Strain identifier

BacDive ID: 10510

Type strain: Yes

Species: Vogesella mureinivorans

Strain Designation: 389

Strain history: <- N. O. G. Jørgensen, Dept. Agriculture and Ecology, Fac. Life Sci., Univ. Copenhagen, Frederiksberg, Denmark; Isolate 389 <- M. Prahm

NCBI tax ID(s): 657276 (species)

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General

@ref: 15592

BacDive-ID: 10510

DSM-Number: 21247

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

description: Vogesella mureinivorans 389 is an anaerobe, mesophilic, Gram-negative bacterium that was isolated from Lake water.

NCBI tax id

  • NCBI tax id: 657276
  • Matching level: species

strain history

  • @ref: 15592
  • history: <- N. O. G. Jørgensen, Dept. Agriculture and Ecology, Fac. Life Sci., Univ. Copenhagen, Frederiksberg, Denmark; Isolate 389 <- M. Prahm

doi: 10.13145/bacdive10510.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/pseudomonadota
  • domain: Bacteria
  • phylum: Pseudomonadota
  • class: Betaproteobacteria
  • order: Neisseriales
  • family: Chromobacteriaceae
  • genus: Vogesella
  • species: Vogesella mureinivorans
  • full scientific name: Vogesella mureinivorans Jørgensen et al. 2010

@ref: 15592

domain: Bacteria

phylum: Proteobacteria

class: Betaproteobacteria

order: Neisseriales

family: Chromobacteriaceae

genus: Vogesella

species: Vogesella mureinivorans

full scientific name: Vogesella mureinivorans Jørgensen et al. 2010

strain designation: 389

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29680negative2.7 µm0.8 µmrod-shapedyes
69480yes92.821
69480negative99.995

pigmentation

  • @ref: 29680
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 15592
  • name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/535
  • composition: Name: TRYPTICASE SOY BROTH AGAR (DSMZ Medium 535) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Distilled water

culture temp

@refgrowthtypetemperaturerange
15592positivegrowth28mesophilic
29680positivegrowth05-37
29680positiveoptimum20-30

culture pH

@refabilitytypepHPH range
29680positivegrowth06-09alkaliphile
29680positiveoptimum06-07

Physiology and metabolism

oxygen tolerance

  • @ref: 29680
  • oxygen tolerance: anaerobe

spore formation

@refspore formationconfidence
29680no
69481no100
69480no99.998

halophily

@refsaltgrowthtested relationconcentration
29680NaClpositivegrowth0-1 %
29680NaClpositiveoptimum0.1 %

observation

  • @ref: 29680
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2968030089acetate+carbon source
2968016449alanine+carbon source
2968022653asparagine+carbon source
2968035391aspartate+carbon source
2968015740formate+carbon source
2968028757fructose+carbon source
2968033984fucose+carbon source
2968024265gluconate+carbon source
2968017234glucose+carbon source
2968029987glutamate+carbon source
2968017754glycerol+carbon source
2968027570histidine+carbon source
2968024996lactate+carbon source
2968025017leucine+carbon source
2968029864mannitol+carbon source
2968051850methyl pyruvate+carbon source
29680506227N-acetylglucosamine+carbon source
2968050048phenylethylamine+carbon source
2968026271proline+carbon source
2968017272propionate+carbon source
2968030031succinate+carbon source
296804853esculin+hydrolysis
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

metabolite production

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • production: yes

metabolite tests

  • @ref: 68369
  • Chebi-ID: 35581
  • metabolite: indole
  • indole test: +

enzymes

@refvalueactivityec
68369cytochrome oxidase+1.9.3.1
68369gelatinase+
68369beta-glucosidase-3.2.1.21
68369urease-3.5.1.5
68369arginine dihydrolase-3.5.3.6

API 20NE

@refNO3TRPGLU_ FermADH ArgUREESCGELPNPGGLU_ AssimARAMNEMANNAGMALGNTCAPADIMLTCITPACOX
15592-+----+-+---++-+-+--+
15592-+----+-+---++-+-+--+

Isolation, sampling and environmental information

isolation

  • @ref: 15592
  • sample type: Lake water
  • geographic location: Zealand, Lake Sjælsø
  • country: Denmark
  • origin.country: DNK
  • continent: Europe

isolation source categories

  • Cat1: #Environmental
  • Cat2: #Aquatic
  • Cat3: #Lake (large)

Safety information

risk assessment

  • @ref: 15592
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 15592
  • description: Vogesella sp. 389 16S ribosomal RNA gene, partial sequence
  • accession: GQ246809
  • length: 1444
  • database: ena
  • NCBI tax ID: 657276

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Vogesella mureinivorans 389GCA_007644035contigncbi657276
66792Vogesella mureinivorans strain 389657276.3wgspatric657276
66792Vogesella mureinivorans 3892894007314draftimg657276

GC content

@refGC-contentmethod
1559262.1high performance liquid chromatography (HPLC)
2968061.2

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveno98.673no
anaerobicno92.621yes
halophileno94.832no
spore-formingno94.072yes
glucose-utilyes88.159no
thermophileno99.463yes
flagellatedyes89.888no
aerobicyes66.969yes
motileyes92.467yes
glucose-fermentno86.429yes

External links

@ref: 15592

culture collection no.: DSM 21247, LMG 25302

straininfo link

  • @ref: 79787
  • straininfo: 401496

literature

  • topic: Phylogeny
  • Pubmed-ID: 19946047
  • title: Vogesella mureinivorans sp. nov., a peptidoglycan-degrading bacterium from lake water.
  • authors: Jorgensen NOG, Brandt KK, Nybroe O, Hansen M
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.018630-0
  • year: 2009
  • mesh: Bacterial Typing Techniques, Base Composition, Chitinases/metabolism, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, Denmark, Fatty Acids/analysis, Fresh Water/*microbiology, Microscopy, Electron, Scanning, Microscopy, Electron, Transmission, Molecular Sequence Data, Muramidase/metabolism, Neisseriaceae/*classification/genetics/isolation & purification/*metabolism, Nucleic Acid Hybridization, Peptidoglycan/*metabolism, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
  • topic2: Metabolism

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
15592Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21247)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21247
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
29680Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2606528776041
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)
68369Automatically annotated from API 20NE
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
79787Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID401496.1StrainInfo: A central database for resolving microbial strain identifiers