Strain identifier

BacDive ID: 6421

Type strain: Yes

Species: Loigolactobacillus bifermentans

Strain Designation: N2

Strain history: CIP <- 1987, DSM <- T.E. Galesloot: strain N2

NCBI tax ID(s): 1423726 (strain), 1607 (species)

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General

@ref: 8418

BacDive-ID: 6421

DSM-Number: 20003

keywords: genome sequence, 16S sequence, Bacteria, anaerobe, Gram-positive, alcohol production

description: Loigolactobacillus bifermentans N2 is an anaerobe, Gram-positive bacterium that produces alcohol and was isolated from blown cheese.

NCBI tax id

NCBI tax idMatching level
1607species
1423726strain

strain history

@refhistory
8418<- T.E. Galesloot, N2
67770T. Mitsuoka S8-13 <-- DSM 20003 <-- T. E. Galesloot N2.
116802CIP <- 1987, DSM <- T.E. Galesloot: strain N2

doi: 10.13145/bacdive6421.20240916.9.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Lactobacillaceae
  • genus: Loigolactobacillus
  • species: Loigolactobacillus bifermentans
  • full scientific name: Loigolactobacillus bifermentans (Kandler et al. 1983 ex Pette and van Beynum 1943) Zheng et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Lactobacillus bifermentans

@ref: 8418

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Loigolactobacillus

species: Loigolactobacillus bifermentans

full scientific name: Loigolactobacillus bifermentans (Kandler et al. 1983) Zheng et al. 2020

strain designation: N2

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
116802positiverod-shapedno
69480positive90.754

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8418MRS MEDIUM (DSMZ Medium 11)yeshttps://mediadive.dsmz.de/medium/11Name: 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
40459MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
116802CIP Medium 41yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=41
116802CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperature
8418positivegrowth30
40459positivegrowth30
50917positivegrowth30-37
67770positivegrowth30
116802positivegrowth15-37
116802nogrowth10
116802nogrowth45

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
50917anaerobe
116802facultative anaerobe

compound production

@refcompound
8418acetic acid
8418carbon dioxide
8418ethanol
8418hydrogen

murein

  • @ref: 8418
  • 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
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
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
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-mannitol+builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
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
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754
116802nitrate-reduction17632
116802nitrite-reduction16301
116802nitrate+respiration17632

metabolite tests

  • @ref: 116802
  • Chebi-ID: 15688
  • metabolite: acetoin
  • voges-proskauer-test: -

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
116802oxidase-
116802alcohol dehydrogenase-1.1.1.1
116802catalase-1.11.1.6
116802lysine decarboxylase-4.1.1.18
116802ornithine decarboxylase-4.1.1.17

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
116802-----++---++--------

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
8418-----+/-----++++-+/---++--+-----+---------+------+----
116802---------++++----++/---+-----+---------+/-------+/-----

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinent
8418blown cheese
50917Blown cheese
116802Food, Dutch cheese with crack formationNetherlandsNLDEurope

isolation source categories

  • Cat1: #Engineered
  • Cat2: #Food production
  • Cat3: #Dairy product

taxonmaps

  • @ref: 69479
  • File name: preview.99_1675.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_45;96_953;97_1112;98_1323;99_1675&stattab=map
  • Last taxonomy: Loigolactobacillus bifermentans subclade
  • 16S sequence: LC063165
  • Sequence Identity:
  • Total samples: 657
  • soil counts: 49
  • aquatic counts: 67
  • animal counts: 504
  • plant counts: 37

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
84181Risk group (German classification)
1168021Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Lactobacillus bifermentans strain CIP 102811 16S ribosomal RNA gene, complete sequenceJN1753301500nuccore1607
20218Lactobacillus bifermentans 16S ribosomal RNAM588091574nuccore1607
20218Lactobacillus bifermentans gene for 16S rRNA, partial sequence, strain: JCM 1094AB289045661nuccore1607
20218Lactobacillus bifermentans gene for 16S ribosomal RNA, partial sequenceD31680236nuccore1607
20218Lactobacillus bifermentans strain LMG 9845 16S-23S ribosomal RNA intergenic spacer and 23S ribosomal RNA gene, partial sequenceEU161606796nuccore1607
67770Lactobacillus bifermentans gene for 16S ribosomal RNA, partial sequence, strain: JCM 1094LC0631651531nuccore1607

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus bifermentans DSM 200031423726.3wgspatric1423726
66792Loigolactobacillus bifermentans DSM 200032657245519draftimg1423726
67770Loigolactobacillus bifermentans DSM 20003GCA_001434575scaffoldncbi1423726

GC content

@refGC-contentmethod
841845.0
6777044.3genome sequence analysis
6777045

Genome-based predictions

predictions

@reftraitmodeldescriptionpredictionconfidencetraining_data
69480gram-positivegram-positivePositive reaction to Gram-stainingyes90.754no
69480anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no74.436no
69480spore-formingspore-formingAbility to form endo- or exosporesno78.736no
69480aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no91.069no
69480thermophilicthermophileAbility to grow at temperatures above or equal to 45°Cno95.985yes
69480flagellatedmotile2+Ability to perform flagellated movementno89.432no

External links

@ref: 8418

culture collection no.: CCUG 32234, DSM 20003, ATCC 35409, JCM 1094, BCRC 12934, CGMCC 1.1876, CIP 102811, KCTC 5061, LMG 9845, NCFB 2736, NCIMB 12863, NCDO 2736

straininfo link

  • @ref: 75896
  • straininfo: 92287

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8418Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20003)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20003
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
20218Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P.10.1016/j.syapm.2013.11.002StrainInfo introduces electronic passports for microorganisms.Syst Appl Microbiol. 37: 42-50 201424321274
40459Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14539
50917Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 32234)https://www.ccug.se/strain?id=32234
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)
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg10.1093/nar/gkaa1025BRENDA, the ELIXIR core data resource in 2021: new developments and updatesNucleic Acids Res. 49: D498-D508 202033211880
67770Curators of the JCMhttps://jcm.brc.riken.jp/en/
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
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)
75896Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID92287.1StrainInfo: A central database for resolving microbial strain identifiers
116802Curators of the CIPCollection of Institut Pasteur (CIP 102811)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20102811