Strain identifier

BacDive ID: 134236

Type strain: Yes

Species: Altererythrobacter epoxidivorans

Strain Designation: JCS350T

Strain history: K. K. Kwon JCS350.

NCBI tax ID(s): 361183 (species)

For citation purpose refer to the digital object identifier (doi) of the current version.
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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

@refgram staincell lengthcell widthcell shapemotilityconfidence
32040negative0.605 µm0.5 µmrod-shapedno
69480negative99.986

pigmentation

  • @ref: 32040
  • production: yes

Culture and growth conditions

culture temp

@refgrowthtypetemperaturerange
32040positivegrowth20-40
32040positiveoptimum35mesophilic
67770positivegrowth35mesophilic

culture pH

@refabilitytypepHPH range
32040positivegrowth6-8.5alkaliphile
32040positiveoptimum6.5

Physiology and metabolism

oxygen tolerance

  • @ref: 32040
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.995

halophily

@refsaltgrowthtested relationconcentration
32040NaClpositivegrowth0.5-9 %
32040NaClpositiveoptimum2 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3204017128adipate+carbon source
3204029987glutamate+carbon source
3204017306maltose+carbon source
3204029864mannitol+carbon source
32040506227N-acetylglucosamine+carbon source
3204026271proline+carbon source
3204017822serine+carbon source
3204027082trehalose+carbon source
3204053423tween 40+carbon source
3204053426tween 80+carbon source

enzymes

@refvalueactivityec
32040alkaline phosphatase+3.1.3.1
32040catalase+1.11.1.6
32040cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
32040marine sediment
67770Cold-seep sediments of Kagoshima BayJapanJPNAsia

isolation source categories

Cat1Cat2Cat3
#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

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Altererythrobacter epoxidivorans CGMCC 1.7731GCA_001281485completencbi361183
66792Altererythrobacter epoxidivorans strain CGMCC 1.7731361183.4completepatric361183
66792Altererythrobacter epoxidivorans CGMCC 1.77312648501698completeimg361183

GC content

@refGC-contentmethod
3204054.5
6777054.5high performance liquid chromatography (HPLC)
6777061.5genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno84.958no
flagellatedno96.602yes
gram-positiveno97.406yes
anaerobicno99.194yes
halophileno87.957no
spore-formingno95.074no
glucose-utilyes85.035no
aerobicyes92.244no
glucose-fermentno90.6no
thermophileno95.301yes

External links

@ref: 32040

culture collection no.: KCCM 42314, JCM 13815, CGMCC 1.7731

straininfo link

  • @ref: 91830
  • straininfo: 310987

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny17911284Altererythrobacter 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 CInt J Syst Evol Microbiol10.1099/ijs.0.64863-02007Alphaproteobacteria/*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, TemperatureMetabolism
Phylogeny19651736Altererythrobacter marensis sp. nov., isolated from seawater.Seo SH, Lee SDInt J Syst Evol Microbiol10.1099/ijs.0.011031-02009Alphaproteobacteria/*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 MicrobiologyGenetics
Genetics26655255Complete 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 XWMar Genomics10.1016/j.margen.2015.11.0092015Benzo(a)pyrene/*metabolism, Chromosome Mapping, Chromosomes, Bacterial, *Genome, Bacterial, Gram-Negative Bacteria/genetics/*metabolismMetabolism
Enzymology29099313Characterization of a novel alkaline esterase from Altererythrobacter epoxidivorans CGMCC 1.7731(T).Rong Z, Huo YY, Jian SL, Wu YH, Xu XWPrep Biochem Biotechnol10.1080/10826068.2017.13875592018Alphaproteobacteria/*enzymology/*genetics/metabolism, Chromatography, Affinity/methods, Enzyme Stability, Esterases/*genetics/isolation & purification/metabolism, Genes, Bacterial, Hydrogen-Ion Concentration, Metals/metabolism, Phylogeny, Substrate Specificity, TemperatureMetabolism

Reference

@idauthorstitledoi/urlID_cross_referencepubmedjournal
20215Parte, 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 DSMZ10.1099/ijsem.0.004332
32040Barberan A, Caceres Velazquez H, Jones S, Fierer N.Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information10.1128/mSphere.00237-172829028776041
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa102533211880Nucleic Acids Res. 49: D498-D508 2020
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions 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
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
91830Reimer, 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 identifiers10.60712/SI-ID310987.1