Strain identifier

BacDive ID: 131378

Type strain: Yes

Species: Lactobacillus bombicola

Strain Designation: H70-3, R-53102

Strain history: CIP <- 2015, BCCM LMG, <- 2014, P. Vandamme, Ghent Univ., Ghent, Belgium: strain R-53102 <- J. Praet, Ghent Univ., Ghent, Belgium: strain H70-3

NCBI tax ID(s): 1505723 (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: 22605

BacDive-ID: 131378

DSM-Number: 28793

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

description: Lactobacillus bombicola H70-3 is an anaerobe, mesophilic, Gram-positive bacterium that was isolated from bumblebee gut .

NCBI tax id

  • NCBI tax id: 1505723
  • Matching level: species

strain history

@refhistory
22605<- J. Praet, Ghent Univ., Belgium; H70-3
116837CIP <- 2015, BCCM LMG, <- 2014, P. Vandamme, Ghent Univ., Ghent, Belgium: strain R-53102 <- J. Praet, Ghent Univ., Ghent, Belgium: strain H70-3

doi: 10.13145/bacdive131378.20230509.8.1

Name and taxonomic classification

LPSN

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

@ref: 22605

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Lactobacillus

species: Lactobacillus bombicola

full scientific name: Lactobacillus bombicola Praet et al. 2015

strain designation: H70-3, R-53102

type strain: yes

Morphology

cell morphology

  • @ref: 116837
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

colony morphology

  • @ref: 22605
  • incubation period: 3-7 days

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
22605MRS MEDIUM WITH CYSTEINE (DSMZ Medium 232)yeshttps://mediadive.dsmz.de/medium/232Name: MRS MEDIUM WITH CYSTEINE (DSMZ Medium 232) 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)2 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
116837CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

  • @ref: 22605
  • growth: positive
  • type: growth
  • temperature: 37
  • range: mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
22605anaerobe
22605microaerophile

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
22605--------------------------+-----------------------

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentisolation date
22605bumblebee gut (Bombus lapidarius)Bombus lapidariusregion of GhentBelgiumBELEurope
116837Bumblebee, gutGhentBelgiumBELEurope2013

isolation source categories

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

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
226051Risk group (German classification)
1168371Risk group (French classification)

Sequence information

16S sequences

  • @ref: 22605
  • description: Lactobacillus bombicola partial 16S rRNA gene, type strain LMG 28288T
  • accession: LK054485
  • length: 1518
  • database: ena
  • NCBI tax ID: 1505723

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus bombicola H70-3GCA_002916915contigncbi1505723
66792Lactobacillus bombicola strain H70-31505723.5wgspatric1505723

GC content

  • @ref: 22605
  • GC-content: 34.5
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno96.276no
gram-positiveyes95.837no
anaerobicyes79.032no
aerobicno98.448no
halophileyes84.897no
spore-formingno97.722no
thermophileno97.805yes
glucose-utilyes90.733no
flagellatedno98.984no
glucose-fermentyes89.72no

External links

@ref: 22605

culture collection no.: DSM 28793, LMG 28288, CIP 110987

straininfo link

  • @ref: 89815
  • straininfo: 399757

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny25783976Novel lactic acid bacteria isolated from the bumble bee gut: Convivina intestini gen. nov., sp. nov., Lactobacillus bombicola sp. nov., and Weissella bombi sp. nov.Praet J, Meeus I, Cnockaert M, Houf K, Smagghe G, Vandamme PAntonie Van Leeuwenhoek10.1007/s10482-015-0429-z2015Animals, 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/metabolismMetabolism
Phylogeny29458462Lactobacillus panisapium sp. nov., from honeybee Apis cerana bee bread.Wang C, Huang Y, Li L, Guo J, Wu Z, Deng Y, Dai L, Ma SInt J Syst Evol Microbiol10.1099/ijsem.0.0025382018Animals, Bacterial Typing Techniques, Base Composition, Bees/*microbiology, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Glycolipids/chemistry, Lactobacillus/*classification/genetics/isolation & purification, Peptidoglycan/chemistry, Phospholipids/chemistry, *Phylogeny, *Propolis, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNATranscriptome

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
22605Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-28793Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28793)
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
89815Reimer, 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-ID399757.1
116837Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110987Collection of Institut Pasteur (CIP 110987)