Strain identifier

BacDive ID: 6692

Type strain: Yes

Species: Liquorilactobacillus sucicola

Strain history: T. Irisawa NRIC 0736.

NCBI tax ID(s): 519050 (species)

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General

@ref: 15656

BacDive-ID: 6692

DSM-Number: 21376

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

description: Liquorilactobacillus sucicola DSM 21376 is a microaerophile, mesophilic, Gram-positive bacterium that was isolated from sap of Quercus sp..

NCBI tax id

  • NCBI tax id: 519050
  • Matching level: species

strain history

@refhistory
15656<- T. Irisawa, NODAI Culture Collection Center, Tokyo University of Agriculture, Japan; NRIC 0736
67770T. Irisawa NRIC 0736.

doi: 10.13145/bacdive6692.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Lactobacillaceae
  • genus: Liquorilactobacillus
  • species: Liquorilactobacillus sucicola
  • full scientific name: Liquorilactobacillus sucicola (Irisawa and Okada 2009) Zheng et al. 2020

  • synonyms

    • @ref: 20215
    • synonym: Lactobacillus sucicola

@ref: 15656

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Liquorilactobacillus

species: Liquorilactobacillus sucicola

full scientific name: Liquorilactobacillus sucicola (Irisawa and Okada 2009) Zheng et al. 2020

type strain: yes

Morphology

cell morphology

@refgram staincell lengthcell widthcell shapemotilityconfidence
29109positive2.5 µm1 µmrod-shapedyes
69480positive100

pigmentation

  • @ref: 29109
  • production: yes

Culture and growth conditions

culture medium

  • @ref: 15656
  • name: MRS MEDIUM (DSMZ Medium 11)
  • growth: yes
  • link: https://mediadive.dsmz.de/medium/11
  • composition: Name: 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

culture temp

@refgrowthtypetemperaturerange
15656positivegrowth30mesophilic
29109positivegrowth15-45
29109positiveoptimum30mesophilic
67770positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
15656microaerophile
29109facultative anaerobe

spore formation

  • @ref: 69480
  • spore formation: no
  • confidence: 99.904

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
2910928757fructose+carbon source
2910928260galactose+carbon source
2910917234glucose+carbon source
2910917306maltose+carbon source
2910929864mannitol+carbon source
2910937684mannose+carbon source
2910928053melibiose+carbon source
2910916634raffinose+carbon source
2910917814salicin+carbon source
2910930911sorbitol+carbon source
2910917992sucrose+carbon source
2910927082trehalose+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
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

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
15656----------++++-+--++-++++++-+-+++--+---++---------
15656----------++++-+--++-++++++-+-+++------++---------

Isolation, sampling and environmental information

isolation

@refsample typehost speciesgeographic locationcountryorigin.countrycontinent
15656sap of Quercus sp.QuercusKagawa Prefecture, Awashima IslandJapanJPNAsia
67770Oak tree (Quercus sp.) sapQuercus sp.Awashima Island, KagawaJapanJPNAsia

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Tree
#Host Body Product#Plant#Plant sap (Flux)

taxonmaps

  • @ref: 69479
  • File name: preview.99_2233.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_45;96_1207;97_1430;98_1741;99_2233&stattab=map
  • Last taxonomy: Liquorilactobacillus
  • 16S sequence: LC483560
  • Sequence Identity:
  • Total samples: 1924
  • soil counts: 39
  • aquatic counts: 57
  • animal counts: 1693
  • plant counts: 135

Safety information

risk assessment

  • @ref: 15656
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
15656Lactobacillus sucicola gene for 16S rRNA, partial sequenceAB4339821503ena519050
67770Lactobacillus sucicola gene for 16S ribosomal RNA, partial sequenceLC4835601501ena519050

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus sucicola DSM 21376 = JCM 154571423806.3wgspatric1423806
66792Lactobacillus sucicola JCM 154571236534.3wgspatric1423806
66792Liquorilactobacillus sucicola DSM 213762657245546draftimg1423806
66792Liquorilactobacillus sucicola JCM 154572609460075draftimg1423806
67770Liquorilactobacillus sucicola DSM 21376 = JCM 15457GCA_001436705scaffoldncbi1423806
67770Liquorilactobacillus sucicola DSM 21376 = JCM 15457GCA_000612445contigncbi1423806

GC content

@refGC-contentmethod
1565638high performance liquid chromatography (HPLC)
2910938
6777038.5genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingyes78no
motileyes74.804yes
gram-positiveyes91.989yes
anaerobicno88.615no
halophileyes74.113no
spore-formingno90.435no
thermophileno98.771no
glucose-utilyes83.954yes
aerobicno95.894yes
flagellatedno75.068no
glucose-fermentyes84.835no

External links

@ref: 15656

culture collection no.: DSM 21376, JCM 15457, NRIC 0736

straininfo link

  • @ref: 76166
  • straininfo: 364716

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny19625442Lactobacillus sucicola sp. nov., a motile lactic acid bacterium isolated from oak tree (Quercus sp.) sap.Irisawa T, Okada SInt J Syst Evol Microbiol10.1099/ijs.0.006478-02009DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Lactic Acid/*metabolism, Lactobacillus/classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, Quercus/*microbiology, RNA, Ribosomal, 16S/geneticsMetabolism
Genetics24812225Draft Genome Sequence of Lactobacillus sucicola JCM 15457T, a Motile Lactic Acid Bacterium Isolated from Oak Sap.Irisawa T, Oshima K, Suda W, Kitahara M, Sakamoto M, Kitamura K, Iida T, Hattori M, Ohkuma MGenome Announc10.1128/genomeA.00403-142014Phylogeny

Reference

@idauthorscataloguedoi/urltitleID_cross_referencepubmed
15656Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 21376)https://www.dsmz.de/collection/catalogue/details/culture/DSM-21376
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
29109Barberan A, Caceres Velazquez H, Jones S, Fierer N.10.1128/mSphere.00237-17Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information2553728776041
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)
76166Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID364716.1StrainInfo: A central database for resolving microbial strain identifiers