Strain identifier

BacDive ID: 6822

Type strain: Yes

Species: Leuconostoc mesenteroides subsp. dextranicum

Strain history: CIP <- 1986, DSM <- NCDO <- NIRD <- S. Orla-Jensen, NRRL: strain B-3469, "Betacoccus bovis"

NCBI tax ID(s): 33966 (subspecies)

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General

@ref: 8730

BacDive-ID: 6822

DSM-Number: 20484

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

description: Leuconostoc mesenteroides subsp. dextranicum DSM 20484 is a facultative anaerobe, mesophilic, Gram-positive bacterium of the family Lactobacillaceae.

NCBI tax id

  • NCBI tax id: 33966
  • Matching level: subspecies

strain history

@refhistory
8730<- NCDO <- NIRD <- S. Orla-Jensen
67770NRIC 1539 <-- ATCC 19255 <-- NCDO 529 <-- NIRD <-- S. Orla-Jensen ("Betacoccus bovis").
120900CIP <- 1986, DSM <- NCDO <- NIRD <- S. Orla-Jensen, NRRL: strain B-3469, "Betacoccus bovis"

doi: 10.13145/bacdive6822.20250331.9.3

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 mesenteroides subsp. dextranicum
  • full scientific name: Leuconostoc mesenteroides subsp. dextranicum (Beijerinck 1912) Garvie 1983

  • synonyms

    @refsynonym
    20215Lactococcus dextranicus
    20215Leuconostoc dextranicum

@ref: 8730

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Leuconostocaceae

genus: Leuconostoc

species: Leuconostoc mesenteroides subsp. dextranicum

full scientific name: Leuconostoc mesenteroides subsp. dextranicum (Beijerinck 1912) Garvie 1983

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
120900positivecoccus-shapedno
125438no93
125438positive94.251

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8730MRS 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
34909MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
120900CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperature
8730positivegrowth30
34909positivegrowth30
67770positivegrowth30
120900positivegrowth10-37
120900nogrowth45

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
120900facultative anaerobe
125439obligate aerobe96.6

halophily

@refsaltgrowthtested relationconcentration
120900NaClpositivegrowth0-4 %
120900NaClnogrowth6 %
120900NaClnogrowth8 %
120900NaClnogrowth10 %

murein

  • @ref: 8730
  • murein short key: A11.20
  • type: A3alpha L-Lys-L-Ser-L-Ala2

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12090016947citrate-carbon source
12090017632nitrate-reduction
12090016301nitrite-reduction
12090017632nitrate+respiration
68371Potassium 5-ketogluconate-builds acid from
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
68371320061methyl alpha-D-glucopyranoside-builds acid from
68371Potassium 2-ketogluconate-builds acid from
6837124265gluconate-builds acid from
6837118403L-arabitol-builds acid from
6837118333D-arabitol-builds acid from
6837118287L-fucose-builds acid from
6837128847D-fucose-builds acid from
6837116443D-tagatose-builds acid from
6837162318D-lyxose-builds acid from
6837132528turanose-builds acid from
6837128066gentiobiose-builds acid from
6837117151xylitol-builds acid from
6837128087glycogen-builds acid from
6837128017starch-builds acid from
6837116634raffinose-builds acid from
683716731melezitose-builds acid from
6837115443inulin-builds acid from
6837117992sucrose+builds acid from
6837128053melibiose-builds acid from
6837117716lactose-builds acid from
6837117306maltose-builds acid from
6837117057cellobiose-builds acid from
6837117814salicin-builds acid from
683714853esculin-builds acid from
6837159640N-acetylglucosamine+builds acid from
6837143943methyl alpha-D-mannoside-builds acid from
6837117924D-sorbitol-builds acid from
6837116899D-mannitol-builds acid from
6837117268myo-inositol-builds acid from
6837116813galactitol-builds acid from
6837162345L-rhamnose-builds acid from
6837117266L-sorbose-builds acid from
6837116024D-mannose+builds acid from
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose-builds acid from
6837174863methyl beta-D-xylopyranoside-builds acid from
6837115963ribitol-builds acid from
6837165328L-xylose-builds acid from
6837165327D-xylose-builds acid from
6837116988D-ribose-builds acid from
6837130849L-arabinose-builds acid from
6837117108D-arabinose-builds acid from
6837117113erythritol-builds acid from
6837117754glycerol-builds acid from

antibiotic resistance

  • @ref: 120900
  • metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
  • is antibiotic: yes
  • is sensitive: no
  • is resistant: yes

metabolite production

  • @ref: 120900
  • metabolite: polysaccharides
  • production: yes

metabolite tests

  • @ref: 120900
  • 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
68382alpha-galactosidase-3.2.1.22
68382beta-galactosidase-3.2.1.23
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
68382lipase (C 14)-
68382esterase lipase (C 8)+
68382alkaline phosphatase+3.1.3.1
68382esterase (C 4)+
120900oxidase-
120900alcohol dehydrogenase-1.1.1.1
120900gelatinase-
120900caseinase-3.4.21.50
120900catalase-1.11.1.6
120900lysine decarboxylase-4.1.1.18
120900ornithine decarboxylase-4.1.1.17
68382valine arylamidase-
68382leucine arylamidase+3.4.11.1

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
120900-+++-+--+-++--------

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
8730-----------+++--------+--------++-----------------
8730-----------+++--------+--------++-----------------
8730-----------+++--------+--------++-----------------
120900----------+++--------+--------++/------------------

Isolation, sampling and environmental information

taxonmaps

  • @ref: 69479
  • File name: preview.99_41.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_22;96_35;97_36;98_39;99_41&stattab=map
  • Last taxonomy: Leuconostoc
  • 16S sequence: LC096223
  • Sequence Identity:
  • Total samples: 44756
  • soil counts: 3647
  • aquatic counts: 6333
  • animal counts: 32069
  • plant counts: 2707

Safety information

risk assessment

@refpathogenicity humanbiosafety levelbiosafety level comment
8730yes, in single cases1Risk group (German classification)
1209001Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
20218Leuconostoc mesenteroides strain ATCC 19255 16S ribosomal RNA gene, partial sequenceKC510252804nuccore1245
20218Leuconostoc mesenteroides subsp. dextranicum strain CCUG 30065 16S-23S ribosomal RNA intergenic spacer, complete sequenceJQ012781371nuccore33966
20218Leuconostoc mesenteroides subsp. dextranicum gene for 16S rRNA, partial sequence, strain: JCM 9700AB5969401473nuccore33966
20218Leuconostoc mesenteroides strain LMG 6908 16S-23S ribosomal RNA intergenic spacer, partial sequenceHM443964374nuccore1245
20218Leuconostoc mesenteroides subsp. dextranicum gene for 16S rRNA, partial sequence, strain: NBRC 100495AB6811931476nuccore33966
20218Leuconostoc mesenteroides gene for 16S ribosomal RNA, partial sequenceD31671161nuccore33966
20218Leuconostoc mesenteroides DNA for 16S ribosomal RNA, strain NCFB 529AB0232441449nuccore33966
67770Leuconostoc mesenteroides subsp. dextranicum gene for 16S ribosomal RNA, partial sequence, strain: JCM 9700LC0962231493nuccore33966
124043Leuconostoc mesenteroides DNA for 16S ribosomal RNA, strain NRIC 1539.AB0232461451nuccore33966

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Leuconostoc mesenteroides subsp. dextranicum DSM 20484GCA_001047695completencbi33966
66792Leuconostoc mesenteroides subsp. dextranicum strain DSM 2048433966.9plasmidpatric33966
66792Leuconostoc mesenteroides subsp. dextranicum strain DSM 2048433966.4completepatric33966
66792Leuconostoc mesenteroides subsp. dextranicum strain NBRC 10049533966.10wgspatric33966
66792Leuconostoc mesenteroides dextranicum DSM 204842645727607completeimg33966
67770Leuconostoc mesenteroides subsp. dextranicum NBRC 100495GCA_007990145contigncbi33966

GC content

  • @ref: 8730
  • GC-content: 40.8

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125438gram-positivegram-positivePositive reaction to Gram-stainingyes94.251no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no85.725no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no95.257no
125438spore-formingspore-formingAbility to form endo- or exosporesno89.678no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno96.961yes
125438motile2+flagellatedAbility to perform flagellated movementno93no
125439BacteriaNetspore_formationAbility to form endo- or exosporesno52
125439BacteriaNetmotilityAbility to perform movementyes59.1
125439BacteriaNetgram_stainReaction to gram-stainingpositive80.5
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe96.6

External links

@ref: 8730

culture collection no.: DSM 20484, ATCC 19255, CCM 2086, NCDO 529, NRRL B-3469, JCM 9700, CCUG 21966, CCUG 30065, CECT 912, CGMCC 1.2141, CIP 102423, IMET 10694, KCTC 3530, LMG 6908, NBRC 100495, NCFB 529, NCIMB 12007, NRIC 1539, VKM B-1225, VTT E-93492, VKM 1225

straininfo link

  • @ref: 76288
  • straininfo: 359518

literature

  • topic: Phylogeny
  • Pubmed-ID: 32228772
  • title: Leuconostoc litchii sp. nov., a novel lactic acid bacterium isolated from lychee.
  • authors: Chen YS, Wang LT, Wu YC, Mori K, Tamura T, Chang CH, Chang YC, Wu HC, Yi HH, Wang PY
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.003938
  • year: 2020
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fermentation, Fruit/*microbiology, Lactic Acid, Leuconostoc/*classification/isolation & purification, Leuconostoc mesenteroides, Litchi/*microbiology, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Taiwan
  • topic2: Transcriptome

Reference

@idauthorscataloguedoi/urltitlejournalpubmed
8730Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20484)https://www.dsmz.de/collection/catalogue/details/culture/DSM-20484
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
34909Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/14108
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
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
76288Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID359518.1StrainInfo: A central database for resolving microbial strain identifiers
120900Curators of the CIPCollection of Institut Pasteur (CIP 102423)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20102423
124043Isabel Schober, Julia KoblitzData extracted from sequence databases, automatically matched based on designation and taxonomy
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg Overmann10.1101/2024.08.12.607695Predicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardyhttps://github.com/GenomeNet/deepGdeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1