Strain identifier

BacDive ID: 6000

Type strain: Yes

Species: Chromohalobacter sarecensis

Strain Designation: LV4

Strain history: CIP <- 2004, CCUG <- 2003, J. Quillaguaman, Lund Univ., Lund, Sweden: strain LV4

NCBI tax ID(s): 245294 (species)

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General

@ref: 5993

BacDive-ID: 6000

DSM-Number: 15547

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative, motile, rod-shaped

description: Chromohalobacter sarecensis LV4 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from saline soils.

NCBI tax id

  • NCBI tax id: 245294
  • Matching level: species

strain history

@refhistory
5993<- J. Quillaguamán; LV4
122490CIP <- 2004, CCUG <- 2003, J. Quillaguaman, Lund Univ., Lund, Sweden: strain LV4

doi: 10.13145/bacdive6000.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Oceanospirillales
  • family: Halomonadaceae
  • genus: Chromohalobacter
  • species: Chromohalobacter sarecensis
  • full scientific name: Chromohalobacter sarecensis Quillaguamán et al. 2004

@ref: 5993

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Oceanospirillales

family: Halomonadaceae

genus: Chromohalobacter

species: Chromohalobacter sarecensis

full scientific name: Chromohalobacter sarecensis Quillaguamán et al. 2004

strain designation: LV4

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotility
31261negative3.85 µm0.65 µmrod-shapedyes
122490negativerod-shapedno

colony morphology

  • @ref: 57941
  • incubation period: 4 days

pigmentation

  • @ref: 31261
  • production: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5993BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514; with strain-specific modifications) Composition: NaCl 60.0 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
40129Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
122490CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
5993positivegrowth30mesophilic
31261positivegrowth0-45
31261positiveoptimum32.5mesophilic
40129positivegrowth30mesophilic
57941positivegrowth30mesophilic
122490positivegrowth5-30
122490nogrowth37mesophilic
122490nogrowth41thermophilic
122490nogrowth45thermophilic

culture pH

@refabilitytypepHPH range
31261positivegrowth05-10alkaliphile
31261positiveoptimum7.75

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31261aerobe
57941aerobe

halophily

@refsaltgrowthtested relationconcentration
31261NaClpositivegrowth0-25 %
31261NaClpositiveoptimum8 %
122490NaClpositivegrowth4-10 %
122490NaClnogrowth0 %
122490NaClnogrowth2 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3126121217L-alaninamide+carbon source
3126122653asparagine+carbon source
3126127570histidine+carbon source
3126117716lactose+carbon source
3126133942ribose+carbon source
3126127082trehalose+carbon source
3126117151xylitol+carbon source
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837127082trehalose-builds acid from
6837117992sucrose-builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose-builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
683714853esculin-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose-builds acid from
6837115824D-fructose-builds acid from
6837117634D-glucose-builds acid from
6837112936D-galactose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from
6836817632nitrate-reduction
6836828053melibiose-fermentation
6836817992sucrose-fermentation
6836862345L-rhamnose-fermentation
6836830911sorbitol-fermentation
6836817268myo-inositol-fermentation
6836817634D-glucose-fermentation
683685291gelatin-hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate-assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis
12249017108D-arabinose-degradation
12249015824D-fructose-degradation
12249017634D-glucose-degradation
12249016024D-mannose-degradation
12249065327D-xylose-degradation
12249017057cellobiose-degradation
12249017716lactose-degradation
12249017306maltose-degradation
12249017814salicin-degradation
12249017992sucrose-degradation
12249016947citrate-carbon source
1224904853esculin-hydrolysis
122490606565hippurate-hydrolysis
12249017632nitrate-reduction
12249016301nitrite-reduction
12249015792malonate-assimilation
12249017632nitrate-respiration

metabolite production

@refChebi-IDmetaboliteproduction
6836817997dinitrogenno
6836816301nitriteno
6836815688acetoinno
6836835581indoleno
6836816136hydrogen sulfideno
12249035581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin-
6836835581indole-

enzymes

@refvalueactivityec
31261catalase+1.11.1.6
31261cytochrome oxidase+1.9.3.1
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase-
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin-3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)+
68382alkaline phosphatase+3.1.3.1
68368gelatinase-
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase-3.2.1.23
122490oxidase-
122490beta-galactosidase+3.2.1.23
122490alcohol dehydrogenase-1.1.1.1
122490gelatinase-
122490amylase-
122490caseinase-3.4.21.50
122490catalase+1.11.1.6
122490tween esterase-
122490gamma-glutamyltransferase+2.3.2.2
122490lecithinase-
122490lipase-
122490lysine decarboxylase-4.1.1.18
122490ornithine decarboxylase-4.1.1.17
122490phenylalanine ammonia-lyase-4.3.1.24
122490tryptophan deaminase-
122490urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
122490-+++-++---+---------

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUINOSorRHASACMELNO2N2
122490-------------------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122490-------------------------------------------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122490---------------------------------------------------------------------------------------------------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
5993saline soilsclose to the lake Laguna verdeBoliviaBOLMiddle and South America
57941Saline soilAndean RegionBoliviaBOLMiddle and South America
122490Environment, Saline soilAndeanBoliviaBOLMiddle and South America

isolation source categories

Cat1Cat2Cat3
#Environmental#Terrestrial#Soil
#Condition#Saline

taxonmaps

  • @ref: 69479
  • File name: preview.99_82139.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_48;96_1010;97_1176;98_1406;99_82139&stattab=map
  • Last taxonomy: Chromohalobacter
  • 16S sequence: AY373448
  • Sequence Identity:
  • Total samples: 18
  • soil counts: 1
  • aquatic counts: 7
  • animal counts: 8
  • plant counts: 2

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
59931Risk group (German classification)
1224901Risk group (French classification)

Sequence information

16S sequences

  • @ref: 5993
  • description: Chromohalobacter sarecensis strain LV4 16S ribosomal RNA gene, partial sequence
  • accession: AY373448
  • length: 1448
  • database: ena
  • NCBI tax ID: 245294

Genome sequences

  • @ref: 66792
  • description: Chromohalobacter sarecensis DSM 15547
  • accession: GCA_023061135
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 245294

GC content

  • @ref: 31261
  • GC-content: 56.1

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedno56.302no
gram-positiveno98.522yes
anaerobicno99.039no
aerobicyes92.496yes
halophileyes95.257no
spore-formingno97.048no
motileyes92.761no
glucose-fermentno52.497no
glucose-utilyes94.719no
thermophileno98.713no

External links

@ref: 5993

culture collection no.: DSM 15547, ATCC BAA 761, CCUG 47987, CIP 108589

straininfo link

  • @ref: 75489
  • straininfo: 126423

literature

  • topic: Phylogeny
  • Pubmed-ID: 15545411
  • title: Chromohalobacter sarecensis sp. nov., a psychrotolerant moderate halophile isolated from the saline Andean region of Bolivia.
  • authors: Quillaguaman J, Delgado O, Mattiasson B, Hatti-Kaul R
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.63153-0
  • year: 2004
  • mesh: Amino Acid Oxidoreductases/analysis, Bacterial Typing Techniques, Base Composition, Bolivia, Carbohydrate Metabolism, Catalase/analysis, DNA, Bacterial/chemistry/isolation & purification, DNA, Ribosomal/chemistry/isolation & purification, Genes, rRNA, Gentian Violet, Halomonadaceae/*classification/cytology/genetics/*isolation & purification/metabolism/physiology, Hydrogen Sulfide/metabolism, Hydrogen-Ion Concentration, Indoles/metabolism, L-Amino Acid Oxidase, Molecular Sequence Data, Movement, Nucleic Acid Hybridization, Oxidoreductases/analysis, Phenazines, Phylogeny, Pseudomonas/genetics, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Saline Solution, Hypertonic, Sequence Analysis, DNA, *Soil Microbiology, Temperature
  • topic2: Enzymology

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
5993Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15547)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15547
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.10.1099/ijsem.0.004332List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ
31261Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2758228776041
40129Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/6234
57941Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 47987)https://www.ccug.se/strain?id=47987
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
68368Automatically annotated from API 20E
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
69479João 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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
75489Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID126423.1StrainInfo: A central database for resolving microbial strain identifiers
122490Curators of the CIPCollection of Institut Pasteur (CIP 108589)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108589