Strain identifier

BacDive ID: 130319

Type strain: Yes

Species: Rouxiella chamberiensis

Strain Designation: 130333

Strain history: CIP <- 2014, A. Le Flèche, Inst. Pasteur, Paris, France: strain 130333 Louisia chamberiensis <- Chambéry Hosp., Chambéry, France

NCBI tax ID(s): 1513468 (species)

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General

@ref: 22156

BacDive-ID: 130319

DSM-Number: 28324

keywords: genome sequence, 16S sequence, Bacteria, aerobe, mesophilic, Gram-negative

description: Rouxiella chamberiensis 130333 is an aerobe, mesophilic, Gram-negative bacterium that was isolated from parenteral nutrition bag for premature newborns.

NCBI tax id

  • NCBI tax id: 1513468
  • Matching level: species

strain history

@refhistory
22156<- A. Le Flèche-Matéos, Cellule d'Intervention Biologique d'Urgence, Institut Pasteur, Paris; 130333 <- Centre Hospitalier de Chambéry, France
118223CIP <- 2014, A. Le Flèche, Inst. Pasteur, Paris, France: strain 130333 Louisia chamberiensis <- Chambéry Hosp., Chambéry, France

doi: 10.13145/bacdive130319.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Yersiniaceae
  • genus: Rouxiella
  • species: Rouxiella chamberiensis
  • full scientific name: Rouxiella chamberiensis Le Flèche-Matéos et al. 2015

@ref: 22156

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Yersiniaceae

genus: Rouxiella

species: Rouxiella chamberiensis

full scientific name: Rouxiella chamberiensis Le Flèche-Matéos et al. 2015

strain designation: 130333

type strain: yes

Morphology

cell morphology

@refgram stainconfidencecell shapemotility
69480negative99.981
118223rod-shapedno

colony morphology

  • @ref: 63765
  • incubation period: 1 day

multimedia

  • @ref: 22156
  • multimedia content: https://www.dsmz.de/microorganisms/photos/DSM_28324.jpg
  • intellectual property rights: © Leibniz-Institut DSMZ

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
36240MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
22156TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)yesName: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled waterhttps://mediadive.dsmz.de/medium/535
118223CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
36240positivegrowth30mesophilic
63765positivegrowth30mesophilic
22156positivegrowth28mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 63765
  • oxygen tolerance: aerobe

spore formation

@refspore formationconfidence
69481no100
69480no99.875

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6836830849L-arabinose+fermentation
6836827613amygdalin+fermentation
6836817992sucrose-fermentation
6836862345L-rhamnose+fermentation
6836830911sorbitol-fermentation
6836817268myo-inositol-fermentation
6836816899D-mannitol+fermentation
6836817634D-glucose+fermentation
683685291gelatin-hydrolysis
6836827897tryptophan-energy source
6836816199urea-hydrolysis
6836816947citrate+assimilation
6836818257ornithine-degradation
6836825094lysine-degradation
6836829016arginine-hydrolysis

metabolite production

@refChebi-IDmetaboliteproduction
6836835581indoleno
6836816136hydrogen sulfideno

metabolite tests

  • @ref: 68368
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: -

enzymes

@refvalueactivityec
68368cytochrome oxidase-1.9.3.1
68368gelatinase-
68368tryptophan deaminase-4.1.99.1
68368urease-3.5.1.5
68368ornithine decarboxylase-4.1.1.17
68368lysine decarboxylase-4.1.1.18
68368arginine dihydrolase-3.5.3.6
68368beta-galactosidase+3.2.1.23

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
22156+---+----+-++--+-+++-
22156+---+------++--+--++-

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinentsampling dateisolation date
22156parenteral nutrition bag for premature newbornsChambéryFranceFRAEurope
63765Parenteral nutrition bags for newbornsChambery HospitalFranceFRAEurope2013-12-01
118223Food, Parenteral food bagChambéryFranceFRAEurope2013-12-15

isolation source categories

Cat1Cat2
#Infection#Medical device
#Infection#Medical product

taxonmaps

  • @ref: 69479
  • File name: preview.99_2210.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_106;97_324;98_1724;99_2210&stattab=map
  • Last taxonomy: Yersiniaceae
  • 16S sequence: KJ526379
  • Sequence Identity:
  • Total samples: 331
  • soil counts: 34
  • aquatic counts: 33
  • animal counts: 170
  • plant counts: 94

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
221561Risk group (German classification)
1182231Risk group (French classification)

Sequence information

16S sequences

  • @ref: 22156
  • description: Rouxiella chamberiensis strain 130333 16S ribosomal RNA gene, partial sequence
  • accession: KJ526379
  • length: 1463
  • database: ena
  • NCBI tax ID: 1513468

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Rouxiella chamberiensis 130333GCA_000951135scaffoldncbi1513468
66792Rouxiella chamberiensis 1303332639763055draftimg1513468
66792Rouxiella chamberiensis DSM 28324GCA_026967475completencbi1513468

GC content

  • @ref: 22156
  • GC-content: 53
  • method: sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileyes88.174no
flagellatedno82.101no
gram-positiveno98.373no
anaerobicno99.093yes
aerobicyes59.935yes
halophileno83.752no
spore-formingno96.432no
glucose-fermentyes86.183no
thermophileno99.357no
glucose-utilyes95.778no

External links

@ref: 22156

culture collection no.: DSM 28324, CIP 110714, CCUG 70919

straininfo link

  • @ref: 88852
  • straininfo: 403855

literature

  • topic: Phylogeny
  • Pubmed-ID: 25747423
  • title: Rouxiella chamberiensis gen. nov., sp. nov., a member of the family Enterobacteriaceae isolated from parenteral nutrition bags.
  • authors: Le Fleche-Mateos A, Levast M, Lomprez F, Arnoux Y, Andonian C, Perraud M, Vincent V, Ar Gouilh M, Thiberge JM, Vandenbogaert M, Diancourt L, Caro V, Burguiere AM, Manuguerra JC
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.000179
  • year: 2015
  • mesh: Bacterial Typing Techniques, Base Composition, Carbohydrates/chemistry, DNA, Bacterial/genetics, Enterobacteriaceae/*classification/genetics/isolation & purification, *Equipment Contamination, France, Genes, Bacterial, Molecular Sequence Data, Multilocus Sequence Typing, Nucleic Acid Hybridization, *Parenteral Nutrition, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Genetics

Reference

@idauthorstitledoi/urlcatalogue
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
22156Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-28324Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28324)
36240Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/30521
63765Curators of the CCUGhttps://www.ccug.se/strain?id=70919Culture Collection University of Gothenburg (CCUG) (CCUG 70919)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
68368Automatically annotated from API 20E
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
88852Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID403855.1
118223Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110714Collection of Institut Pasteur (CIP 110714)