Strain identifier
BacDive ID: 134236
Type strain:
Species: Altererythrobacter epoxidivorans
Strain Designation: JCS350T
Strain history: K. K. Kwon JCS350.
NCBI tax ID(s): 361183 (species)
General
@ref: 32040
BacDive-ID: 134236
keywords: genome sequence, 16S sequence, Bacteria, aerobe, Gram-negative, rod-shaped
description: Altererythrobacter epoxidivorans JCS350T is an aerobe, Gram-negative, rod-shaped bacterium that was isolated from marine sediment.
NCBI tax id
- NCBI tax id: 361183
- Matching level: species
strain history
- @ref: 67770
- history: K. K. Kwon JCS350.
doi: 10.13145/bacdive134236.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Sphingomonadales
- family: Erythrobacteraceae
- genus: Altererythrobacter
- species: Altererythrobacter epoxidivorans
- full scientific name: Altererythrobacter epoxidivorans Kwon et al. 2007
@ref: 32040
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Sphingomonadales
family: Erythrobacteraceae
genus: Altererythrobacter
species: Altererythrobacter epoxidivorans
strain designation: JCS350T
type strain: yes
Morphology
cell morphology
@ref | gram stain | cell length | cell width | cell shape | motility | confidence |
---|---|---|---|---|---|---|
32040 | negative | 0.605 µm | 0.5 µm | rod-shaped | no | |
69480 | negative | 99.986 |
pigmentation
- @ref: 32040
- production: yes
Culture and growth conditions
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
32040 | positive | growth | 20-40 | |
32040 | positive | optimum | 35 | mesophilic |
67770 | positive | growth | 35 | mesophilic |
culture pH
@ref | ability | type | pH | PH range |
---|---|---|---|---|
32040 | positive | growth | 6-8.5 | alkaliphile |
32040 | positive | optimum | 6.5 |
Physiology and metabolism
oxygen tolerance
- @ref: 32040
- oxygen tolerance: aerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.995 |
halophily
@ref | salt | growth | tested relation | concentration |
---|---|---|---|---|
32040 | NaCl | positive | growth | 0.5-9 % |
32040 | NaCl | positive | optimum | 2 % |
metabolite utilization
@ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
---|---|---|---|---|
32040 | 17128 | adipate | + | carbon source |
32040 | 29987 | glutamate | + | carbon source |
32040 | 17306 | maltose | + | carbon source |
32040 | 29864 | mannitol | + | carbon source |
32040 | 506227 | N-acetylglucosamine | + | carbon source |
32040 | 26271 | proline | + | carbon source |
32040 | 17822 | serine | + | carbon source |
32040 | 27082 | trehalose | + | carbon source |
32040 | 53423 | tween 40 | + | carbon source |
32040 | 53426 | tween 80 | + | carbon source |
enzymes
@ref | value | activity | ec |
---|---|---|---|
32040 | alkaline phosphatase | + | 3.1.3.1 |
32040 | catalase | + | 1.11.1.6 |
32040 | cytochrome oxidase | + | 1.9.3.1 |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent |
---|---|---|---|---|
32040 | marine sediment | |||
67770 | Cold-seep sediments of Kagoshima Bay | Japan | JPN | Asia |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Environmental | #Aquatic | #Marine |
#Environmental | #Aquatic | #Sediment |
taxonmaps
- @ref: 69479
- File name: preview.99_3176.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_20;96_1655;97_1981;98_2436;99_3176&stattab=map
- Last taxonomy: Altererythrobacter epoxidivorans subclade
- 16S sequence: DQ304436
- Sequence Identity:
- Total samples: 781
- soil counts: 197
- aquatic counts: 396
- animal counts: 183
- plant counts: 5
Sequence information
16S sequences
- @ref: 32040
- description: Altererythrobacter epoxidivorans strain JCS350 16S ribosomal RNA gene, partial sequence
- accession: DQ304436
- length: 1444
- database: nuccore
- NCBI tax ID: 361183
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Altererythrobacter epoxidivorans CGMCC 1.7731 | GCA_001281485 | complete | ncbi | 361183 |
66792 | Altererythrobacter epoxidivorans strain CGMCC 1.7731 | 361183.4 | complete | patric | 361183 |
66792 | Altererythrobacter epoxidivorans CGMCC 1.7731 | 2648501698 | complete | img | 361183 |
GC content
@ref | GC-content | method |
---|---|---|
32040 | 54.5 | |
67770 | 54.5 | high performance liquid chromatography (HPLC) |
67770 | 61.5 | genome sequence analysis |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 84.958 | no |
flagellated | no | 96.602 | yes |
gram-positive | no | 97.406 | yes |
anaerobic | no | 99.194 | yes |
halophile | no | 87.957 | no |
spore-forming | no | 95.074 | no |
glucose-util | yes | 85.035 | no |
aerobic | yes | 92.244 | no |
glucose-ferment | no | 90.6 | no |
thermophile | no | 95.301 | yes |
External links
@ref: 32040
culture collection no.: KCCM 42314, JCM 13815, CGMCC 1.7731
straininfo link
- @ref: 91830
- straininfo: 310987
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 17911284 | Altererythrobacter epoxidivorans gen. nov., sp. nov., an epoxide hydrolase-active, mesophilic marine bacterium isolated from cold-seep sediment, and reclassification of Erythrobacter luteolus Yoon et al. 2005 as Altererythrobacter luteolus comb. nov. | Kwon KK, Woo JH, Yang SH, Kang JH, Kang SG, Kim SJ, Sato T, Kato C | Int J Syst Evol Microbiol | 10.1099/ijs.0.64863-0 | 2007 | Alphaproteobacteria/*classification/enzymology/genetics/*isolation & purification, Bacteriochlorophyll A/analysis, Base Composition, Calcium Chloride/metabolism, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Epoxide Hydrolases/*metabolism, Fatty Acids/analysis, Genes, rRNA, Geologic Sediments/*microbiology, Hydrogen-Ion Concentration, Magnesium Chloride/metabolism, Molecular Sequence Data, Phylogeny, Quinones/analysis, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sequence Homology, Nucleic Acid, Sodium Chloride/metabolism, Temperature | Metabolism |
Phylogeny | 19651736 | Altererythrobacter marensis sp. nov., isolated from seawater. | Seo SH, Lee SD | Int J Syst Evol Microbiol | 10.1099/ijs.0.011031-0 | 2009 | Alphaproteobacteria/*classification/genetics/physiology, Base Composition, DNA, Bacterial/chemistry, Molecular Sequence Data, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Seawater/*microbiology, Sequence Homology, Nucleic Acid, *Water Microbiology | Genetics |
Genetics | 26655255 | Complete genome sequence of a benzo[a]pyrene-degrading bacterium Altererythrobacter epoxidivorans CGMCC 1.7731(T). | Li ZY, Wu YH, Huo YY, Cheng H, Wang CS, Xu XW | Mar Genomics | 10.1016/j.margen.2015.11.009 | 2015 | Benzo(a)pyrene/*metabolism, Chromosome Mapping, Chromosomes, Bacterial, *Genome, Bacterial, Gram-Negative Bacteria/genetics/*metabolism | Metabolism |
Enzymology | 29099313 | Characterization of a novel alkaline esterase from Altererythrobacter epoxidivorans CGMCC 1.7731(T). | Rong Z, Huo YY, Jian SL, Wu YH, Xu XW | Prep Biochem Biotechnol | 10.1080/10826068.2017.1387559 | 2018 | Alphaproteobacteria/*enzymology/*genetics/metabolism, Chromatography, Affinity/methods, Enzyme Stability, Esterases/*genetics/isolation & purification/metabolism, Genes, Bacterial, Hydrogen-Ion Concentration, Metals/metabolism, Phylogeny, Substrate Specificity, Temperature | Metabolism |
Reference
@id | authors | title | doi/url | ID_cross_reference | pubmed | journal |
---|---|---|---|---|---|---|
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 | 10.1099/ijsem.0.004332 | |||
32040 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 28290 | 28776041 | |
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) | https://diaspora-project.de/progress.html#genomes | |||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | 33211880 | Nucleic Acids Res. 49: D498-D508 2020 | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
69479 | João 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. | MicrobeAtlas 1.0 beta | https://microbeatlas.org/ | |||
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) | https://diaspora-project.de/progress.html#genomes | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |||
91830 | 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 | 10.60712/SI-ID310987.1 |