Strain identifier

BacDive ID: 2892

Type strain: Yes

Species: Acidovorax temperans

Strain history: CIP <- 1991, CCUG <- 1981, PHL, Göteborg, Sweden

NCBI tax ID(s): 80878 (species)

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

@ref: 3087

BacDive-ID: 2892

DSM-Number: 7270

keywords: genome sequence, 16S sequence, Bacteria, obligate aerobe, mesophilic, motile, human pathogen

description: Acidovorax temperans DSM 7270 is an obligate aerobe, mesophilic, motile human pathogen that was isolated from human urine.

NCBI tax id

  • NCBI tax id: 80878
  • Matching level: species

strain history

@refhistory
3087<- CCUG
123441CIP <- 1991, CCUG <- 1981, PHL, Göteborg, Sweden

doi: 10.13145/bacdive2892.20230509.8.1

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 temperans
  • full scientific name: Acidovorax temperans Willems et al. 1990

@ref: 3087

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Burkholderiales

family: Comamonadaceae

genus: Acidovorax

species: Acidovorax temperans

full scientific name: Acidovorax temperans Willems et al. 1990

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
69480yes96.567
69480100negative
123441nonegativerod-shaped

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
3087NUTRIENT AGAR (DSMZ Medium 1)yeshttps://mediadive.dsmz.de/medium/1Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water
40235MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
123441CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
3087positivegrowth28mesophilic
40235positivegrowth25mesophilic
123441positivegrowth25-41
123441nogrowth5psychrophilic
123441nogrowth10psychrophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 123441
  • oxygen tolerance: obligate aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.999

halophily

@refsaltgrowthtested relationconcentration
123441NaClpositivegrowth0 %
123441NaClnogrowth2 %
123441NaClnogrowth4 %
123441NaClnogrowth6 %
123441NaClnogrowth8 %
123441NaClnogrowth10 %

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
12344116947citrate-carbon source
1234414853esculin-hydrolysis
12344117632nitrate+reduction
12344116301nitrite+reduction
12344117632nitrate+respiration

antibiotic resistance

  • @ref: 123441
  • 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
12344135581indoleno

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
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6
123441oxidase+
123441beta-galactosidase-3.2.1.23
123441alcohol dehydrogenase-1.1.1.1
123441gelatinase-
123441amylase-
123441DNase-
123441caseinase-3.4.21.50
123441catalase+1.11.1.6
123441tween esterase+
123441lecithinase+
123441lipase+
123441lysine decarboxylase-4.1.1.18
123441ornithine decarboxylase-4.1.1.17
123441protease+
123441tryptophan deaminase-
123441urease-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
123441-+-+-+--------------

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
3087+-------+--+-----+--+

API biotype100

@refGLUFRUGALTREMNESBEMELSACRAFMTEMALLACLTEMbGaMaGaCELGENMbGuESCRIBARAXYLPLERHAFUCMLZDARLLARLXLTDULTAGGLYINOMANMTLTURSORADOHBGLYXERYMDG3MDGSATMUCLTATDTATMTATDMLTLMLTCATETATETTECITGRTGAT2KG5KGTRYNAGGNTPACPATpOBEQATGTEmOBEBATPPATCMTTGEBETPCEABTHINLATCAPCYTHISSUCFUMGREGYTAVTETNTTNGLNITA3OBUAPTGTTPRODALALALASERMNTPROPTYR2KT
123441++------------------------+----+-+--+-----------++------------+--+-------+-+---++-+---+-++++-+---+-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentisolation date
3087human urineGöteborgSwedenSWEEurope
123441Human, UrineGöterborgSwedenSWEEurope1981

isolation source categories

Cat1Cat2Cat3
#Host#Human
#Host Body Product#Fluids#Urine

taxonmaps

  • @ref: 69479
  • File name: preview.99_8006.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_1;96_491;97_560;98_1918;99_8006&stattab=map
  • Last taxonomy: Acidovorax
  • 16S sequence: AF078766
  • Sequence Identity:
  • Total samples: 381
  • soil counts: 20
  • aquatic counts: 166
  • animal counts: 170
  • plant counts: 25

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
3087yes, in single cases1Risk group (German classification)
1234411Risk group (French classification)

Sequence information

16S sequences

  • @ref: 20218
  • description: Acidovorax temperans 16S ribosomal RNA gene, partial sequence
  • accession: AF078766
  • length: 1512
  • database: ena
  • NCBI tax ID: 80878

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Acidovorax temperans DSM 7270GCA_006716905contigncbi80878
66792Acidovorax temperans strain DSM 727080878.16wgspatric80878
66792Acidovorax temperans DSM 72702818991434draftimg80878

GC content

  • @ref: 3087
  • GC-content: 62.4
  • method: thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes89.634no
flagellatedyes79.043no
gram-positiveno98.849no
anaerobicno98.027no
halophileno95.946no
spore-formingno94.925no
glucose-utilyes64.882yes
aerobicyes93.911no
thermophileno97.751yes
glucose-fermentno91.274yes

External links

@ref: 3087

culture collection no.: DSM 7270, ATCC 49665, CCUG 11779, LMG 7169, CIP 103457, CCM 4562

straininfo link

  • @ref: 72415
  • straininfo: 152

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
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
3087Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 7270)https://www.dsmz.de/collection/catalogue/details/culture/DSM-7270
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
40235Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/15257
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
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)
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
72415Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID152.1StrainInfo: A central database for resolving microbial strain identifiers
123441Curators of the CIPCollection of Institut Pasteur (CIP 103457)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103457