Strain identifier

BacDive ID: 131379

Type strain: Yes

Species: Weissella bombi

Strain Designation: H 24-37

Strain history: <- J. Praet, Ghent Univ., Belgium; H 24-37

NCBI tax ID(s): 1505725 (species)

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General

@ref: 22606

BacDive-ID: 131379

DSM-Number: 28794

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic

description: Weissella bombi H 24-37 is a microaerophile, mesophilic bacterium that was isolated from bumblebee gut .

NCBI tax id

  • NCBI tax id: 1505725
  • Matching level: species

strain history

  • @ref: 22606
  • history: <- J. Praet, Ghent Univ., Belgium; H 24-37

doi: 10.13145/bacdive131379.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Lactobacillaceae
  • genus: Weissella
  • species: Weissella bombi
  • full scientific name: Weissella bombi Praet et al. 2015

@ref: 22606

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Leuconostocaceae

genus: Weissella

species: Weissella bombi

full scientific name: Weissella bombi Praet et al. 2015

strain designation: H 24-37

type strain: yes

Culture and growth conditions

culture medium

  • @ref: 22606
  • name: MRS MEDIUM (DSMZ Medium 11)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/11
  • composition: Name: MRS MEDIUM (DSMZ Medium 11) Composition: Glucose 20.0 g/l Casein peptone 10.0 g/l Meat extract 10.0 g/l Na-acetate 5.0 g/l Yeast extract 5.0 g/l (NH4)3 citrate 2.0 g/l K2HPO4 2.0 g/l Tween 80 1.0 g/l MgSO4 x 7 H2O 0.2 g/l MnSO4 x H2O 0.05 g/l Distilled water

culture temp

  • @ref: 22606
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 22606
  • oxygen tolerance: microaerophile

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
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
68371turanose+builds acid from32528
68371gentiobiose-builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
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

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
22606----+-----++++-------++--+----+++-------+---------

Isolation, sampling and environmental information

isolation

  • @ref: 22606
  • sample type: bumblebee gut (Bombus terrestris)
  • host species: Bombus terrestris
  • geographic location: region of Ghent
  • country: Belgium
  • origin.country: BEL
  • continent: Europe

isolation source categories

Cat1Cat2Cat3
#Host#Arthropoda#Insecta
#Host Body-Site#Gastrointestinal tract#Stomach

taxonmaps

  • @ref: 69479
  • File name: preview.99_7596.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_155;96_519;97_597;98_686;99_7596&stattab=map
  • Last taxonomy: Weissella hellenica
  • 16S sequence: LK054487
  • Sequence Identity:
  • Total samples: 17284
  • soil counts: 1440
  • aquatic counts: 1465
  • animal counts: 13049
  • plant counts: 1330

Safety information

risk assessment

  • @ref: 22606
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

  • @ref: 22606
  • description: Weissella bombi partial 16S rRNA gene, type strain LMG 28290T
  • accession: LK054487
  • length: 1528
  • database: ena
  • NCBI tax ID: 1505725

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Weissella bombi DSM 28794GCA_005405505contigncbi1505725
66792Weissella bombi strain DSM 287941505725.5wgspatric1505725

GC content

  • @ref: 22606
  • GC-content: 37.2
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno96.525no
gram-positiveyes96.798no
anaerobicno93.834yes
aerobicno94.87yes
halophileyes97.265no
spore-formingno96.059no
thermophileno99.841yes
glucose-utilyes89.623no
flagellatedno98.65no
glucose-fermentyes90.73no

External links

@ref: 22606

culture collection no.: DSM 28794, LMG 28290

straininfo link

  • @ref: 89816
  • straininfo: 396390

literature

  • topic: Phylogeny
  • Pubmed-ID: 25783976
  • title: Novel lactic acid bacteria isolated from the bumble bee gut: Convivina intestini gen. nov., sp. nov., Lactobacillus bombicola sp. nov., and Weissella bombi sp. nov.
  • authors: Praet J, Meeus I, Cnockaert M, Houf K, Smagghe G, Vandamme P
  • journal: Antonie Van Leeuwenhoek
  • DOI: 10.1007/s10482-015-0429-z
  • year: 2015
  • mesh: Animals, Base Composition, Bees/*microbiology, DNA, Bacterial/genetics, Gastrointestinal Tract/microbiology, Lactic Acid/metabolism, Lactobacillales/classification/genetics/*isolation & purification/metabolism, Lactobacillus/classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics, Weissella/classification/genetics/*isolation & purification/metabolism
  • topic2: Metabolism

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
22606Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-28794Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28794)
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
68371Automatically annotated from API 50CH acid
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/
89816Reimer, 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-ID396390.1