Strain identifier

BacDive ID: 10505

Type strain: Yes

Species: Uruburuella suis

Strain Designation: 1258/02

Strain history: <- J. F. Fernández-Garayzábal <- A. I. Vela; 1258/02

NCBI tax ID(s): 252130 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 7009

BacDive-ID: 10505

DSM-Number: 17474

keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic, Gram-negative, rod-shaped, animal pathogen

description: Uruburuella suis 1258/02 is a facultative anaerobe, mesophilic, Gram-negative animal pathogen that was isolated from lung of pig with pneumonia.

NCBI tax id

  • NCBI tax id: 252130
  • Matching level: species

strain history

  • @ref: 7009
  • history: <- J. F. Fernández-Garayzábal <- A. I. Vela; 1258/02

doi: 10.13145/bacdive10505.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Neisseriales
  • family: Neisseriaceae
  • genus: Uruburuella
  • species: Uruburuella suis
  • full scientific name: Uruburuella suis Vela et al. 2005

@ref: 7009

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Neisseriales

family: Neisseriaceae

genus: Uruburuella

species: Uruburuella suis

full scientific name: Uruburuella suis Vela et al. 2005

strain designation: 1258/02

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
31338negativerod-shapedno
69480negative99.983

pigmentation

  • @ref: 31338
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 7009
  • name: COLUMBIA BLOOD AGAR (DSMZ Medium 429)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/429
  • composition: Name: COLUMBIA BLOOD AGAR (DSMZ Medium 429) Composition: Horse blood 40.0 g/l Columbia agar base

culture temp

@refgrowthtypetemperaturerange
7009positivegrowth37mesophilic
57879positivegrowth37mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
31338facultative anaerobe
57879aerobe

spore formation

@refspore formationconfidence
31338no
69481no100
69480no99.999

halophily

@refsaltgrowthtested relationconcentration
31338NaClpositivegrowth<3 %
31338NaClpositiveoptimum1.5 %

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3133822599arabinose+carbon source
3133828757fructose+carbon source
3133824265gluconate+carbon source
3133817234glucose+carbon source
3133825017leucine+carbon source
3133825115malate+carbon source
3133829864mannitol+carbon source
3133826271proline+carbon source
3133816199urea+carbon source
3133817632nitrate+reduction

enzymes

@refvalueactivityec
31338acid phosphatase+3.1.3.2
31338alkaline phosphatase+3.1.3.1
31338catalase+1.11.1.6
31338cytochrome oxidase+1.9.3.1

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentsampling dategeographic location
7009lung of pig with pneumoniaSpainESPEurope
57879Swine lung,young animal with lesions of pneumoniaSpainESPEurope2002Farm out of Madrid

isolation source categories

Cat1Cat2Cat3
#Infection#Inflammation
#Host#Mammals#Suidae (Pig,Swine)
#Host Body-Site#Oral cavity and airways#Lung

taxonmaps

  • @ref: 69479
  • File name: preview.99_47322.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_15355;96_19416;97_24097;98_34142;99_47322&stattab=map
  • Last taxonomy: Uruburuella suis subclade
  • 16S sequence: AJ586614
  • Sequence Identity:
  • Total samples: 10652
  • soil counts: 284
  • aquatic counts: 6917
  • animal counts: 3324
  • plant counts: 127

Safety information

risk assessment

  • @ref: 7009
  • pathogenicity animal: yes
  • biosafety level: 2
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 7009
  • description: Neisseria sp. CCUG 47806 16S rRNA gene, strain CCUG 47806
  • accession: AJ586614
  • length: 1484
  • database: ena
  • NCBI tax ID: 252130

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Uruburuella suis DSM 17474GCA_004341385scaffoldncbi252130
66792Uruburuella suis strain DSM 17474252130.3wgspatric252130
66792Uruburuella suis DSM 174742795385457draftimg252130
66792Uruburuella suis 1258/02GCA_022870845completencbi252130

GC content

  • @ref: 7009
  • GC-content: 55

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
flagellatedno93.383yes
gram-positiveno98.077yes
anaerobicno98.959yes
aerobicno56.85no
halophileno77.397no
spore-formingno97.311yes
motileno90.448yes
glucose-fermentno86.926no
thermophileno99.508no
glucose-utilyes74.488no

External links

@ref: 7009

culture collection no.: CIP 108700, DSM 17474, CCUG 47806, CECT 5685

straininfo link

  • @ref: 79782
  • straininfo: 132936

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny15774637Uruburuella suis gen. nov., sp. nov., isolated from clinical specimens of pigs.Vela AI, Collins MD, Lawson PA, Garcia N, Dominguez L, Fernandez-Garayzabal JFInt J Syst Evol Microbiol10.1099/ijs.0.63346-02005Animals, Bacterial Typing Techniques, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Genes, rRNA, Heart/microbiology, Lung/microbiology, Molecular Sequence Data, Neisseriaceae/*classification/*genetics/isolation & purification/physiology, Neisseriaceae Infections/microbiology/veterinary, Pericarditis/microbiology/*veterinary, Phenotype, *Phylogeny, Pneumonia, Bacterial/microbiology/*veterinary, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Swine, Swine Diseases/*microbiologyGenetics
Phylogeny34797758Paralysiella testudinis gen. nov., sp. nov., isolated from the cloaca of a toad-headed turtle (Mesoclemmys nasuta).Busse HJ, Kampfer P, Szostak MP, Ruckert C, Spergser JInt J Syst Evol Microbiol10.1099/ijsem.0.0051142021Animals, Bacterial Typing Techniques, Base Composition, Cloaca/microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Neisseriaceae/*classification/isolation & purification, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Turtles/microbiologyTranscriptome

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
7009Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 17474)https://www.dsmz.de/collection/catalogue/details/culture/DSM-17474
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
31338Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2765228776041
57879Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 47806)https://www.ccug.se/strain?id=47806
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)
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
79782Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID132936.1StrainInfo: A central database for resolving microbial strain identifiers