Strain identifier

BacDive ID: 6840

Type strain: Yes

Species: Leuconostoc palmae

Strain history: CIP <- 2009, M.A. Ehrmann, Munich Univ., Freising, Germany: strain TMW 2.694

NCBI tax ID(s): 501487 (species)

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General

@ref: 15490

BacDive-ID: 6840

DSM-Number: 21144

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

description: Leuconostoc palmae DSM 21144 is a microaerophile, mesophilic, Gram-positive bacterium that was isolated from palm wine.

NCBI tax id

  • NCBI tax id: 501487
  • Matching level: species

strain history

@refhistory
333462009, M. A. Ehrmann, München Univ., Freising, Germany: strain TMW 2.694
15490<- M. Ehrmann, TU Munich, Freising-Weihenstephan, Germany; TMW 2.694
67770LMG 24510 <-- M. Ehrmann TMW 2.694.
121515CIP <- 2009, M.A. Ehrmann, Munich Univ., Freising, Germany: strain TMW 2.694

doi: 10.13145/bacdive6840.20230509.8.1

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 palmae
  • full scientific name: Leuconostoc palmae Ehrmann et al. 2009

@ref: 15490

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Leuconostocaceae

genus: Leuconostoc

species: Leuconostoc palmae

full scientific name: Leuconostoc palmae Ehrmann et al. 2009

type strain: yes

Morphology

cell morphology

@refgram staincell shapemotilityconfidence
29091positivecoccus-shapedno
69480no97.853
69480positive100
121515positivecoccus-shapedno

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
15490MRS 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
33346MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
121515CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperaturerange
15490positivegrowth30mesophilic
29091positivegrowth15-45
29091positiveoptimum30mesophilic
33346positivegrowth30mesophilic
67770positivegrowth30mesophilic

culture pH

  • @ref: 29091
  • ability: positive
  • type: optimum
  • pH: 6.8

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
15490microaerophile
29091facultative anaerobe

spore formation

@refspore formationconfidence
29091no
69481no100
69480no100

halophily

  • @ref: 29091
  • salt: NaCl
  • growth: positive
  • tested relation: growth
  • concentration: <3 %

murein

  • @ref: 15490
  • murein short key: A11.05
  • type: A3alpha L-Lys-L-Ala2

observation

  • @ref: 29091
  • observation: aggregates in chains

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2909128757fructose+carbon source
2909117234glucose+carbon source
2909124996lactate+carbon source
2909137684mannose+carbon source
2909117992sucrose+carbon source
68371Potassium 5-ketogluconate-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
6837127082trehalose-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
6837118305arbutin-builds acid from
6837127613amygdalin-builds acid from
6837159640N-acetylglucosamine+builds acid from
68371320061methyl alpha-D-glucopyranoside-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
12151517632nitrate-reduction
12151516301nitrite-reduction

metabolite production

  • @ref: 121515
  • Chebi-ID: 35581
  • metabolite: indole
  • production: no

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
121515oxidase-
121515catalase-1.11.1.6
121515urease-3.5.1.5

API zym

@refControlAlkaline phosphataseEsteraseEsterase LipaseLipaseLeucine arylamidaseValine arylamidaseCystine arylamidaseTrypsinalpha- ChymotrypsinAcid phosphataseNaphthol-AS-BI-phosphohydrolasealpha- Galactosidasebeta- Galactosidasebeta- Glucuronidasealpha- Glucosidasebeta- GlucosidaseN-acetyl-beta- glucosaminidasealpha- Mannosidasealpha- Fucosidase
121515--------+-+---------

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
15490-----------+++--------+--+-----+------------------

Isolation, sampling and environmental information

isolation

@refsample typecountryorigin.countrycontinentisolation date
15490palm wineSenegalSENAfrica
67770Palm wineSenegalSENAfrica
121515Food, Palm, wineGermanyDEUEurope2008

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Beverage
#Engineered#Food production#Fermented
#Host#Plants#Tree
#Host Body Product#Plant#Plant sap (Flux)

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
154901Risk group (German classification)
1215151Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
15490Leuconostoc palmae partial 16S rRNA gene, type strain TMW 2.694AM9402251531ena501487
67770Leuconostoc palmae JCM 16944 gene for 16S rRNA, partial sequenceLC5198691483ena501487

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Leuconostoc palmae JCM 16944GCA_019656075contigncbi501487
66792Leuconostoc palmae strain JCM 16944501487.4wgspatric501487

GC content

@refGC-contentmethod
1549036.4high performance liquid chromatography (HPLC)
2909136.4

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
gram-positiveyes95.199yes
anaerobicno87.368yes
halophileyes95.54no
spore-formingno96.423yes
glucose-utilyes87.965yes
thermophileno99.619yes
motileno97.155yes
aerobicno96.647yes
flagellatedno98.638yes
glucose-fermentyes86.457no

External links

@ref: 15490

culture collection no.: DSM 21144, LMG 24510, TMW 2.694, JCM 16944, CIP 110077

straininfo link

  • @ref: 76305
  • straininfo: 343505

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19406772Leuconostoc palmae sp. nov., a novel lactic acid bacterium isolated from palm wine.Ehrmann MA, Freiding S, Vogel RFInt J Syst Evol Microbiol10.1099/ijs.0.005983-02009*Arecaceae, Bacterial Proteins/genetics, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/analysis, DNA, Ribosomal/analysis, Fermentation, Genes, rRNA, Lactic Acid/metabolism, Leuconostoc/*classification/genetics/isolation & purification/physiology, Molecular Sequence Data, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Rec A Recombinases/genetics, Senegal, Sequence Analysis, DNA, Species Specificity, Wine/*microbiologyGenetics
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

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
15490Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21144)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21144
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
29091Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2552028776041
33346Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7894
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
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
76305Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID343505.1StrainInfo: A central database for resolving microbial strain identifiers
121515Curators of the CIPCollection of Institut Pasteur (CIP 110077)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110077