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BacDive ID 130370
Type strain
Strain Designation Bin4N
Culture col. no. DSM 26254 CCUG 63291 Bin4N JCM 30768
NCBI tax ID(s) 1218492
Links
For citation purpose refer to the digital object identifier (doi) of the current version.

Archive

version 10 (current version):
version 10 (current version)

General

@ref: 21906

BacDive-ID: 130370

DSM-Number: 26254

keywords: genome sequence, 16S sequence, anaerobe, mesophilic

description: Bombilactobacillus mellifer Bin4N is an anaerobe, mesophilic prokaryote that was isolated from honey stomach of honey bee .

NCBI tax id

  • NCBI tax id: 1218492
  • Matching level: species

strain history

@refhistory
21906<- T. Olofsson, Lund Univ., Sweden; Bin4N
67770CCUG 63291 <-- T. Olofsson; Lund Univ., Sweden; Bin4N.

doi: 10.13145/bacdive130370.20251217.10

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: kingdom/bacillati
  • keyword: phylum/bacillota
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Lactobacillaceae
  • genus: Bombilactobacillus
  • species: Bombilactobacillus mellifer
  • full scientific name: Bombilactobacillus mellifer (Olofsson et al. 2014) Zheng et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Lactobacillus mellifer

@ref: 21906

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Bombilactobacillus

species: Bombilactobacillus mellifer

full scientific name: Bombilactobacillus mellifer (Olofsson et al. 2014) Zheng et al. 2020

strain designation: Bin4N

type strain: yes

Morphology

colony morphology

  • @ref: 62967
  • incubation period: 3 days

Culture and growth conditions

culture medium

  • @ref: 21906
  • name: MRS MEDIUM (DSMZ Medium 11)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/11
  • composition: Name: MRS MEDIUM (DSMZ Medium 11; with strain-specific modifications) Composition: Fructose 20.0 g/l Glucose 20.0 g/l Meat extract 10.0 g/l Casein peptone 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

@refgrowthtypetemperature
21906positivegrowth35
62967positivegrowth37
67770positivegrowth37

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
21906anaerobe
62967anaerobe

murein

  • @ref: 21906
  • murein short key: A11.31
  • type: A4alpha L-Lys-D-Asp

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371L-fucose-builds acid from18287
68371D-arabitol-builds acid from18333
68371D-tagatose-builds acid from16443
68371sucrose-builds acid from17992
68371trehalose-builds acid from27082
68371melibiose-builds acid from28053
68371arbutin-builds acid from18305
68371amygdalin-builds acid from27613
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371N-acetylglucosamine-builds acid from59640
68371glycerol-builds acid from17754
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-fucose-builds acid from28847
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
68371lactose-builds acid from17716
68371maltose-builds acid from17306
68371cellobiose-builds acid from17057
68371salicin+builds acid from17814
68371esculin+builds acid from4853
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

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
21906-----------++------------++-----------------------

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinentsampling date
21906honey stomach of honey bee (Apis mellifera mellifera)Apis mellifera melliferaLundSwedenSWEEurope
62967Honey bee,honey stomachHelsingborgSwedenSWEEurope2011-07-06
67770Honey stomach of the honeybee Apis mellifera melliferaApis mellifera mellifera

isolation source categories

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

taxonmaps

  • @ref: 69479
  • File name: preview.99_28324.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_45;96_13983;97_17041;98_21170;99_28324&stattab=map
  • Last taxonomy: Bombilactobacillus mellifer subclade
  • 16S sequence: JX099543
  • Sequence Identity:
  • Total samples: 3939
  • soil counts: 38
  • aquatic counts: 127
  • animal counts: 3619
  • plant counts: 155

Interaction and safety

risk assessment

  • @ref: 21906
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

Genome sequences

  • @ref: 124043
  • description: ASM4266316v1 assembly for Bombilactobacillus mellifer CCUG 63291
  • assembly level: contig
  • INSDC accession: GCA_042663165
  • NCBI tax ID: 1218492
  • score: 75.75

16S sequences

  • @ref: 21906
  • description: Lactobacillus mellifer strain Bin4N 16S ribosomal RNA gene, partial sequence
  • accession: JX099543
  • length: 1437
  • database: nuccore
  • NCBI tax ID: 1218492

GC content

@refGC-contentmethod
2190639.4sequence analysis
6777039.5genome sequence analysis
6777039.4genome sequence analysis

Literature

@ref: 21906

culture collection no.: DSM 26254, CCUG 63291, JCM 30768

straininfo link

  • @ref: 126262
  • straininfo: 397283

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny24944337Lactobacillus apinorum sp. nov., Lactobacillus mellifer sp. nov., Lactobacillus mellis sp. nov., Lactobacillus melliventris sp. nov., Lactobacillus kimbladii sp. nov., Lactobacillus helsingborgensis sp. nov. and Lactobacillus kullabergensis sp. nov., isolated from the honey stomach of the honeybee Apis mellifera.Olofsson TC, Alsterfjord M, Nilson B, Butler E, Vasquez AInt J Syst Evol Microbiol10.1099/ijs.0.059600-02014Animals, Bacterial Typing Techniques, Base Composition, Bees/*microbiology, DNA, Bacterial/genetics, Digestive System/*microbiology, Fatty Acids/chemistry, Honey, Lactobacillus/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics
Phylogeny33620525Bombilactobacillus apium sp. nov., isolated from the gut of honeybee (Apis cerana).Kang JP, Huo Y, Hoang VA, Yang DU, Yang DC, Kang SCArch Microbiol10.1007/s00203-021-02249-y2021Animals, Bacterial Typing Techniques, Base Composition/genetics, Bees/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genome, Bacterial/genetics, Glycolipids, *Lactobacillaceae/classification/genetics/isolation & purification, Nucleic Acid Hybridization, Peptidoglycan/chemistry, Phospholipids/chemistry, Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNAGenetics
Metabolism36472498Host-microbiome metabolism of a plant toxin in bees.Motta EVS, Gage A, Smith TE, Blake KJ, Kwong WK, Riddington IM, Moran N.Elife10.7554/elife.825952022Ecology, Bifidobacterium, Metabolism, Microbiology, Infectious disease, Apis mellifera, Amygdalin, Microbiome, Amygdalin, Toxins, Biological, Microbiota, Gastrointestinal MicrobiomePathogenicity
Pathogenicity39441627Type VI secretion systems promote intraspecific competition and host interactions in a bee gut symbiont.Motta EVS, Lariviere PJ, Jones KR, Song Y, Moran NA.Proc Natl Acad Sci U S A10.1073/pnas.24148821212024Microbiome, T6ss, Snodgrassella Alvi, Symbiosis, Gastrointestinal Microbiome, Type VI Secretion Systems

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
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
21906Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-26254Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 26254)
62967Curators of the CCUGhttps://www.ccug.se/strain?id=63291Culture Collection University of Gothenburg (CCUG) (CCUG 63291)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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/
124043Isabel Schober, Julia KoblitzData extracted from sequence databases, automatically matched based on designation and taxonomy
126262A. Lissin, I. Schober, J. F. Witte, H. Lüken, A. Podstawka, J. Koblitz, B. Bunk, P. Dawyndt, P. Vandamme, P. de Vos, J. Overmann, L. C. ReimerStrainInfo—the central database for linked microbial strain identifiers10.1093/database/baaf059

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