Name: Alkalicoccus halolimnae BZ-SZ-XJ29
Creator: BacDive
License: https://creativecommons.org/licenses/by/4.0/

Strain identifier

BacDive ID: 140264

Type strain:

Species: Alkalicoccus halolimnae

Strain Designation: BZ-SZ-XJ29

Culture col. no.: DSM 29191, CGMCC 1.12936, JCM 30193

Strain history: B. Zhao; Grad. Sch. of Chin. Acad. of Agric. Sci., China; BZ-SZ-XJ29.

NCBI tax ID(s): 1667239 (species)

SI-ID 401440

DSM 29191

Special Collections

Other strains from Alkalicoccus halolimnae

Section

Alkalicoccus halolimnae BZ-SZ-XJ29 is an aerobe, moderately halophilic, Gram-positive bacterium that forms circular colonies and was isolated from combined water and sediment sample.

coccus-shaped
colony-forming
Gram-positive
aerobe
moderately halophilic
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	*Bacillota*
	Class	*Bacilli*
	Order	*Caryophanales*
	Family	*Bacillaceae*
	Genus	*Alkalicoccus*
	Species	**Alkalicoccus halolimnae**
	Full Scientific Name (LPSN)	Alkalicoccus halolimnae Zhao et al. 2017

Information on morphological and physiological properties Morphology

[Ref.: #43205]	Gram stain	positive

[Ref.: #43205]	Cell length	1.2-1.5 µm

[Ref.: #43205]	Cell width	1.2-1.5 µm

[Ref.: #43205]	Cell shape	coccus-shaped

[Ref.: #43205]	Motility	no

[Ref.: #43205]	Colony size	1-2 mm
[Ref.: #43205]	Colony color	yellow
[Ref.: #43205]	Colony shape	circular
[Ref.: #43205]	Incubation period	3 days
[Ref.: #43205]	Cultivation medium used	modified solid medium

Information on culture and growth conditions Culture and growth conditions

[Ref.: #43205]

Culture medium

modified solid medium

[Ref.: #43205]

Culture medium growth

[Ref.: #43205]

Culture medium composition

expand / minimize

[Ref.: #42871]

Culture medium

BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)

[Ref.: #42871]

Culture medium growth

[Ref.: #42871]

Culture medium link

Medium recipe at MediaDive

[Ref.: #42871]

Culture medium composition

expand / minimize

		Temperature
[Ref.: #42871]	growth	35 °C
[Ref.: #43205]	optimum	33 °C
[Ref.: #43205]	growth	5-41 °C
[Ref.: #67770]	growth	35 °C

	pH	Kind of pH		pH
[Ref.: #43205]			optimum	7.5
[Ref.: #43205]			growth	6.0-10.5

Information on physiology and metabolism Physiology and metabolism

[Ref.: #43205]

Oxygen tolerance

aerobe

[Ref.: #43205]

Ability of spore formation

[Ref.: #43205]

Halophily / tolerance level

moderately halophilic

	Halophily	Salt	Tested relation		Salt conc.
[Ref.: #43205]		NaCl		growth	4.3-24.3	%(w/v)
[Ref.: #43205]		NaCl		optimum	8.3-12.3	%(w/v)

[Ref.: #43205]	Observation	accumaltion of polyhydroxyalkanoate granules
[Ref.: #43205]	Observation	production of exopolysaccharide
[Ref.: #67770]	Observation	quinones: MK-7

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #43205]	acetoin ChEBI	+	hydrolysis
[Ref.: #43205]	alpha-D-glucose ChEBI	+	carbon source
[Ref.: #43205]	alpha-D-glucose ChEBI	+	builds acid from
[Ref.: #43205]	casein	+	hydrolysis
[Ref.: #43205]	cellobiose ChEBI	-	carbon source
[Ref.: #43205]	D-fructose ChEBI	+	carbon source
[Ref.: #43205]	D-fructose ChEBI	+	builds acid from
[Ref.: #43205]	D-fucose ChEBI	+	carbon source
[Ref.: #43205]	D-fucose ChEBI	+	builds acid from
[Ref.: #43205]	D-galactose ChEBI	+	carbon source
[Ref.: #43205]	D-galactose ChEBI	-	carbon source
[Ref.: #43205]	D-galactose ChEBI	-	builds acid from
[Ref.: #43205]	D-mannose ChEBI	+	carbon source
[Ref.: #43205]	D-mannose ChEBI	+	builds acid from
[Ref.: #43205]	D-ribose ChEBI	+	carbon source
[Ref.: #43205]	D-ribose ChEBI	+	builds acid from
[Ref.: #43205]	D-serine ChEBI	-	nitrogen source
[Ref.: #43205]	D-xylose ChEBI	+	carbon source
[Ref.: #43205]	D-xylose ChEBI	+	builds acid from
[Ref.: #43205]	gamma-aminobutyric acid ChEBI	+	nitrogen source
[Ref.: #43205]	gamma-aminobutyric acid ChEBI	+	carbon source
[Ref.: #43205]	glucose ChEBI	-	fermentation
[Ref.: #43205]	glucuronamide ChEBI	-	nitrogen source
[Ref.: #43205]	glycine-proline ChEBI	-	nitrogen source
[Ref.: #43205]	hippurate ChEBI	-	hydrolysis
[Ref.: #43205]	L-alanine ChEBI	-	nitrogen source
[Ref.: #43205]	L-arabinose ChEBI	+	carbon source
[Ref.: #43205]	L-arabinose ChEBI	-	builds acid from
[Ref.: #43205]	L-arginine ChEBI	-	nitrogen source
[Ref.: #43205]	L-aspartate ChEBI	-	nitrogen source
[Ref.: #43205]	L-glutamate ChEBI	-	nitrogen source
[Ref.: #43205]	L-histidine ChEBI	-	nitrogen source
[Ref.: #43205]	L-pyroglutamic acid ChEBI	-	nitrogen source
[Ref.: #43205]	L-rhamnose ChEBI	+	carbon source
[Ref.: #43205]	L-rhamnose ChEBI	-	builds acid from
[Ref.: #43205]	L-serine ChEBI	-	nitrogen source
[Ref.: #43205]	maltose ChEBI	+	carbon source
[Ref.: #43205]	maltose ChEBI	+	builds acid from
[Ref.: #43205]	melezitose ChEBI	+	carbon source
[Ref.: #43205]	melezitose ChEBI	+	builds acid from
[Ref.: #43205]	N-acetylglucosamine ChEBI	+	nitrogen source
[Ref.: #43205]	N-acetylglucosamine ChEBI	+	carbon source
[Ref.: #43205]	nitrate ChEBI	-	reduction
[Ref.: #43205]	nitrite ChEBI	-	reduction
[Ref.: #43205]	raffinose ChEBI	-	carbon source
[Ref.: #43205]	stachyose ChEBI	-	carbon source
[Ref.: #43205]	starch ChEBI	+	hydrolysis
[Ref.: #43205]	sucrose ChEBI	+	carbon source
[Ref.: #43205]	sucrose ChEBI	+	builds acid from
[Ref.: #43205]	tween 20 ChEBI	-	hydrolysis
[Ref.: #43205]	tween 80 ChEBI	-	hydrolysis
[Ref.: #43205]	tyrosine ChEBI	-	degradation
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Antibiotic sensitivity	Concentration		Antibiotic resistance	Concentration
[Ref.: #43205]	amoxicillin ChEBI	yes	10	µg (disc)
[Ref.: #43205]	ampicillin ChEBI	yes	50	µg (disc)
[Ref.: #43205]	carbenicillin ChEBI	yes	100	µg (disc)
[Ref.: #43205]	cefotaxime ChEBI	yes	30	µg (disc)
[Ref.: #43205]	cefoxitin ChEBI	yes	30	µg (disc)
[Ref.: #43205]	chloramphenicol ChEBI	yes	30	µg (disc)
[Ref.: #43205]	clarithromycin ChEBI	yes	15	µg (disc)
[Ref.: #43205]	clindamycin ChEBI	yes	2	µg (disc)
[Ref.: #43205]	erythromycin ChEBI	yes	15	µg (disc)
[Ref.: #43205]	gentamicin ChEBI				yes	10	µg (disc)
[Ref.: #43205]	kanamycin ChEBI				yes	50	µg (disc)
[Ref.: #43205]	nalidixic acid ChEBI				yes	30	µg (disc)
[Ref.: #43205]	neomycin ChEBI				yes	30	µg (disc)
[Ref.: #43205]	penicillin ChEBI	yes	10	Unit (disc)
[Ref.: #43205]	rifampicin ChEBI	yes	30	µg (disc)
[Ref.: #43205]	streptomycin ChEBI				yes	300	µg (disc)
[Ref.: #43205]	sulfamethoxazole ChEBI	yes	300	µg (disc)
[Ref.: #43205]	tetracycline ChEBI	yes	30	µg (disc)
[Ref.: #43205]	vancomycin ChEBI	yes	30	µg (disc)
	Only first 10 entries are displayed. Click here to see all.

	Metabolite	Production
[Ref.: #43205]	acetoin ChEBI	yes
[Ref.: #43205]	hydrogen sulfide ChEBI	no
[Ref.: #43205]	indole ChEBI	no

	Physiological tests	Metabolite	Voges-Proskauer-test	Methylred-test
[Ref.: #43205]		acetoin ChEBI	+
[Ref.: #43205]		glucose ChEBI		-

	Enzyme	Enzyme activity	EC number
[Ref.: #43205]	arginine decarboxylase	-	4.1.1.19
[Ref.: #43205]	catalase	+	1.11.1.6
[Ref.: #43205]	cytochrome oxidase	-	1.9.3.1
[Ref.: #43205]	lysine decarboxylase	-	4.1.1.18
[Ref.: #43205]	ornithine decarboxylase	-	4.1.1.17

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

[Ref.: #43205]	Sample type/isolated from	combined water and sediment sample
[Ref.: #43205]	Geographic location (country and/or sea, region)	salt lake near Urumqi city, Xinjiang Uyghur Autonomous Region of China
[Ref.: #43205]	Country	China
[Ref.: #43205]	Country ISO 3 Code	CHN
[Ref.: #43205]	Continent	Asia
[Ref.: #43205]	Geographic location	43.0000°/88.0000°
[Ref.: #43205]	Enrichment culture	modified solid medium
[Ref.: #43205]	Enrichment culture duration	5 days
[Ref.: #43205]	Enrichment culture temperature	37 ̊C
[Ref.: #43205]	Isolation/enrichment procedure	10-fold dilution-plating technique

[Ref.: #42871]	Sample type/isolated from	mixture of water and sediment of a saline-alkaline lake
[Ref.: #42871]	Geographic location (country and/or sea, region)	Xinjiang, close to Urumqi city, salt lake near the National Road No. 314 (43° 24' 35'' N 88° 6' 39'' E, 1072 m elevation)
[Ref.: #42871]	Country	China
[Ref.: #42871]	Country ISO 3 Code	CHN
[Ref.: #42871]	Continent	Asia
[Ref.: #42871]	Geographic location	43.4097°/88.1108°

[Ref.: #67770]	Sample type/isolated from	Salt lake
[Ref.: #67770]	Country	China
[Ref.: #67770]	Country ISO 3 Code	CHN
[Ref.: #67770]	Continent	Asia
* marker position based on {}

Isolation sources categories

#Environmental

#Aquatic

#Sediment

What are isolation sources categories?

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

[Ref.: #42871]

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.: #42871]	Bacillus sp. (in: firmicutes) 16S ribosomal RNA gene, partial sequence	KX618877	1538	GenBank ENA	1409 tax ID

Genome sequence information:

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Alkalicoccus halolimnae BZ-SZ-XJ29	GCA_008014775	scaffold	GenBank ENA	1667239 tax ID	*

[Ref.: #42871]	GC-content	40.0 mol%	thermal denaturation, midpoint method (Tm)
[Ref.: #67770]	GC-content	40 mol%	thermal denaturation, midpoint method (Tm)

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: Alkalicoccus halolimnae BZ-SZ-XJ29 NCBI: GCA_008014775.1
[Ref.: #69481]	spore-forming	spore-formingⓘ	no	84	no

	Trait	Model	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Alkalicoccus halolimnae BZ-SZ-XJ29 NCBI: GCA_008014775.1
[Ref.: #69480]	gram-positive	gram-positiveⓘ	yes	84.388	yes
[Ref.: #69480]	anaerobic	anaerobicⓘ	no	96.326	yes
[Ref.: #69480]	aerobic	aerobicⓘ	yes	80.814	yes
[Ref.: #69480]	spore-forming	spore-formingⓘ	no	53	yes
[Ref.: #69480]	thermophilic	thermophileⓘ	no	92.862	no
[Ref.: #69480]	flagellated	motile2+ⓘ	no	68.551	yes

Availability in culture collections External links

[Ref.: #42871]

Culture collection no.

DSM 29191, CGMCC 1.12936, JCM 30193

[Ref.: #96570]

SI-ID 401440

Literature:

Topic	Title	Authors	Journal	DOI	Year
Phylogeny	Reclassification of Bacillus saliphilus as Alkalicoccus saliphilus gen. nov., comb. nov., and description of Alkalicoccus halolimnae sp. nov., a moderately halophilic bacterium isolated from a salt lake.	Zhao B, Lu W, Zhang S, Liu K, Yan Y, Li J	Int J Syst Evol Microbiol	10.1099/ijsem.0.001759	2017	*
Genetics	Draft Genome Sequence of Alkalicoccus halolimnae BZ-SZ-XJ29(T), a Moderately Halophilic Bacterium Isolated from a Salt Lake.	Zhang Y, Qiu D, Liao Z, Zhao B	Microbiol Resour Announc	10.1128/MRA.00500-20	2020	*

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 )

#42871

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 29191

#43205

Baisuo Zhao, Weidong Lu, Shanshan Zhang, Kang Liu, Yanchun Yan and Jun Li: Reclassification of Bacillus saliphilus as Alkalicoccus saliphilus gen. nov., comb. nov., and description of Alkalicoccus halolimnae sp. nov., a moderately halophilic bacterium isolated from a salt lake. IJSEM 67: 1557 - 1563 2017 ( DOI 10.1099/ijsem.0.001759 , PubMed 28032538 )

#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;

#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 )

#96570

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-ID401440.1 )

* These data were automatically processed and therefore are not curated

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