Strain identifier

BacDive ID: 5095

Type strain: Yes

Species: Rahnella inusitata

Strain Designation: WS 21410

Strain history: CIP <- 2010, DSMZ <- Weihenstephan, Germany: strain WS 21410

NCBI tax ID(s): 58169 (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: 9111

BacDive-ID: 5095

DSM-Number: 30078

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

description: Rahnella inusitata WS 21410 is a facultative anaerobe, mesophilic, Gram-negative bacterium that was isolated from Food, Minced meat.

NCBI tax id

  • NCBI tax id: 58169
  • Matching level: species

strain history

@refhistory
9111<- Bakteriologisches Institut der Sueddeutschen Versuchs- und Forschungsanstalt fuer Milchwirtschaft, Freising-Weihenstephan, Germany; WS 21410 (Erwinia herbicola)
116444CIP <- 2010, DSMZ <- Weihenstephan, Germany: strain WS 21410

doi: 10.13145/bacdive5095.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Gammaproteobacteria
  • order: Enterobacterales
  • family: Yersiniaceae
  • genus: Rahnella
  • species: Rahnella inusitata
  • full scientific name: Rahnella inusitata Brady et al. 2017

@ref: 9111

domain: Bacteria

phylum: Proteobacteria

class: Gammaproteobacteria

order: Enterobacteriales, not validated

family: Yersiniaceae

genus: Rahnella

species: Rahnella inusitata

full scientific name: Rahnella inusitata Brady et al. 2017

strain designation: WS 21410

type strain: yes

Morphology

cell morphology

  • @ref: 116444
  • gram stain: negative
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
40331MEDIUM 72- for trypto casein soja agaryesDistilled water make up to (1000.000 ml);Trypto casein soy agar (40.000 g)
9111REACTIVATION WITH LIQUID MEDIUM 1 (DSMZ Medium 1a)yesName: 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 waterhttps://mediadive.dsmz.de/medium/1a
116444CIP Medium 72yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72

culture temp

@refgrowthtypetemperaturerange
40331positivegrowth30mesophilic
9111positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 116444
  • oxygen tolerance: facultative anaerobe

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate+builds acid from
68371L-arabitol-builds acid from18403
68371D-arabitol+builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371gentiobiose+builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371raffinose+builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose+builds acid from27082
68371sucrose+builds acid from17992
68371melibiose+builds acid from28053
68371lactose+builds acid from17716
68371maltose+builds acid from17306
68371cellobiose+builds acid from17057
68371salicin+builds acid from17814
68371esculin+builds acid from4853
68371arbutin+builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside+builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol+builds acid from17924
68371D-mannitol+builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose+builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose+builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose+builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose+builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol+builds acid from17754
68368L-arabinose+fermentation30849
68368amygdalin+fermentation27613
68368melibiose+fermentation28053
68368sucrose+fermentation17992
68368L-rhamnose+fermentation62345
68368sorbitol+fermentation30911
68368myo-inositol-fermentation17268
68368D-mannitol+fermentation16899
68368D-glucose+fermentation17634
68368gelatin-hydrolysis5291
68368tryptophan-energy source27897
68368urea-hydrolysis16199
68368citrate+assimilation16947
68368ornithine-degradation18257
68368lysine-degradation25094
68368arginine-hydrolysis29016
116444nitrate+reduction17632
116444nitrite-reduction16301

metabolite production

@refChebi-IDmetaboliteproduction
6836815688acetoinyes
6836835581indoleno
6836816136hydrogen sulfideno
11644435581indoleno

metabolite tests

@refChebi-IDmetabolitevoges-proskauer-testindole test
6836815688acetoin+
6836835581indole-

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
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
116444oxidase-
116444catalase+1.11.1.6
116444urease-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
116444---+-+----++----++--

API 20E

@refONPGADH ArgLDC LysODCCITH2SURETDA TrpINDVPGELGLUMANINOSorRHASACMELAMYARAOX
9111----+----+-++-++++++-

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
116444+--+++---++++-+--++-++-+++++++++--++/---++/-----+-+/-+/-+

Isolation, sampling and environmental information

isolation

  • @ref: 116444
  • sample type: Food, Minced meat
  • country: Germany
  • origin.country: DEU
  • continent: Europe

taxonmaps

  • @ref: 69479
  • File name: preview.99_6145.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_106;97_324;98_1724;99_6145&stattab=map
  • Last taxonomy: Yersiniaceae
  • 16S sequence: U90758
  • Sequence Identity:
  • Total samples: 2787
  • soil counts: 175
  • aquatic counts: 1026
  • animal counts: 1056
  • plant counts: 530

Safety information

risk assessment

  • @ref: 116444
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

  • @ref: 9111
  • description: Rahnella inusitata strain DSM 30078 16S ribosomal RNA gene, partial sequence
  • accession: U90758
  • length: 1475
  • database: ena
  • NCBI tax ID: 58169

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Rahnella inusitata DSM 30078GCA_003602055contigncbi58169
66792Rahnella inusitata DSM 30078GCA_003263515contigncbi58169
66792Rahnella inusitata strain DSM 3007858169.4wgspatric58169
66792Rahnella sp. DSM 300781609978.3wgspatric58169
66792Rahnella inusitata DSM 300782843294501draftimg34038
66792Rahnella aquatilis DSM 300782840484463draftimg34038

GC content

  • @ref: 9111
  • GC-content: 52.7
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
gram-positiveno98.168no
anaerobicno98.664no
halophileno86.055no
spore-formingno95.513no
glucose-utilyes96.94no
thermophileno99.424yes
flagellatedno63.486no
motileyes91.36no
aerobicyes77.858no
glucose-fermentyes92.342yes

External links

@ref: 9111

culture collection no.: DSM 30078, CIP 110143, LMG 2640, WS 21410

straininfo link

  • @ref: 74589
  • straininfo: 6651

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny25264035Rahnella victoriana sp. nov., Rahnella bruchi sp. nov., Rahnella woolbedingensis sp. nov., classification of Rahnella genomospecies 2 and 3 as Rahnella variigena sp. nov. and Rahnella inusitata sp. nov., respectively and emended description of the genus Rahnella.Brady C, Hunter G, Kirk S, Arnold D, Denman SSyst Appl Microbiol10.1016/j.syapm.2014.09.0012014DNA, Bacterial/genetics, Molecular Sequence Data, Phenotype, Phylogeny, Plant Diseases/microbiology, Quercus/microbiology, Rahnella/*classification/*genetics/isolation & purificationGenetics
Phylogeny30806981Edaphovirga cremea gen. nov., sp. nov., isolated from the rhizospheric soil of Codonopsis clematidea.Xue JY, Zhang MY, Zhang Y, Cheng J, Liu LC, Wu YY, Zhang TY, Zhang YXJ Microbiol10.1007/s12275-019-8408-02019Bacterial Typing Techniques, Base Composition/genetics, Codonopsis/*microbiology, DNA, Bacterial/genetics, Enterobacteriaceae/*classification/genetics/*isolation & purification/metabolism, Fatty Acids/analysis, Phospholipids/analysis, Phylogeny, RNA, Ribosomal, 16S/genetics, Rhizosphere, Soil MicrobiologyEnzymology

Reference

@idauthorscataloguedoi/urltitle
9111Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 30078)https://www.dsmz.de/collection/catalogue/details/culture/DSM-30078
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
40331Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7968
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)
68368Automatically annotated from API 20E
68371Automatically annotated from API 50CH acid
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
74589Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID6651.1StrainInfo: A central database for resolving microbial strain identifiers
116444Curators of the CIPCollection of Institut Pasteur (CIP 110143)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110143