Strain identifier

BacDive ID: 6838

Type strain: Yes

Species: Leuconostoc gasicomitatum

Strain Designation: TB1-10

Strain history: LMG 18811 <-- P. Vandamme R-2564 <-- K. J. Björkroth TB1-10.

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 6204

BacDive-ID: 6838

DSM-Number: 15947

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

description: Leuconostoc gasicomitatum TB1-10 is an anaerobe bacterium that was isolated from modified-atmosphere packaged, tomato-marinated broiler meat strips.

NCBI tax id

NCBI tax idMatching level
115778subspecies
762550strain

strain history

@refhistory
6204<- D. Janssens, LMG <- P. Vandamme <- J. Bjorkroth; TB1-10
67770LMG 18811 <-- P. Vandamme R-2564 <-- K. J. Björkroth TB1-10.

doi: 10.13145/bacdive6838.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Lactobacillaceae
  • genus: Leuconostoc
  • species: Leuconostoc gasicomitatum
  • full scientific name: Leuconostoc gasicomitatum Björkroth et al. 2001
  • synonyms

    • @ref: 20215
    • synonym: Leuconostoc gelidum subsp. gasicomitatum

@ref: 6204

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Not assigned to order

family: Leuconostocaceae

genus: Leuconostoc

species: Leuconostoc gasicomitatum

full scientific name: Leuconostoc gasicomitatum Björkroth et al. 2001

strain designation: TB1-10

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no97.098
69480100positive

colony morphology

  • @ref: 57035
  • incubation period: 2 days

Culture and growth conditions

culture medium

  • @ref: 6204
  • name: MRS pre-reduced (DSMZ Medium 11b)
  • growth: yes
  • link: https://www.dsmz.de/microorganisms/medium/pdf/DSMZ_Medium11b.pdf

culture temp

@refgrowthtypetemperaturerange
57035positivegrowth20-30
67770positivegrowth22psychrophilic
6204positivegrowth22psychrophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
6204anaerobe
6204microaerophile
57035facultative anaerobe

spore formation

@refspore formationconfidence
69481no100
69480no100

murein

  • @ref: 6204
  • murein short key: A11.05
  • type: A3alpha L-Lys-L-Ala2

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
6204----+++----+++-------++--+-++-+++--+----+---------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
6204modified-atmosphere packaged, tomato-marinated broiler meat stripsHelsinkiFinlandFINEurope
57035Tomato-marinated broiler meat stripsHelsinkiFinlandFINEurope
67770MA-packaged, tomato-marinated broiler meat strips

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Bottled, canned, packed food
#Engineered#Food production#Meat
#Host#Birds#Chicken

taxonmaps

  • @ref: 69479
  • File name: preview.99_561.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_22;96_35;97_36;98_457;99_561&stattab=map
  • Last taxonomy: Leuconostoc
  • 16S sequence: LC483550
  • Sequence Identity:
  • Total samples: 3429
  • soil counts: 427
  • aquatic counts: 487
  • animal counts: 2225
  • plant counts: 290

Safety information

risk assessment

  • @ref: 6204
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
6204Leuconostoc gasicomitatum strain LMG 18811 16S small subunit ribosomal RNA gene, partial sequenceAF2311311494ena762550
67770Leuconostoc gelidum subsp. gasicomitatum gene for 16S ribosomal RNA, partial sequenceLC4835501489ena115778

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Leuconostoc gasicomitatum LMG 18811 type strain: LMG 18811GCA_000196855completencbi762550
66792Leuconostoc gasicomitatum LMG 18811762550.4completepatric762550
66792Leuconostoc gelidum gasicomitatum LMG 18811649633064completeimg762550

GC content

@refGC-contentmethod
620437
6777037thermal denaturation, midpoint method (Tm)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno95.912no
flagellatedno98.012no
gram-positiveyes96.661no
anaerobicno90.681no
aerobicno96.438yes
halophileyes94.74no
spore-formingno94.633no
thermophileno99.871yes
glucose-utilyes86.171no
glucose-fermentyes91.255no

External links

@ref: 6204

culture collection no.: DSM 15947, CCUG 46042, LMG 18811, JCM 12535, CECT 5767

straininfo link

  • @ref: 76303
  • straininfo: 12467

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Genetics21571876Genome sequence of a food spoilage lactic acid bacterium, Leuconostoc gasicomitatum LMG 18811T, in association with specific spoilage reactions.Johansson P, Paulin L, Sade E, Salovuori N, Alatalo ER, Bjorkroth KJ, Auvinen PAppl Environ Microbiol10.1128/AEM.00102-112011Base Composition, Chromosomes, Bacterial, DNA, Bacterial/*chemistry/*genetics, *Food Microbiology, Genome, Bacterial, Leuconostoc/*genetics/isolation & purification/metabolism, Metabolic Networks and Pathways, Molecular Sequence Data, *Sequence Analysis, DNABiotechnology
Phylogeny21705441Leuconostoc miyukkimchii sp. nov., isolated from brown algae (Undaria pinnatifida) kimchi.Lee SH, Park MS, Jung JY, Jeon COInt J Syst Evol Microbiol10.1099/ijs.0.032367-02011Anaerobiosis, Bacterial Typing Techniques, Base Composition, Cluster Analysis, DNA, Bacterial/chemistry/genetics, DNA, Ribosomal/chemistry/genetics, *Food Microbiology, Hydrogen-Ion Concentration, Korea, Leuconostoc/*classification/genetics/*isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Temperature, Undaria/*microbiologyBiotechnology
Phylogeny24431060Reclassification of Leuconostoc gasicomitatum as Leuconostoc gelidum subsp. gasicomitatum comb. nov., description of Leuconostoc gelidum subsp. aenigmaticum subsp. nov., designation of Leuconostoc gelidum subsp. gelidum subsp. nov. and emended description of Leuconostoc gelidum.Rahkila R, De Bruyne K, Johansson P, Vandamme P, Bjorkroth JInt J Syst Evol Microbiol10.1099/ijs.0.058263-02014Animals, Chickens, DNA, Bacterial/genetics, Genes, Bacterial, Leuconostoc/*classification/genetics/isolation & purification, Meat/*microbiology, Molecular Sequence Data, Multilocus Sequence Typing, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Ribotyping, Sequence Analysis, DNA, Swine, TurkeysGenetics

Reference

@idauthorscataloguedoi/urltitle
6204Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15947)https://www.dsmz.de/collection/catalogue/details/culture/DSM-15947
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
57035Curators of the CCUGCulture Collection University of Gothenburg (CCUG) (CCUG 46042)https://www.ccug.se/strain?id=46042
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)
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.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)
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
76303Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID12467.1StrainInfo: A central database for resolving microbial strain identifiers