Strain identifier

BacDive ID: 6001

Type strain: Yes

Species: Chromohalobacter nigrandesensis

Strain Designation: 4N, LTS-4N

Strain history: <- CECT <- B. Prado and et al., Depart. Microbiol., Facultad de Farmacia, Campus Univ. de Cartuja s/n, Spain

NCBI tax ID(s): 119863 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 5308

BacDive-ID: 6001

DSM-Number: 14323

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

description: Chromohalobacter nigrandesensis 4N is an aerobe, mesophilic, Gram-negative bacterium that was isolated from hypersaline Lake Tebenquiche.

NCBI tax id

  • NCBI tax id: 119863
  • Matching level: species

strain history

  • @ref: 5308
  • history: <- CECT <- B. Prado and et al., Depart. Microbiol., Facultad de Farmacia, Campus Univ. de Cartuja s/n, Spain

doi: 10.13145/bacdive6001.20230509.8.1

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 nigrandesensis
  • full scientific name: Chromohalobacter nigrandesensis Prado et al. 2006

@ref: 5308

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Oceanospirillales

family: Halomonadaceae

genus: Chromohalobacter

species: Chromohalobacter nigrandesensis

full scientific name: Chromohalobacter nigrandesensis Prado et al. 2006

strain designation: 4N, LTS-4N

type strain: yes

Morphology

cell morphology

  • @ref: 31659
  • gram stain: negative
  • cell length: 2.3-4.2 µm
  • cell width: 0.35-0.5 µm
  • cell shape: rod-shaped
  • motility: yes

pigmentation

  • @ref: 31659
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 5308
  • name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/514
  • composition: Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514; with strain-specific modifications) Composition: NaCl 40.0 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

culture temp

@refgrowthtypetemperaturerange
5308positivegrowth30mesophilic
31659positivegrowth15-40
31659positiveoptimum32mesophilic

culture pH

@refabilitytypepHPH range
31659positivegrowth05-10alkaliphile
31659positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 31659
  • oxygen tolerance: aerobe

spore formation

  • @ref: 31659
  • spore formation: no

halophily

@refsaltgrowthtested relationconcentration
31659NaClpositivegrowth0.5-25 %
31659NaClpositiveoptimum7.5 %

observation

  • @ref: 31659
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3165930089acetate+carbon source
3165922599arabinose+carbon source
3165928757fructose+carbon source
3165928260galactose+carbon source
3165924265gluconate+carbon source
3165917234glucose+carbon source
3165917754glycerol+carbon source
3165924996lactate+carbon source
3165925115malate+carbon source
3165917306maltose+carbon source
3165929864mannitol+carbon source
3165937684mannose+carbon source
3165915361pyruvate+carbon source
3165930031succinate+carbon source
3165917992sucrose+carbon source
3165927082trehalose+carbon source
3165918222xylose+carbon source

metabolite production

  • @ref: 31659
  • Chebi-ID: 16136
  • metabolite: hydrogen sulfide
  • production: yes

enzymes

@refvalueactivityec
31659catalase+1.11.1.6
31659urease+3.5.1.5

Isolation, sampling and environmental information

isolation

  • @ref: 5308
  • sample type: hypersaline Lake Tebenquiche
  • geographic location: Atacama Saltern
  • country: Chile
  • origin.country: CHL
  • continent: Middle and South America

isolation source categories

Cat1Cat2Cat3
#Environmental#Aquatic#Lake (large)
#Condition#Saline

Safety information

risk assessment

  • @ref: 5308
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 5308
  • description: Chromohalobacter nigrandesensis partial 16S rRNA gene, type strain LTS-4NT
  • accession: AJ277205
  • length: 1505
  • database: ena
  • NCBI tax ID: 119863

Genome sequences

  • @ref: 66792
  • description: Chromohalobacter nigrandesensis DSM 14323
  • accession: GCA_023061285
  • assembly level: contig
  • database: ncbi
  • NCBI tax ID: 119863

GC content

  • @ref: 5308
  • GC-content: 59.8

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
flagellatedyes56.194no
gram-positiveno98.488no
anaerobicno99.008yes
aerobicyes93.155yes
halophileyes95.864yes
spore-formingno96.109yes
motileyes93.42yes
glucose-fermentno51.301no
thermophileno99.228yes
glucose-utilyes93.202no

External links

@ref: 5308

culture collection no.: DSM 14323, CECT 5315

straininfo link

  • @ref: 75490
  • straininfo: 194234

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny16514043Chromohalobacter nigrandesensis sp. nov., a moderately halophilic, Gram-negative bacterium isolated from Lake Tebenquiche on the Atacama Saltern, Chile.Prado B, Lizama C, Aguilera M, Ramos-Cormenzana A, Fuentes S, Campos V, Monteoliva-Sanchez MInt J Syst Evol Microbiol10.1099/ijs.0.63983-02006Chile, DNA, Ribosomal/chemistry, Fresh Water/*microbiology, Halomonadaceae/*classification/genetics/isolation & purification/physiology, Phenotype, Phylogeny, RNA, Ribosomal, 16S/geneticsPhenotype
Phylogeny17911293Chromohalobacter japonicus sp. nov., a moderately halophilic bacterium isolated from a Japanese salty food.Sanchez-Porro C, Tokunaga H, Tokunaga M, Ventosa AInt J Syst Evol Microbiol10.1099/ijs.0.65212-02007Bacterial Typing Techniques, Base Composition, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, *Food Microbiology, Genes, rRNA, Halomonadaceae/chemistry/*classification/*isolation & purification/physiology, Hydrogen-Ion Concentration, Japan, Locomotion/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride/metabolism, TemperatureBiotechnology

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
5308Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14323)https://www.dsmz.de/collection/catalogue/details/culture/DSM-14323
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
31659Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2794028776041
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)
75490Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID194234.1StrainInfo: A central database for resolving microbial strain identifiers