Strain identifier

BacDive ID: 23276

Type strain: Yes

Species: Sphingomonas roseiflava

Strain Designation: MK341

Strain history: CIP <- 2000, IAM <- K. Kawahara, Kitasato Inst., Tokyo, Japan: strain MK341

NCBI tax ID(s): 76848 (species)

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

@ref: 18920

BacDive-ID: 23276

DSM-Number: 15593

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

description: Sphingomonas roseiflava MK341 is an obligate aerobe, mesophilic, Gram-negative bacterium that was isolated from ear of Setaria viridis.

NCBI tax id

  • NCBI tax id: 76848
  • Matching level: species

strain history

@refhistory
18920<- IAM <- K. Kawahara, Kitasato Univ., Tokyo, Japan; MK341
67770IAM 14823 <-- K. Kawahara MK 341.
122256CIP <- 2000, IAM <- K. Kawahara, Kitasato Inst., Tokyo, Japan: strain MK341

doi: 10.13145/bacdive23276.20230509.8.1

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 roseiflava
  • full scientific name: Sphingomonas roseiflava corrig. Yun et al. 2000
  • synonyms

    • @ref: 20215
    • synonym: Sphingomonas roseoflava

@ref: 18920

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Sphingomonadaceae

genus: Sphingomonas

species: Sphingomonas roseiflava

full scientific name: Sphingomonas roseiflava Yun et al. 2000

strain designation: MK341

type strain: yes

Morphology

cell morphology

  • @ref: 122256
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

pigmentation

  • @ref: 122256
  • production: no
  • name: Pyocyanin

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
18920R2A MEDIUM (DSMZ Medium 830)yeshttps://mediadive.dsmz.de/medium/830Name: R2A MEDIUM (DSMZ Medium 830) Composition: Agar 15.0 g/l Casamino acids 0.5 g/l Starch 0.5 g/l Glucose 0.5 g/l Proteose peptone 0.5 g/l Yeast extract 0.5 g/l K2HPO4 0.3 g/l Na-pyruvate 0.3 g/l MgSO4 x 7 H2O 0.05 g/l Distilled water
37288MEDIUM 29- Brain heart agaryesDistilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g)
122256CIP Medium 29yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29

culture temp

@refgrowthtypetemperaturerange
18920positivegrowth28mesophilic
37288positivegrowth30mesophilic
67770positivegrowth25mesophilic
122256positivegrowth5-30
122256nogrowth37mesophilic
122256nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 122256
  • oxygen tolerance: obligate aerobe

halophily

@refsaltgrowthtested relationconcentration
122256NaClpositivegrowth0-4 %
122256NaClnogrowth6 %
122256NaClnogrowth8 %
122256NaClnogrowth10 %

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose-builds acid from27082
68371sucrose-builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose-builds acid from17306
68371cellobiose-builds acid from17057
68371salicin-builds acid from17814
68371esculin-builds acid from4853
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine-builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol-builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose-builds acid from16024
68371D-fructose-builds acid from15824
68371D-glucose-builds acid from17634
68371D-galactose-builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose-builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
68369malate+assimilation25115
68369adipate-assimilation17128
68369decanoate-assimilation27689
68369gluconate+assimilation24265
68369maltose+assimilation17306
68369N-acetylglucosamine+assimilation59640
68369D-mannitol-assimilation16899
68369D-mannose+assimilation16024
68369L-arabinose+assimilation30849
68369D-glucose+assimilation17634
68369gelatin+hydrolysis5291
68369esculin+hydrolysis4853
68369urea-hydrolysis16199
68369arginine-hydrolysis29016
68369D-glucose-fermentation17634
68369tryptophan-energy source27897
68369nitrate-reduction17632
122256esculin+hydrolysis4853
122256nitrate-reduction17632
122256nitrite-reduction16301
122256nitrate-respiration17632

antibiotic resistance

  • @ref: 122256
  • 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
12225635581indoleno

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
122256oxidase-
122256beta-galactosidase+3.2.1.23
122256alcohol dehydrogenase-1.1.1.1
122256gelatinase+
122256amylase+
122256DNase-
122256caseinase+3.4.21.50
122256catalase+1.11.1.6
122256tween esterase+
122256lecithinase-
122256lipase-
122256lysine decarboxylase-4.1.1.18
122256ornithine decarboxylase-4.1.1.17
122256protease+
122256tryptophan deaminase-
122256urease-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
122256-+++-++---++-+--++--

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
18920-----++++++-+++--++--

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
122256-------------------------------------------------

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
122256+++++--+-+++---++-+-++---------------------------+++-+-----++--------------+---++-------+-++-+---++

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentisolation date
18920ear of Setaria viridisSetaria viridisIbaraki Pref.JapanJPNAsia
67770Setaria viridisSetaria viridisIbaraki Pref.JapanJPNAsia
122256Plant, Setaria viridisIbarakiJapanJPNAsia1992

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Fruit (Seed)

taxonmaps

  • @ref: 69479
  • File name: preview.99_70482.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_20;96_8913;97_38091;98_49448;99_70482&stattab=map
  • Last taxonomy: Sphingomonas
  • 16S sequence: HG005350
  • Sequence Identity:
  • Total samples: 1088
  • soil counts: 67
  • aquatic counts: 42
  • animal counts: 571
  • plant counts: 408

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
189201Risk group (German classification)
1222561Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
18920Sphingomonas roseiflava partial 16S rRNA gene, type strain JCM 21329THG0053501480ena76848
67770Sphingomonas roseiflava gene for 16S ribosomal RNAD845201415ena76848

External links

@ref: 18920

culture collection no.: DSM 15593, CIP 106847, CIP 106886, IAM 14823, JCM 21329

straininfo link

  • @ref: 87498
  • straininfo: 70200

Reference

@idauthorscataloguedoi/urltitle
18920Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15593)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15593
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
37288Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/19023
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
68369Automatically annotated from API 20NE
68371Automatically annotated from API 50CH acid
68382Automatically annotated from API zym
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.https://microbeatlas.org/MicrobeAtlas 1.0 beta
87498Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID70200.1StrainInfo: A central database for resolving microbial strain identifiers
122256Curators of the CIPCollection of Institut Pasteur (CIP 106847)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106847