Strain identifier

BacDive ID: 23279

Type strain: Yes

Species: Sphingomonas polyaromaticivorans

Strain Designation: B2-7

Strain history: Y. Luo B2-7.

NCBI tax ID(s): 433606 (species)

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

@ref: 19150

BacDive-ID: 23279

DSM-Number: 27062

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

description: Sphingomonas polyaromaticivorans B2-7 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from water of oil port.

NCBI tax id

  • NCBI tax id: 433606
  • Matching level: species

strain history

@refhistory
19150<- JCM <- Y. Luo, Marine Biotechnology Research Center, Ansan, Korea; B2-7
67770Y. Luo B2-7.

doi: 10.13145/bacdive23279.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Sphingomonadales
  • family: Sphingomonadaceae
  • genus: Sphingomonas
  • species: Sphingomonas polyaromaticivorans
  • full scientific name: Sphingomonas polyaromaticivorans Luo et al. 2012

@ref: 19150

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Sphingomonadaceae

genus: Sphingomonas

species: Sphingomonas polyaromaticivorans

full scientific name: Sphingomonas polyaromaticivorans Luo et al. 2012

strain designation: B2-7

type strain: yes

Morphology

cell morphology

  • @ref: 30326
  • gram stain: negative
  • cell length: 1.5 µm
  • cell width: 0.6 µm
  • cell shape: rod-shaped
  • motility: no

pigmentation

  • @ref: 30326
  • production: yes

multimedia

  • @ref: 19150
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_27062.jpg
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

  • @ref: 19150
  • name: NUTRIENT AGAR (DSMZ Medium 1)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/1
  • composition: Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
19150positivegrowth28mesophilic
30326positivegrowth20-35
30326positiveoptimum26mesophilic
67770positivegrowth30mesophilic

culture pH

@refabilitytypepHPH range
30326positivegrowth4-7.5acidophile
30326positiveoptimum7

Physiology and metabolism

oxygen tolerance

  • @ref: 30326
  • oxygen tolerance: aerobe

halophily

  • @ref: 30326
  • salt: NaCl
  • growth: positive
  • tested relation: optimum
  • concentration: 0.50 %

observation

  • @ref: 67770
  • observation: quinones: Q-10

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3032630089acetate+carbon source
3032621217L-alaninamide+carbon source
3032616449alanine+carbon source
30326286442-oxopentanoate+carbon source
3032622599arabinose+carbon source
3032622653asparagine+carbon source
3032635391aspartate+carbon source
3032617057cellobiose+carbon source
3032623652dextrin+carbon source
3032615740formate+carbon source
3032628757fructose+carbon source
3032628260galactose+carbon source
3032617234glucose+carbon source
3032629987glutamate+carbon source
3032617754glycerol+carbon source
3032627570histidine+carbon source
30326182404-hydroxy-L-proline+carbon source
3032617716lactose+carbon source
3032625017leucine+carbon source
3032617306maltose+carbon source
3032637684mannose+carbon source
3032637657methyl D-glucoside+carbon source
3032651850methyl pyruvate+carbon source
3032628044phenylalanine+carbon source
3032626271proline+carbon source
3032617822serine+carbon source
3032617992sucrose+carbon source
3032626986threonine+carbon source
3032627082trehalose+carbon source
3032653423tween 40+carbon source
3032653426tween 80+carbon source
6836925115malate-assimilation
6836917128adipate-assimilation
6836927689decanoate-assimilation
6836924265gluconate-assimilation
6836917306maltose-assimilation
6836959640N-acetylglucosamine-assimilation
6836916899D-mannitol-assimilation
6836916024D-mannose+assimilation
6836930849L-arabinose+assimilation
6836917634D-glucose+assimilation
683695291gelatin-hydrolysis
683694853esculin+hydrolysis
6836916199urea-hydrolysis
6836929016arginine-hydrolysis
6836917634D-glucose-fermentation
6836927897tryptophan-energy source
6836917632nitrate-reduction

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
30326acid phosphatase+3.1.3.2
30326alkaline phosphatase+3.1.3.1
30326catalase+1.11.1.6
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
19150-----+--+++--------++

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
19150water of oil portXiamen, Botan Oil PortChinaCHNAsia
67770Water sample from Botan Oil Port in XiamenChinaCHNAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Industrial#Oil reservoir
#Environmental#Aquatic

Safety information

risk assessment

  • @ref: 19150
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 19150
  • description: Sphingomonas polyaromaticivorans strain B2-7 16S ribosomal RNA gene, partial sequence
  • accession: EF467848
  • length: 1450
  • database: ena
  • NCBI tax ID: 433606

GC content

@refGC-contentmethod
1915061.8
6777061.8high performance liquid chromatography (HPLC)

External links

@ref: 19150

culture collection no.: DSM 27062, JCM 16711, KCCM 42951

straininfo link

  • @ref: 87501
  • straininfo: 406281

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny21742816Sphingomonas polyaromaticivorans sp. nov., a polycyclic aromatic hydrocarbon-degrading bacterium from an oil port water sample.Luo YR, Tian Y, Huang X, Kwon K, Yang SH, Seo HS, Kim SJ, Zheng TLInt J Syst Evol Microbiol10.1099/ijs.0.033530-02011Bacterial Typing Techniques, Biodegradation, Environmental, China, DNA, Bacterial/genetics, Molecular Sequence Data, Phylogeny, Polycyclic Aromatic Hydrocarbons/*metabolism, RNA, Ribosomal, 16S/genetics, Sphingomonas/*classification/genetics/*isolation & purification/metabolism, *Water MicrobiologyGenetics
Phylogeny24523444Sphingomonas oligoaromativorans sp. nov., an oligotrophic bacterium isolated from a forest soil.Han SI, Lee JC, Ohta H, Whang KSInt J Syst Evol Microbiol10.1099/ijs.0.052894-02014Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Spermidine/analogs & derivatives/chemistry, Sphingomonas/*classification/genetics/isolation & purification, Trees/microbiology, Ubiquinone/chemistryGenetics
Phylogeny25985831Sphingomonas morindae sp. nov., isolated from Noni (Morinda citrifolia L.) branch.Liu Y, Yao S, Lee YJ, Cao Y, Zhai L, Zhang X, Su J, Ge Y, Kim SG, Cheng CInt J Syst Evol Microbiol10.1099/ijs.0.0003402015Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Endophytes/*classification/genetics/isolation & purification, Fatty Acids/chemistry, Molecular Sequence Data, Morinda/*microbiology, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Spermidine/analogs & derivatives/chemistry, Sphingomonas/*classification/genetics/isolation & purification, Ubiquinone/chemistryEnzymology
Phylogeny29091024Sphingomonas difficilis sp. nov., a difficultly cultivable bacterium that grows on solid but not in liquid medium, isolated from an abandoned lead-zinc mine.Feng GD, Xiong X, Zhu HH, Li HPInt J Syst Evol Microbiol10.1099/ijsem.0.0024612017Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, *Mining, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Spermidine/analogs & derivatives/chemistry, Sphingomonas/*classification/genetics/isolation & purification, Ubiquinone/chemistry, *ZincTranscriptome
Phylogeny32515726Sphingomonas chungangi sp. nov., a bacterium isolated from garden soil sample.Akter S, Huq MAInt J Syst Evol Microbiol10.1099/ijsem.0.0042672020Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Gardens, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Sphingomonas/*classification/isolation & purification, Ubiquinone/analogs & derivatives/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
19150Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27062)https://www.dsmz.de/collection/catalogue/details/culture/DSM-27062
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
30326Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2666728776041
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
87501Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID406281.1StrainInfo: A central database for resolving microbial strain identifiers