Strain identifier

BacDive ID: 5385

Type strain: Yes

Species: Qipengyuania flava

Strain Designation: SW-46

Strain history: CIP <- 2003, JCM <- 2002, KRIBB: strain SW-46

NCBI tax ID(s): 192812 (species)

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General

@ref: 6442

BacDive-ID: 5385

DSM-Number: 16421

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic

description: Qipengyuania flava SW-46 is an obligate aerobe, mesophilic bacterium that was isolated from sea water.

NCBI tax id

  • NCBI tax id: 192812
  • Matching level: species

strain history

@refhistory
6442<- J.-H. Yoon, Korea Res. Inst. of Biosci. and Biotechnol. (KRIBB); SW-46 <- J.-H. Yoon et al.
67770J.-H. Yoon SW-46.
119386CIP <- 2003, JCM <- 2002, KRIBB: strain SW-46

doi: 10.13145/bacdive5385.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Sphingomonadales
  • family: Erythrobacteraceae
  • genus: Qipengyuania
  • species: Qipengyuania flava
  • full scientific name: Qipengyuania flava (Yoon et al. 2003) Lee and Kim 2020

  • synonyms

    • @ref: 20215
    • synonym: Erythrobacter flavus

@ref: 6442

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Sphingomonadales

family: Erythrobacteraceae

genus: Erythrobacter

species: Erythrobacter flavus

full scientific name: Erythrobacter flavus Yoon et al. 2003

strain designation: SW-46

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480no90.297
6948099.981negative
119386yesnegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
6442BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514)yeshttps://mediadive.dsmz.de/medium/514Name: BACTO MARINE BROTH (DIFCO 2216) (DSMZ Medium 514) Composition: NaCl 19.45 g/l MgCl2 5.9 g/l Bacto peptone 5.0 g/l Na2SO4 3.24 g/l CaCl2 1.8 g/l Yeast extract 1.0 g/l KCl 0.55 g/l NaHCO3 0.16 g/l Fe(III) citrate 0.1 g/l KBr 0.08 g/l SrCl2 0.034 g/l H3BO3 0.022 g/l Na2HPO4 0.008 g/l Na-silicate 0.004 g/l NaF 0.0024 g/l (NH4)NO3 0.0016 g/l Distilled water
36688Marine agar (MA)yesDistilled water make up to (1000.000 ml);Marine agar (55.100 g)
119386CIP Medium 13yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=13

culture temp

@refgrowthtypetemperaturerange
6442positivegrowth30mesophilic
36688positivegrowth30mesophilic
67770positivegrowth30mesophilic
119386positivegrowth25-37mesophilic
119386nogrowth5psychrophilic
119386nogrowth41thermophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 119386
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.985

halophily

  • @ref: 119386
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: 0-10 %

observation

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

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
11938616947citrate-carbon source
1193864853esculin-hydrolysis
119386606565hippurate+hydrolysis
11938617632nitrate-builds gas from
11938617632nitrate-reduction
11938616301nitrite-builds gas from
11938616301nitrite-reduction
11938615792malonate-assimilation
11938617632nitrate-respiration

metabolite production

  • @ref: 119386
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testmethylred-test
11938615688acetoin-
11938617234glucose-

enzymes

@refvalueactivityec
68382alpha-fucosidase-3.2.1.51
68382alpha-mannosidase-3.2.1.24
68382N-acetyl-beta-glucosaminidase-3.2.1.52
68382beta-glucosidase-3.2.1.21
68382alpha-glucosidase-3.2.1.20
68382beta-glucuronidase-3.2.1.31
68382beta-galactosidase-3.2.1.23
68382alpha-galactosidase-3.2.1.22
68382naphthol-AS-BI-phosphohydrolase+
68382acid phosphatase+3.1.3.2
68382alpha-chymotrypsin-3.4.21.1
68382trypsin+3.4.21.4
68382cystine arylamidase-3.4.11.3
68382valine arylamidase+
68382leucine arylamidase+3.4.11.1
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382esterase (C 4)-
68382alkaline phosphatase+3.1.3.1
119386oxidase-
119386beta-galactosidase-3.2.1.23
119386alcohol dehydrogenase-1.1.1.1
119386gelatinase+/-
119386amylase-
119386caseinase-3.4.21.50
119386catalase+1.11.1.6
119386tween esterase+
119386gamma-glutamyltransferase+2.3.2.2
119386lecithinase+
119386lipase-
119386lysine decarboxylase-4.1.1.18
119386ornithine decarboxylase-4.1.1.17
119386phenylalanine ammonia-lyase-4.3.1.24
119386tryptophan deaminase-
119386urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
119386-+-+-++-+-++--------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
6442sea waterEast Sea, Hwajinpo BeachRepublic of KoreaKORAsia
67770Seawater of Hwajinpo BeachRepublic of KoreaKORAsia

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Marine

taxonmaps

  • @ref: 69479
  • File name: preview.99_4590.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_20;96_251;97_274;98_305;99_4590&stattab=map
  • Last taxonomy: Qipengyuania
  • 16S sequence: AF500004
  • Sequence Identity:
  • Total samples: 396
  • soil counts: 5
  • aquatic counts: 300
  • animal counts: 90
  • plant counts: 1

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
64421Risk group (German classification)
1193861Risk group (French classification)

Sequence information

16S sequences

  • @ref: 6442
  • description: Erythrobacter flavus strain SW-46 16S ribosomal RNA gene, partial sequence
  • accession: AF500004
  • length: 1442
  • database: ena
  • NCBI tax ID: 192812

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Erythrobacter flavus strain DSM 16421192812.28wgspatric192812
66792Erythrobacter flavus DSM 164212828320713draftimg192812
67770Qipengyuania flava DSM 16421GCA_011762005scaffoldncbi192812

GC content

@refGC-contentmethod
6777064high performance liquid chromatography (HPLC)
6777063.3genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes73.998no
gram-positiveno96.881no
anaerobicno99.376no
aerobicyes94.938no
halophileno80.866no
spore-formingno93.025no
glucose-utilyes81.026no
flagellatedno81.931no
thermophileno93.86yes
glucose-fermentno92.813no

External links

@ref: 6442

culture collection no.: DSM 16421, JCM 11808, KCCM 41642, CIP 108097

straininfo link

@refstraininfo
74875111784
74876405534

Reference

@idauthorscataloguedoi/urltitle
6442Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 16421)https://www.dsmz.de/collection/catalogue/details/culture/DSM-16421
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
36688Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/5681
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmannhttps://diaspora-project.de/progress.html#genomesPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch10.21203/rs.3.rs-2527258/v1Predictions based on the model GenomeNet Sporulation v. 1
74875Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID111784.1StrainInfo: A central database for resolving microbial strain identifiers
74876Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID405534.1StrainInfo: A central database for resolving microbial strain identifiers
119386Curators of the CIPCollection of Institut Pasteur (CIP 108097)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20108097