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Strain identifier

BacDive ID: 2885

Type strain: Yes

Species: Acidovorax delafieldii

Strain Designation: 133, FD-6

Strain history: <- IMG <- R.Y. Stanier, 133 <- F. Delafield, FD-6

NCBI tax ID(s): 47920 (species)

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

@ref: 2047

BacDive-ID: 2885

DSM-Number: 64

keywords: 16S sequence, Bacteria, mesophilic, human pathogen

description: Acidovorax delafieldii 133 is a mesophilic human pathogen that was isolated from soil, enrichment with poly-ß-hydroxybutyrate.

NCBI tax id

  • NCBI tax id: 47920
  • Matching level: species

strain history: <- IMG <- R.Y. Stanier, 133 <- F. Delafield, FD-6

doi: 10.13145/bacdive2885.20221219.7.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Burkholderiales
  • family: Comamonadaceae
  • genus: Acidovorax
  • species: Acidovorax delafieldii
  • full scientific name: Acidovorax delafieldii (Davis 1970) Willems et al. 1990
  • synonyms

    • @ref: 20215
    • synonym: Pseudomonas delafieldii

@ref: 2047

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Comamonadaceae

genus: Acidovorax

species: Acidovorax delafieldii

full scientific name: Acidovorax delafieldii (Davis 1970) Willems et al. 1990

strain designation: 133, FD-6

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480yes61.459
6948099.562negative

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
2047REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)yeshttps://mediadive.dsmz.de/medium/1aName: REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
2047R2A 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
40594MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)

culture temp

@refgrowthtypetemperaturerange
2047positivegrowth30mesophilic
40594positivegrowth25mesophilic

Physiology and metabolism

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.057

halophily

  • @ref: 69480
  • halophily level: non-halophilic
  • confidence: 98.657

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
683695291gelatin-hydrolysis
683694853esculin-hydrolysis
6836929016arginine-hydrolysis
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
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
68369cytochrome oxidase+1.9.3.1
68369gelatinase-
68369beta-glucosidase-3.2.1.21
68369arginine dihydrolase-3.5.3.6

fatty acid profile

  • fatty acids

    @reffatty acidpercentageECL
    44419C12:03.912
    44419C14:04.514
    44419C16:021.816
    44419C10:0 3OH3.811.423
    44419C16:1 ω7c4715.819
    44419C18:1 ω7c /12t/9t15.417.824
    44419C18:2 ω6,9c/C18:0 ANTE2.817.724
    44419C8:0 3OH0.99.385
  • type of FA analysis: whole cell analysis
  • method/protocol: CCUG

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
44419-+++-+--------------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
2047+---+----+++--+--+--+
44419+-------++++--+--+--+
44419+-+-----++++--+--+--+
2047+-------++++--+--+--+

Isolation, sampling and environmental information

isolation

@refsample type
2047soil, enrichment with poly-ß-hydroxybutyrate
44419Soil,enrichment with PHB as sole carbon source

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Terrestrial
  • Cat3: #Soil

taxonmaps

  • @ref: 69479
  • File name: preview.99_5115.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_491;97_560;98_1041;99_5115&stattab=map
  • Last taxonomy: Acidovorax
  • 16S sequence: AF078764
  • Sequence Identity:
  • Total samples: 1172
  • soil counts: 75
  • aquatic counts: 155
  • animal counts: 38
  • plant counts: 904

Safety information

risk assessment

  • @ref: 2047
  • pathogenicity human: yes, in single cases
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Pseudomonas putida strain 133 16S ribosomal RNA gene, partial sequenceJQ795146403ena303
20218Acidovorax delafieldii 16S ribosomal RNA gene, partial sequenceAF0787641515ena47920
20218Acidovorax delafieldii 16S rRNA gene, strain DSM 50263AJ4203231483ena47920
20218Acidovorax delafieldii strain LMG 5943 16S ribosomal RNA gene, partial sequenceEU0241321318ena47920

GC content

  • @ref: 2047
  • GC-content: 64.8

External links

@ref: 2047

culture collection no.: CCUG 1779, LMG 5943, DSM 64, ATCC 17505, DSM 50263, DSM 50403

straininfo link

@refpassport
20218http://www.straininfo.net/strains/869
20218http://www.straininfo.net/strains/863
20218http://www.straininfo.net/strains/867
20218http://www.straininfo.net/strains/868

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny2275854Acidovorax, a new genus for Pseudomonas facilis, Pseudomonas delafieldii, E. Falsen (EF) group 13, EF group 16, and several clinical isolates, with the species Acidovorax facilis comb. nov., Acidovorax delafieldii comb. nov., and Acidovorax temperans sp. nov.Willems A, Falsen E, Pot B, Jantzen E, Hoste B, Vandamme P, Gillis M, Kersters K, De Ley JInt J Syst Bacteriol10.1099/00207713-40-4-3841990Base Composition, Base Sequence, Chromatography, Gas, Cluster Analysis, DNA, Bacterial/analysis, Electrophoresis, Fatty Acids/analysis, Nucleic Acid Hybridization, Phenotype, Pseudomonas/*classification/genetics, Terminology as TopicEnzymology
Metabolism15812862Regulation of pyrimidine biosynthesis in Acidovorax delafieldii.West TPJ Basic Microbiol10.1002/jobm.2004105062005Comamonadaceae/genetics/*metabolism, Gene Expression Regulation, Bacterial, Glucose/metabolism, Orotate Phosphoribosyltransferase/genetics/metabolism, Orotic Acid/metabolism, Pyrimidines/*biosynthesis, Succinic Acid/metabolism
Phylogeny29616893Acidovorax kalamii sp. nov., isolated from a water sample of the river Ganges.Pal D, Kaur N, Sudan SK, Bisht B, Krishnamurthi S, Mayilraj SInt J Syst Evol Microbiol10.1099/ijsem.0.0027362018Bacterial Typing Techniques, Base Composition, Comamonadaceae/*classification/genetics/isolation & purification, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, India, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Rivers/*microbiology, Sequence Analysis, DNATranscriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
2047Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 64)https://www.dsmz.de/collection/catalogue/details/culture/DSM-64
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
40594Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15085
44419Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 1779)https://www.ccug.se/strain?id=1779
68369Automatically annotated from API 20NE
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)