Strain identifier

BacDive ID: 2334

Type strain: Yes

Species: Caulobacter vibrioides

Strain history: CIP <- 2000, W.R. Abraham, GBF, Braunschweig, Germany: strain CB51 <- VKM

NCBI tax ID(s): 155892 (species)

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General

@ref: 3754

BacDive-ID: 2334

DSM-Number: 9893

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

description: Caulobacter vibrioides DSM 9893 is a mesophilic, Gram-negative, motile bacterium of the family Caulobacteraceae.

NCBI tax id

  • NCBI tax id: 155892
  • Matching level: species

strain history

@refhistory
3754<- J. T. Staley, Univ. of Washington <- J. S. Poindexter, Univ. Long Island; CB51
123835CIP <- 2000, W.R. Abraham, GBF, Braunschweig, Germany: strain CB51 <- VKM

doi: 10.13145/bacdive2334.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Alphaproteobacteria
  • order: Caulobacterales
  • family: Caulobacteraceae
  • genus: Caulobacter
  • species: Caulobacter vibrioides
  • full scientific name: Caulobacter vibrioides Henrici and Johnson 1935 (Approved Lists 1980)

  • synonyms

    • @ref: 20215
    • synonym: Caulobacter crescentus

@ref: 3754

domain: Bacteria

phylum: Proteobacteria

class: Alphaproteobacteria

order: Rhizobiales

family: Caulobacteraceae

genus: Caulobacter

species: Caulobacter vibrioides

full scientific name: Caulobacter vibrioides Henrici and Johnson 1935

type strain: yes

Morphology

cell morphology

  • @ref: 123835
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: yes

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3754R2A 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
3754CAULOBACTER MEDIUM (DSMZ Medium 595)yeshttps://mediadive.dsmz.de/medium/595Name: CAULOBACTER MEDIUM (DSMZ Medium 595) Composition: Agar 15.0 g/l Bacto peptone 2.0 g/l Yeast extract 1.0 g/l MgSO4 x 7 H2O 0.2 g/l Tap water
39529MEDIUM 341 - for Caulobacter and BrevundimonasyesDistilled water make up to (995.000 ml);Magnesium sulphate heptahydrate (0.200 g);Calcium chloride dihydrate (0.100 g);Agar (15.000 g);Yeast extract (1.000 g);Peptone (2.000 g);Vitamin solution - M0655 (5.000 ml)
123835CIP Medium 341yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=341

culture temp

@refgrowthtypetemperaturerange
3754positivegrowth28mesophilic
39529positivegrowth30mesophilic
123835positivegrowth25-37mesophilic
123835nogrowth10psychrophilic
123835nogrowth41thermophilic

Physiology and metabolism

halophily

@refsaltgrowthtested relationconcentration
123835NaClpositivegrowth0 %
123835NaClnogrowth2 %
123835NaClnogrowth4 %
123835NaClnogrowth6 %
123835NaClnogrowth8 %
123835NaClnogrowth10 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12383516947citrate-carbon source
1238354853esculin+hydrolysis
12383517632nitrate-reduction
12383516301nitrite-reduction

antibiotic resistance

  • @ref: 123835
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 123835
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

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
123835oxidase+
123835beta-galactosidase+3.2.1.23
123835alcohol dehydrogenase-1.1.1.1
123835gelatinase-
123835catalase+1.11.1.6
123835lysine decarboxylase-4.1.1.18
123835ornithine decarboxylase-4.1.1.17
123835tryptophan deaminase-
123835urease-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
123835-+-+-++++-++++-+++--

Isolation, sampling and environmental information

isolation

@refcountryorigin.countrycontinentsample typeisolation date
39529USAUSANorth America
123835United States of AmericaUSANorth AmericaEnvironment, Pond water1935

taxonmaps

  • @ref: 69479
  • File name: preview.99_1259.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_73;96_731;97_854;98_995;99_1259&stattab=map
  • Last taxonomy: Caulobacter
  • 16S sequence: AJ227754
  • Sequence Identity:
  • Total samples: 6141
  • soil counts: 1503
  • aquatic counts: 2002
  • animal counts: 1667
  • plant counts: 969

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
37541Risk group (German classification)
1238352Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Caulobacter vibrioides DNA for 16S ribosomal RNA, strain DSM 9893AJ2277541439ena155892
20218Caulobacter vibrioides, strain CB51 (Neotype VKM-B1496), 16S rRNA gene, partialAJ0099571458ena155892

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Caulobacter vibrioides DSM 9893GCA_002858865contigncbi155892
66792Caulobacter vibrioides strain DSM 9893155892.14patric155892
66792Caulobacter vibrioides DSM 98932851166323draftimg155892

External links

@ref: 3754

culture collection no.: DSM 9893, KCTC 23677, CB 51, CIP 106452, VKM B-1496

straininfo link

  • @ref: 71891
  • straininfo: 17620

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20134228Caulobacter ginsengisoli sp. nov., a novel stalked bacterium isolated from ginseng cultivating soil.Liu QM, Ten LN, Im WT, Lee ST, Yoon MHJ Microbiol BiotechnolJMB020-01-022010Base Composition, Caulobacter/*classification/genetics/*isolation & purification/metabolism, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Panax/*microbiology, RNA, Ribosomal, 16S/genetics, *Soil MicrobiologyMetabolism
Phylogeny26354335Caulobacter flavus sp. nov., a stalked bacterium isolated from rhizosphere soil.Sun LN, Yang ED, Wei JC, Tang XY, Cao YY, Han GMInt J Syst Evol Microbiol10.1099/ijsem.0.0005852015Bacterial Typing Techniques, Base Composition, Caulobacter/*classification/genetics/isolation & purification, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistryGenetics
Phylogeny28598303Caulobacter rhizosphaerae sp. nov., a stalked bacterium isolated from rhizosphere soil.Sun LN, Yang ED, Hou XT, Wei JC, Yuan ZX, Wang WYInt J Syst Evol Microbiol10.1099/ijsem.0.0018602017Bacterial Typing Techniques, Base Composition, Caulobacter/*classification/genetics/isolation & purification, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistryTranscriptome
Phylogeny28866999Caulobacter hibisci sp. nov., isolated from rhizosphere of Hibiscus syriacus L. (Mugunghwa flower).Moya G, Yan ZF, Won K, Yang JE, Wang QJ, Kook M, Yi THInt J Syst Evol Microbiol10.1099/ijsem.0.0020212017Bacterial Typing Techniques, Base Composition, Caulobacter/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Hibiscus/*microbiology, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, *Rhizosphere, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistryTranscriptome
Phylogeny30220440Caulobacter zeae sp. nov. and Caulobacter radicis sp. nov., novel endophytic bacteria isolated from maize root (Zea mays L.).Gao JL, Sun P, Sun XH, Tong S, Yan H, Han ML, Mao XJ, Sun JGSyst Appl Microbiol10.1016/j.syapm.2018.08.0102018Bacterial Typing Techniques, Base Composition, Caulobacter/*classification/genetics/isolation & purification, China, DNA, Bacterial/genetics, Endophytes/classification/genetics/isolation & purification, Fatty Acids/chemistry, Genome, Bacterial, Phospholipids/chemistry, *Phylogeny, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Soil Microbiology, Zea mays/*microbiologyEnzymology
Phylogeny32525471Caulobacter soli sp. nov., isolated from soil sampled at Jiri Mountain, Republic of Korea.Yang Y, Jin CZ, Jin FJ, Li T, Lee JM, Kim CJ, Lee HG, Jin LInt J Syst Evol Microbiol10.1099/ijsem.0.0042642020Bacterial Typing Techniques, Base Composition, Caulobacter/*classification/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Phospholipids/chemistry, *Phylogeny, Pigmentation, RNA, Ribosomal, 16S/genetics, Republic of Korea, *Soil Microbiology, Ubiquinone/analogs & derivatives/chemistryEnzymology

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
3754Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 9893)https://www.dsmz.de/collection/catalogue/details/culture/DSM-9893
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
39529Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/18584
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
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
71891Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID17620.1StrainInfo: A central database for resolving microbial strain identifiers
123835Curators of the CIPCollection of Institut Pasteur (CIP 106452)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106452