.: CGMCC 1.6443, LMG 23896

NCBI tax ID(s): 52021 (species)

SI-ID 293008

LMG 23896, CGMCC 1.6443

Other strains from Halomonas desiderata

H. desiderata FB 2, FB2, DSM 9502, CIP 105505 (type strain)

Section

Halomonas desiderata DQD2-30 is an aerobe, Gram-negative, motile bacterium that was isolated from soil.

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 desiderata**
	Full Scientific Name (LPSN)	Halomonas desiderata Berendes et al. 1997

	Synonym	"Billgrantia* desiderata"*
	Synonym	Halomonas daqingensis

Information on morphological and physiological properties Morphology

[Ref.: #32595]	Gram stain	negative
[Ref.: #69480]	Gram stain	negative Confidence in %99.995

[Ref.: #32595]	Cell length	1-1.2 µm

[Ref.: #32595]	Cell width	0.7-0.8 µm

[Ref.: #32595]	Cell shape	rod-shaped

[Ref.: #32595]	Motility	yes
[Ref.: #69480]	Motility	yes Confidence in %96.797

[Ref.: #32595]

Pigment production

yes

Information on culture and growth conditions Culture and growth conditions

	Temperatures	Kind of temperature		Temperature
[Ref.: #32595]			growth	10-50 °C
[Ref.: #32595]			optimum	30 °C

[Ref.: #32595]

Temperature range

mesophilic

	pH	Kind of pH		pH
[Ref.: #32595]			optimum	9
[Ref.: #32595]			growth	08-10

Information on physiology and metabolism Physiology and metabolism

[Ref.: #32595]

Oxygen tolerance

aerobe

[Ref.: #32595]	Ability of spore formation	no
[Ref.: #69481]	Ability of spore formation	no Confidence in %100
[Ref.: #69480]	Ability of spore formation	no Confidence in %99.786

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #32595]		NaCl		growth	01-15	%
[Ref.: #32595]		NaCl		optimum	05-10	%

[Ref.: #32595]

Observation

aggregates in chains

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #32595]	dextrin ChEBI	+	carbon source
[Ref.: #32595]	galactose ChEBI	+	carbon source
[Ref.: #32595]	gluconate ChEBI	+	carbon source
[Ref.: #32595]	glucose ChEBI	+	carbon source
[Ref.: #32595]	malate ChEBI	+	carbon source
[Ref.: #32595]	malonate ChEBI	+	carbon source
[Ref.: #32595]	maltose ChEBI	+	carbon source
[Ref.: #32595]	mannitol ChEBI	+	carbon source
[Ref.: #32595]	mannose ChEBI	+	carbon source
[Ref.: #32595]	nitrate ChEBI	+	reduction
[Ref.: #32595]	sorbitol ChEBI	+	carbon source
[Ref.: #32595]	succinate ChEBI	+	carbon source
[Ref.: #32595]	sucrose ChEBI	+	carbon source
[Ref.: #32595]	trehalose ChEBI	+	carbon source
	Only first 10 entries are displayed. Click here to see all.

	Metabolite production	Metabolite	Production
[Ref.: #32595]		indole ChEBI	yes

	Physiological tests	Metabolite	Indole test
[Ref.: #32595]		indole ChEBI	+

	Enzyme	Enzyme activity	EC number
[Ref.: #32595]	catalase	+	1.11.1.6
[Ref.: #32595]	cytochrome oxidase	+	1.9.3.1
[Ref.: #32595]	urease	+	3.5.1.5

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

[Ref.: #32595]	Sample type/isolated from	soil
* marker position based on {}

Isolation sources categories

#Environmental

#Terrestrial

#Soil

What are isolation sources categories?

[Ref.: #69479]

Global distribution of 16S sequence EF121854 (>99% sequence identity) for Halomonas from Microbeatlas

Aquatic Samples	32
Soil Samples	25
Animal Samples	46
Plant Samples	4
Total Samples	107

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.: #32595]	Halomonas daqingensis strain DQD2-30 16S ribosomal RNA gene, partial sequence	EF121854	1420	GenBank	419596 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Halomonas desiderata CGMCC 1.6443	GCA_900108215	scaffold	GenBank	52021 tax ID	*
[Ref.: #66792]	Halomonas daqingensis strain CGMCC 1.6443	419596.3	wgs	PATRIC	419596 tax ID	*
[Ref.: #66792]	Halomonas daqingensis CGMCC 1.6443	2617270887	draft	JGI IMG/M	419596 tax ID	*

[Ref.: #32595]

GC-content

67 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from GenomeNet Sporulation v. 1 based on: Halomonas daqingensis CGMCC 1.6443 NCBI: GCA_900108215.1
[Ref.: #69481]	spore-forming	no	100	no

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Halomonas daqingensis CGMCC 1.6443 NCBI: GCA_900108215.1
[Ref.: #69480]	glucose-ferment	no	75.037	no
[Ref.: #69480]	motile	yes	93.395	yes
[Ref.: #69480]	flagellated	yes	77.95	no
[Ref.: #69480]	gram-positive	no	98.521	yes
[Ref.: #69480]	anaerobic	no	97.443	yes
[Ref.: #69480]	aerobic	yes	83.906	no
[Ref.: #69480]	halophile	yes	82.597	no
[Ref.: #69480]	spore-forming	no	93.93	yes
[Ref.: #69480]	thermophile	no	99.202	no
[Ref.: #69480]	glucose-util	yes	93.649	yes

Availability in culture collections External links

[Ref.: #32595]

Culture collection no.

CGMCC 1.6443, LMG 23896

[Ref.: #91910]

SI-ID 293008

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Halomonas bachuensis sp. nov., Isolated from Gobi Soil.	Xiao Z, Shen J, Wang Z, Dong F, Zhao JY	Curr Microbiol	10.1007/s00284-020-02268-w	2020	*
Phylogeny	Halomonas lactosivorans sp. nov., isolated from salt-lake sediment.	Ming H, Ji WL, Li M, Zhao ZL, Cheng LJ, Niu MM, Zhang LY, Wang Y, Nie GX	Int J Syst Evol Microbiol	10.1099/ijsem.0.004209	2020	*
Phylogeny	Halomonas saliphila sp. nov., a moderately halophilic bacterium isolated from a saline soil.	Gan L, Long X, Zhang H, Hou Y, Tian J, Zhang Y, Tian Y	Int J Syst Evol Microbiol	10.1099/ijsem.0.002644	2018	*
Phylogeny	Halomonas daqingensis sp. nov., a moderately halophilic bacterium isolated from an oilfield soil.	Wu G, Wu XQ, Wang YN, Chi CQ, Tang YQ, Kida K, Wu XL, Luan ZK	Int J Syst Evol Microbiol	10.1099/ijs.0.65746-0	2008	*
Phylogeny	Halomonas alkalisoli sp. nov., a novel haloalkalophilic species from saline-alkaline soil, and reclassification of Halomonas daqingensis Wu et al. 2008 as a later heterotypic synonym of Halomonas desiderata Berendes et al. 1996.	Shang J, Xu L, Yang R, Zhao Y, Tang SK, Sun JQ	Syst Appl Microbiol	10.1016/j.syapm.2022.126351	2022	*

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 )

#32595

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 #28808 (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 )

#91910

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-ID293008.1 )

#28808

IJSEM 2859 2008 ( DOI 10.1099/ijs.0.65746-0 , PubMed 19060072 )

* These data were automatically processed and therefore are not curated

Change proposal

You found an error in BacDive? Please tell us about it!

Note that changes will be reviewed and judged. If your changes are legitimate, changes will occur within the next BacDive update. Only proposed changes supported by the according reference will be reviewed. The BacDive team reserves the right to reject proposed changes.

Search for species Halomonas daqingensis in external resources:
SILVA
BRENDA
PANGAEA
StrainInfo
GBIF

Halomonas daqingensis CGMCC 1.6443

Halomonas daqingensis CGMCC 1.6443

Change proposal

Change proposal