Strain identifier

BacDive ID: 14278

Type strain: Yes

Species: Sphingopyxis taejonensis

Strain Designation: AF61

Strain history: CIP <- 2002, JCM <- 2001, KCTC <- J.S. Lee: strain JSS54 <- Sphingomonas taejonensis

NCBI tax ID(s): 93065 (species)

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General

@ref: 5905

BacDive-ID: 14278

DSM-Number: 15583

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

description: Sphingopyxis taejonensis AF61 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from natural mineral water.

NCBI tax id

  • NCBI tax id: 93065
  • Matching level: species

strain history

@refhistory
5905<- KCTC <- J.-S. Lee; JSS54 <- J.-S. Lee
67770KCTC 2884 <-- J.-S. Lee JSS54.
123411CIP <- 2002, JCM <- 2001, KCTC <- J.S. Lee: strain JSS54 <- Sphingomonas taejonensis

doi: 10.13145/bacdive14278.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Sphingomonadales
  • family: Sphingomonadaceae
  • genus: Sphingopyxis
  • species: Sphingopyxis taejonensis
  • full scientific name: Sphingopyxis taejonensis (Lee et al. 2001) Pal et al. 2006

  • synonyms

    • @ref: 20215
    • synonym: Sphingomonas taejonensis

@ref: 5905

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Sphingomonadaceae

genus: Sphingopyxis

species: Sphingopyxis taejonensis

full scientific name: Sphingopyxis taejonensis (Lee et al. 2001) Pal et al. 2006

strain designation: AF61

type strain: yes

Morphology

cell morphology

  • @ref: 123411
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

pigmentation

  • @ref: 123411
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
5905CASO AGAR (MERCK 105458) (DSMZ Medium 220)yeshttps://mediadive.dsmz.de/medium/220Name: CASO AGAR (Merck 105458) (DSMZ Medium 220) Composition: Agar 15.0 g/l Casein peptone 15.0 g/l NaCl 5.0 g/l Soy peptone 5.0 g/l Distilled water
37957MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
123411CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
5905positivegrowth30mesophilic
37957positivegrowth30mesophilic
67770positivegrowth30mesophilic
123411positivegrowth25-30mesophilic
123411nogrowth5psychrophilic
123411nogrowth10psychrophilic
123411nogrowth37mesophilic
123411nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 123411
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
123411NaClpositivegrowth0-4 %
123411NaClnogrowth6 %
123411NaClnogrowth8 %
123411NaClnogrowth10 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
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
12341116947citrate-carbon source
1234114853esculin-hydrolysis
12341117632nitrate-reduction
12341116301nitrite-reduction
12341117632nitrate-respiration

antibiotic resistance

  • @ref: 123411
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

@refChebi-IDmetaboliteproduction
6836935581indoleno
12341135581indoleno

metabolite tests

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

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase+3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
123411oxidase-
123411beta-galactosidase+3.2.1.23
123411alcohol dehydrogenase-1.1.1.1
123411gelatinase-
123411amylase-
123411DNase-
123411caseinase-3.4.21.50
123411catalase+1.11.1.6
123411tween esterase+
123411lecithinase-
123411lipase-
123411lysine decarboxylase-4.1.1.18
123411ornithine decarboxylase-4.1.1.17
123411protease-
123411tryptophan deaminase-
123411urease-3.5.1.5
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
68382esterase lipase (C 8)+
68382lipase (C 14)-
68382leucine arylamidase+3.4.11.1
68382valine arylamidase+
68382cystine arylamidase+3.4.11.3
68382trypsin+3.4.21.4
68382alpha-chymotrypsin+3.4.21.1
68382acid phosphatase+3.1.3.2
68382naphthol-AS-BI-phosphohydrolase+
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
68382beta-glucuronidase-3.2.1.31
68382alpha-glucosidase-3.2.1.20
68382beta-glucosidase-3.2.1.21
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382alpha-mannosidase-3.2.1.24
68382alpha-fucosidase-3.2.1.51

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
123411-+++-+++++++--------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
5905-----+--+--------+--+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123411+--+-----------+---------------------------------+-------------------------+----+---------++-+---+-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
5905natural mineral waterTaejonRepublic of KoreaKORAsia
67770Natural mineral waterTaejon CityRepublic of KoreaKORAsia
123411Environment, Natural mineral waterTaejonRepublic of KoreaKORAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
59051Risk group (German classification)
1234111Risk group (French classification)

Sequence information

16S sequences

  • @ref: 5905
  • description: Sphingomonas sp. JSS-54 16S ribosomal RNA gene, partial sequence
  • accession: AF131297
  • length: 1443
  • database: ena
  • NCBI tax ID: 93065

GC content

  • @ref: 67770
  • GC-content: 63
  • method: high performance liquid chromatography (HPLC)

External links

@ref: 5905

culture collection no.: DSM 15583, KCCM 41068, KCTC 2884, JSS 54, JCM 11457, CIP 107739, IFO 16724, NBRC 16724

straininfo link

  • @ref: 83433
  • straininfo: 62903

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny11491350Sphingomonas aquatilis sp. nov., Sphingomonas koreensis sp. nov., and Sphingomonas taejonensis sp. nov., yellow-pigmented bacteria isolated from natural mineral water.Lee JS, Shin YK, Yoon JH, Takeuchi M, Pyun YR, Park YHInt J Syst Evol Microbiol10.1099/00207713-51-4-14912001Base Composition, Base Sequence, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Fresh Water/*microbiology, Korea, Microscopy, Electron, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, Species Specificity, Sphingomonas/*classification/genetics/*isolation & purification/metabolismGenetics
Phylogeny12508864Sphingopyxis witflariensis sp. nov., isolated from activated sludge.Kampfer P, Witzenberger R, Denner EB, Busse HJ, Neef AInt J Syst Evol Microbiol10.1099/00207713-52-6-20292002Alphaproteobacteria/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/analysis, Genes, Bacterial, Molecular Sequence Data, Phenotype, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics, Sewage/microbiologyGenetics
Phylogeny16514047Proposal to reclassify [Sphingomonas] xenophaga Stolz et al. 2000 and [Sphingomonas] taejonensis Lee et al. 2001 as Sphingobium xenophagum comb. nov. and Sphingopyxis taejonensis comb. nov., respectively.Pal R, Bhasin VK, Lal RInt J Syst Evol Microbiol10.1099/ijs.0.64161-02006DNA, Ribosomal/chemistry, Fatty Acids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sphingomonadaceae/chemistry/*classification/genetics, Sphingomonas/chemistry/*classification/geneticsTranscriptome
Phylogeny19734286Sphingopyxis soli sp. nov., isolated from landfill soil.Choi JH, Kim MS, Jung MJ, Roh SW, Shin KS, Bae JWInt J Syst Evol Microbiol10.1099/ijs.0.013128-02009Base Sequence, Lipids/analysis, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, *Soil Microbiology, Sphingomonadaceae/classification/genetics/isolation & purification/physiologyGenetics
Phylogeny19933588Sphingopyxis panaciterrulae sp. nov., isolated from soil of a ginseng field.Srinivasan S, Kim MK, Sathiyaraj G, Veena V, Mahalakshmi M, Kalaiselvi S, Kim YJ, Yang DCInt J Syst Evol Microbiol10.1099/ijs.0.019414-02009Bacterial Typing Techniques, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Fatty Acids/analysis, Korea, Locomotion, Molecular Sequence Data, Panax/*microbiology, Phospholipids/analysis, Phylogeny, Quinones/analysis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Sphingomonadaceae/chemistry/*classification/genetics/*isolation & purificationGenetics
Phylogeny23264504Sphingopyxis italica sp. nov., isolated from Roman catacombs.Alias-Villegas C, Jurado V, Laiz L, Saiz-Jimenez CInt J Syst Evol Microbiol10.1099/ijs.0.046573-02012Bacterial Typing Techniques, DNA, Bacterial/genetics, Fatty Acids/analysis, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rome, Sequence Analysis, DNA, *Soil Microbiology, Sphingomonadaceae/*classification/genetics/isolation & purification, Ubiquinone/analogs & derivatives/analysisGenetics
Phylogeny28613148Sphingopyxis solisilvae sp. nov., isolated from forest soil.Chaudhary DK, Dahal RH, Kim JInt J Syst Evol Microbiol10.1099/ijsem.0.0018692017Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Forests, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA, *Soil Microbiology, Spermidine/chemistry, Sphingomonadaceae/*classification/genetics/isolation & purification, Ubiquinone/chemistryTranscriptome

Reference

@idauthorscataloguedoi/urltitle
5905Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15583)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15583
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
37957Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5208
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
68382Automatically annotated from API zym
83433Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID62903.1StrainInfo: A central database for resolving microbial strain identifiers
123411Curators of the CIPCollection of Institut Pasteur (CIP 107739)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20107739