Name: Halomonas boliviensis LC1
Creator: BacDive
License: http://creativecommons.org/licenses/by-nc/4.0/

Strain identifier

BacDive ID: 6036

Type strain:

Species: Halomonas boliviensis

Strain Designation: LC1

Culture col. no.: DSM 15516, ATCC BAA-759, CIP 108425

Strain history: CIP <- 2004, J. Quillaguaman, Lund Univ., Lund, Sweden: strain LC1

NCBI tax ID(s): 1072583 (strain), 223527 (species)

SI-ID 132016

ATCC BAA-759, DSM 15516, CIP 108425

Other strains from Halomonas boliviensis

H. boliviensis LC2, DSM 15517

Section

Halomonas boliviensis LC1 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from saline soils.

Gram-negative
motile
rod-shaped
aerobe
mesophilic
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 boliviensis**
	Full Scientific Name (LPSN)	Halomonas boliviensis Quillaguamán et al. 2004

Synonym

"Vreelandella boliviensis"

Information on morphological and physiological properties Morphology

[Ref.: #29994]	Gram stain	negative
[Ref.: #116835]	Gram stain	negative

[Ref.: #29994]	Cell length	2.25 µm

[Ref.: #29994]	Cell width	0.5 µm

[Ref.: #29994]	Cell shape	rod-shaped
[Ref.: #116835]	Cell shape	rod-shaped

[Ref.: #29994]	Motility	yes
[Ref.: #116835]	Motility	yes

[Ref.: #29994]

Pigment production

Information on culture and growth conditions Culture and growth conditions

[Ref.: #5974]

Culture medium

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

[Ref.: #5974]

Culture medium growth

[Ref.: #5974]

Culture medium link

Medium recipe at MediaDive

[Ref.: #5974]

Culture medium composition

expand / minimize

[Ref.: #38178]

Culture medium

Marine agar (MA)

[Ref.: #38178]

Culture medium growth

[Ref.: #38178]

Culture medium composition

expand / minimize

[Ref.: #116835]

Culture medium

CIP Medium 112

[Ref.: #116835]

Culture medium growth

[Ref.: #116835]

Culture medium link

Medium recipe provided by DSMZ

[Ref.: #116835]

Culture medium

CIP Medium 13

[Ref.: #116835]

Culture medium growth

[Ref.: #116835]

Culture medium link

Medium recipe provided by DSMZ

	Kind of temperature		Temperature
[Ref.: #5974]		growth	28 °C
[Ref.: #29994]		growth	0-45 °C
[Ref.: #29994]		optimum	27.5 °C
[Ref.: #38178]		growth	30 °C
[Ref.: #116835]		growth	5-37 °C
[Ref.: #116835]	no	growth	41 °C
[Ref.: #116835]	no	growth	45 °C

[Ref.: #5974]	Temperature range	mesophilic
[Ref.: #29994]	Temperature range	mesophilic
[Ref.: #38178]	Temperature range	mesophilic
[Ref.: #116835]	Temperature range	thermophilic

	pH	Kind of pH		pH
[Ref.: #29994]			optimum	7.75
[Ref.: #29994]			growth	06-11

Information on physiology and metabolism Physiology and metabolism

[Ref.: #29994]	Oxygen tolerance	aerobe
[Ref.: #116835]	Oxygen tolerance	obligate aerobe

	Salt	Tested relation		Salt conc.
[Ref.: #29994]	NaCl		growth	0-25	%
[Ref.: #29994]	NaCl		optimum	5	%
[Ref.: #116835]	NaCl		growth	2-10	%
[Ref.: #116835]	NaCl	no	growth	0	%

[Ref.: #29994]

Observation

aggregates in clumps

	Metabolite	Utilization activity	Kind of utilization tested
[Ref.: #116835]	citrate ChEBI	+	carbon source
[Ref.: #116835]	esculin ChEBI	-	hydrolysis
[Ref.: #116835]	hippurate ChEBI	+	hydrolysis
[Ref.: #116835]	malonate ChEBI	+	assimilation
[Ref.: #29994]	nitrate ChEBI	+	reduction
[Ref.: #116835]	nitrate ChEBI	+	reduction
[Ref.: #116835]	nitrite ChEBI	-	reduction

	Metabolite production	Metabolite	Production
[Ref.: #116835]		indole ChEBI	no

	Enzyme	Enzyme activity	EC number
[Ref.: #68382]	acid phosphatase	+	3.1.3.2	* from API zym
[Ref.: #116835]	alcohol dehydrogenase	-	1.1.1.1
[Ref.: #68382]	alkaline phosphatase	+	3.1.3.1	* from API zym
[Ref.: #68382]	alpha-chymotrypsin	-	3.4.21.1	* from API zym
[Ref.: #68382]	alpha-fucosidase	-	3.2.1.51	* from API zym
[Ref.: #68382]	alpha-galactosidase	-	3.2.1.22	* from API zym
[Ref.: #68382]	alpha-glucosidase	+	3.2.1.20	* from API zym
[Ref.: #68382]	alpha-mannosidase	-	3.2.1.24	* from API zym
[Ref.: #116835]	amylase	-
[Ref.: #116835]	beta-galactosidase	-	3.2.1.23
[Ref.: #68382]	beta-galactosidase	-	3.2.1.23	* from API zym
[Ref.: #68382]	beta-glucosidase	-	3.2.1.21	* from API zym
[Ref.: #68382]	beta-glucuronidase	-	3.2.1.31	* from API zym
[Ref.: #116835]	caseinase	-	3.4.21.50
[Ref.: #116835]	catalase	+	1.11.1.6
[Ref.: #68382]	cystine arylamidase	-	3.4.11.3	* from API zym
[Ref.: #68382]	esterase (C 4)	+		* from API zym
[Ref.: #68382]	esterase lipase (C 8)	-		* from API zym
[Ref.: #116835]	gamma-glutamyltransferase	+	2.3.2.2
[Ref.: #116835]	gelatinase	-
[Ref.: #116835]	lecithinase	-
[Ref.: #68382]	leucine arylamidase	+	3.4.11.1	* from API zym
[Ref.: #116835]	lipase	-
[Ref.: #68382]	lipase (C 14)	-		* from API zym
[Ref.: #116835]	lysine decarboxylase	-	4.1.1.18
[Ref.: #68382]	N-acetyl-beta-glucosaminidase	-	3.2.1.52	* from API zym
[Ref.: #68382]	naphthol-AS-BI-phosphohydrolase	+		* from API zym
[Ref.: #116835]	ornithine decarboxylase	-	4.1.1.17
[Ref.: #116835]	oxidase	+
[Ref.: #116835]	phenylalanine ammonia-lyase	+	4.3.1.24
[Ref.: #68382]	trypsin	-	3.4.21.4	* from API zym
[Ref.: #116835]	tryptophan deaminase	-
[Ref.: #116835]	tween esterase	-
[Ref.: #116835]	urease	+	3.5.1.5
[Ref.: #68382]	valine arylamidase	-		* from API zym
	Only first 10 entries are displayed. Click here to see all.

API® zym:

Note that the displayed test results represent raw data and therefore may deviate!

	API ID	Control	2-naphthyl phosphateAlkaline phosphatase	2-naphthyl butyrateEsterase (C 4)	2-naphtyl caprylateEsterase Lipase (C 8)	2-naphthyl myristateLipase (C 14)	L-leucyl-2-naphthylamideLeucine arylamidase	L-valyl-2-naphthylamideValine arylamidase	L-cystyl-2-naphthylamideCystine arylamidase	N-benzoyl-DL-arginine-2-naphthylamideTrypsin	N-glutaryl-phenylalanine-2-naphthylamidealpha- Chymotrypsin	2-naphthyl phosphateAcid phosphatase	Naphthol-AS-BI-phosphateNaphthol-AS-BI-phosphohydrolase	6-Br-2-naphthyl-alphaD-galactpyranosidealpha- Galactosidase	2-naphthyl-betaD-galactpyranosidebeta- Galactosidase	Naphthol-AS-BI-betaD-glucuronidebeta- Glucuronidase	2-naphthyl-alphaD-glucopyranosidealpha- Glucosidase	6-Br-2-naphthyl-betaD-glucopyranosidebeta- Glucosidase	1-naphthyl-N-acetyl-betaD-glucosaminideN-acetyl-beta- glucosaminidase	6-Br-2-naphthyl-alphaD-mannopyranosidealpha- Mannosidase	2-naphthyl-alphaL-fucopyranosidealpha- Fucosidase
[Ref.: #116835]	11176	-	+	+	-	-	+	-	-	-	-	+	+	-	-	-	+	-	-	-	-

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

[Ref.: #5974]	Sample type/isolated from	saline soils
[Ref.: #5974]	Geographic location (country and/or sea, region)	Potosi, near lake Laguna Colorada
[Ref.: #5974]	Country	Bolivia
[Ref.: #5974]	Country ISO 3 Code	BOL
[Ref.: #5974]	Continent	Middle and South America

[Ref.: #116835]	Sample type/isolated from	Environment, Saline soils
[Ref.: #116835]	Country	Bolivia
[Ref.: #116835]	Country ISO 3 Code	BOL
[Ref.: #116835]	Continent	Middle and South America
* marker position based on {}

Isolation sources categories

#Environmental	#Terrestrial	#Soil
#Condition	#Saline	-

What are isolation sources categories?

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

[Ref.: #5974]	Biosafety level	1	Risk group (German classification) According to TRBA 466
[Ref.: #116835]	Biosafety level	1	Risk group (French classification)

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.: #5974]	Halomonas boliviensis strain LC1 16S ribosomal RNA gene, partial sequence	AY245449	1441	ENA	1072583 tax ID

Genome sequence information:

Only first 5 entries are displayed. Click here to see all.

	Sequence accession description	Seq. accession number	Assembly level	Sequence database	Associated NCBI tax ID
[Ref.: #66792]	Halomonas boliviensis LC1	GCA_000236035	scaffold	GenBank	1072583 tax ID	*
[Ref.: #66792]	Halomonas boliviensis LC1	GCA_002265845	contig	GenBank	1072583 tax ID	*
[Ref.: #66792]	Halomonas boliviensis LC1	1072583.4	wgs	PATRIC	1072583 tax ID	*
[Ref.: #66792]	Halomonas boliviensis LC1	1072583.17	wgs	PATRIC	1072583 tax ID	*
[Ref.: #66792]	Halomonas boliviensis LC1	2856158536	draft	JGI IMG/M	1072583 tax ID	*
[Ref.: #66792]	Halomonas boliviensis LC1	2548876524	draft	JGI IMG/M	1072583 tax ID	*

[Ref.: #5974]

GC-content

51.4 mol%

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

	Trait	Prediction	Confidence in %	In training data
	Predictions from Diaspora project based on: Halomonas boliviensis LC1 LC1 NCBI: GCA_000236035.1
[Ref.: #69480]	motile	yes	91.514	yes
[Ref.: #69480]	flagellated	yes	72.385	no
[Ref.: #69480]	gram-positive	no	98.8	yes
[Ref.: #69480]	anaerobic	no	96.87	yes
[Ref.: #69480]	aerobic	yes	88.231	yes
[Ref.: #69480]	halophile	yes	92.648	no
[Ref.: #69480]	spore-forming	no	95.512	no
[Ref.: #69480]	thermophile	no	99.665	yes
[Ref.: #69480]	glucose-util	yes	93.734	no
[Ref.: #69480]	glucose-ferment	no	74.156	no

Availability in culture collections External links

[Ref.: #5974]

Culture collection no.

DSM 15516, ATCC BAA-759, CIP 108425

[Ref.: #75523]

SI-ID 132016

Literature:

Topic	Title	Authors	Journal	DOI	Year
Metabolism	Genomic studies on nitrogen metabolism in Halomonas boliviensis: metabolic pathway, biochemistry and evolution.	Balderrama-Subieta A, Quillaguaman J	Comput Biol Chem	10.1016/j.compbiolchem.2013.08.002	2013	*
Pathogenicity	High productivity of ectoines by Halomonas boliviensis using a combined two-step fed-batch culture and milking process.	Van-Thuoc D, Guzman H, Quillaguaman J, Hatti-Kaul R	J Biotechnol	10.1016/j.jbiotec.2010.03.003	2010	*
Phylogeny	Halomonas titanicae sp. nov., a halophilic bacterium isolated from the RMS Titanic.	Sanchez-Porro C, Kaur B, Mann H, Ventosa A	Int J Syst Evol Microbiol	10.1099/ijs.0.020628-0	2010	*
Metabolism	Bioconversion of tyrosol into hydroxytyrosol and 3,4-dihydroxyphenylacetic acid under hypersaline conditions by the new Halomonas sp. strain HTB24.	Liebgott PP, Labat M, Casalot L, Amouric A, Lorquin J	FEMS Microbiol Lett	10.1111/j.1574-6968.2007.00896.x	2007	*
Phylogeny	Halomonas boliviensis sp. nov., an alkalitolerant, moderate halophile isolated from soil around a Bolivian hypersaline lake.	Quillaguaman J, Hatti-Kaul R, Mattiasson B, Alvarez MT, Delgado O	Int J Syst Evol Microbiol	10.1099/ijs.0.02800-0	2004	*

References

#5974

Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH ; Curators of the DSMZ; DSM 15516

#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 )

#29994

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 #26360 (see below)

#38178 ; 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) .

#68382

Automatically annotated from API zym .

#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) .

#75523

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-ID132016.1 )

#116835 Collection of Institut Pasteur ; Curators of the CIP; CIP 108425

#26360

IJSEM 721 2004 ( DOI 10.1099/ijs.0.02800-0 , PubMed 15143014 )

* These data were automatically processed and therefore are not curated

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