Strain identifier
BacDive ID: 6001
Type strain:
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)
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
@ref | growth | type | temperature | range |
---|---|---|---|---|
5308 | positive | growth | 30 | mesophilic |
31659 | positive | growth | 15-40 | |
31659 | positive | optimum | 32 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
31659 | positive | growth | 05-10 | alkaliphile |
31659 | positive | optimum | 7 |
Physiology and metabolism
oxygen tolerance
- @ref: 31659
- oxygen tolerance: aerobe
spore formation
- @ref: 31659
- spore formation: no
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
31659 | NaCl | positive | growth | 0.5-25 % |
31659 | NaCl | positive | optimum | 7.5 % |
observation
- @ref: 31659
- observation: aggregates in chains
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
31659 | 30089 | acetate | + | carbon source |
31659 | 22599 | arabinose | + | carbon source |
31659 | 28757 | fructose | + | carbon source |
31659 | 28260 | galactose | + | carbon source |
31659 | 24265 | gluconate | + | carbon source |
31659 | 17234 | glucose | + | carbon source |
31659 | 17754 | glycerol | + | carbon source |
31659 | 24996 | lactate | + | carbon source |
31659 | 25115 | malate | + | carbon source |
31659 | 17306 | maltose | + | carbon source |
31659 | 29864 | mannitol | + | carbon source |
31659 | 37684 | mannose | + | carbon source |
31659 | 15361 | pyruvate | + | carbon source |
31659 | 30031 | succinate | + | carbon source |
31659 | 17992 | sucrose | + | carbon source |
31659 | 27082 | trehalose | + | carbon source |
31659 | 18222 | xylose | + | carbon source |
metabolite production
- @ref: 31659
- Chebi-ID: 16136
- metabolite: hydrogen sulfide
- production: yes
enzymes
@ref | value | activity | ec |
---|---|---|---|
31659 | catalase | + | 1.11.1.6 |
31659 | urease | + | 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
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
trait | prediction | confidence | training_data |
---|---|---|---|
flagellated | yes | 56.194 | no |
gram-positive | no | 98.488 | no |
anaerobic | no | 99.008 | yes |
aerobic | yes | 93.155 | yes |
halophile | yes | 95.864 | yes |
spore-forming | no | 96.109 | yes |
motile | yes | 93.42 | yes |
glucose-ferment | no | 51.301 | no |
thermophile | no | 99.228 | yes |
glucose-util | yes | 93.202 | no |
External links
@ref: 5308
culture collection no.: DSM 14323, CECT 5315
straininfo link
- @ref: 75490
- straininfo: 194234
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 16514043 | Chromohalobacter 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 M | Int J Syst Evol Microbiol | 10.1099/ijs.0.63983-0 | 2006 | Chile, DNA, Ribosomal/chemistry, Fresh Water/*microbiology, Halomonadaceae/*classification/genetics/isolation & purification/physiology, Phenotype, Phylogeny, RNA, Ribosomal, 16S/genetics | Phenotype |
Phylogeny | 17911293 | Chromohalobacter japonicus sp. nov., a moderately halophilic bacterium isolated from a Japanese salty food. | Sanchez-Porro C, Tokunaga H, Tokunaga M, Ventosa A | Int J Syst Evol Microbiol | 10.1099/ijs.0.65212-0 | 2007 | Bacterial 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, Temperature | Biotechnology |
Reference
@id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
---|---|---|---|---|---|---|
5308 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 14323) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-14323 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
31659 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 27940 | 28776041 | |
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
75490 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID194234.1 | StrainInfo: A central database for resolving microbial strain identifiers |