Strain identifier

BacDive ID: 6687

Type strain: Yes

Species: Lentilactobacillus sunkii

Strain history: CIP <- 2009, JCM <- K. Watanabe, Yakult Central Inst. Microbiol. Res., Tokyo, Japan: strain YIT 11161

NCBI tax ID(s): 1423808 (strain), 481719 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 8.1 (current version):
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 2:
version 1:
version 8.1 (current version)

General

@ref: 8376

BacDive-ID: 6687

DSM-Number: 19904

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

description: Lentilactobacillus sunkii DSM 19904 is a microaerophile, mesophilic, Gram-positive bacterium that was isolated from non-salted pickle solution used in production of sunki .

NCBI tax id

NCBI tax idMatching level
1423808strain
481719species

strain history

@refhistory
8376<- K. Watanabe, Yakult Central Inst. Microbiol. Res., Tokyo, Japan; YIT 11161
67770K. Watanabe YIT 11161.
123389CIP <- 2009, JCM <- K. Watanabe, Yakult Central Inst. Microbiol. Res., Tokyo, Japan: strain YIT 11161

doi: 10.13145/bacdive6687.20230509.8.1

Name and taxonomic classification

LPSN

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

  • synonyms

    • @ref: 20215
    • synonym: Lactobacillus sunkii

@ref: 8376

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Lactobacillaceae

genus: Lentilactobacillus

species: Lentilactobacillus sunkii

full scientific name: Lentilactobacillus sunkii (Watanabe et al. 2009) Zheng et al. 2020

type strain: yes

Morphology

cell morphology

  • @ref: 123389
  • gram stain: positive
  • cell shape: rod-shaped
  • motility: no

Culture and growth conditions

culture medium

@refnamegrowthlinkcomposition
8376MRS 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
40628MEDIUM 20 - for Anaerobic bacteriayesAgar (15.000 g);Glucose (5.000 g);Yeast extract (20.000 g);Tryptone (30.000 g);Cysteine hydrochloride (0.500 g);distilled water (1000.000 ml);Hemin solution -M00149 (25.000 ml)
123389CIP Medium 20yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=20
123389CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperaturerange
8376positivegrowth30mesophilic
40628positivegrowth37mesophilic
67770positivegrowth30mesophilic
123389positivegrowth15-37
123389nogrowth45thermophilic

Physiology and metabolism

oxygen tolerance

@refoxygen tolerance
8376microaerophile
123389obligate aerobe

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
12338917632nitrate-reduction
12338916301nitrite-reduction
12338917632nitrate+respiration

metabolite tests

  • @ref: 123389
  • 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
123389oxidase-
123389alcohol dehydrogenase+1.1.1.1
123389catalase-1.11.1.6
123389lysine decarboxylase-4.1.1.18
123389ornithine 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
123389-+---+----++++++----

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinent
8376non-salted pickle solution used in production of sunki (Japanese traditional fermented leaves and stems of red turnips)Kiso county, Nagano prefectureJapanJPNAsia
67770Sunki, traditional Japanese picklesJapanJPNAsia
123389Sunki, non-salted pickle solutionJapanJPNAsia

isolation source categories

Cat1Cat2Cat3
#Engineered#Food production#Vegetable (incl. Grains)
#Engineered#Food production#Fermented

taxonmaps

  • @ref: 69479
  • File name: preview.99_1222.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_45;96_367;97_831;98_967;99_1222&stattab=map
  • Last taxonomy: Lentilactobacillus
  • 16S sequence: LC096239
  • Sequence Identity:
  • Total samples: 10571
  • soil counts: 1041
  • aquatic counts: 1599
  • animal counts: 7375
  • plant counts: 556

Safety information

risk assessment

@refbiosafety levelbiosafety level comment
83761Risk group (German classification)
1233891Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
8376Lactobacillus sunkii gene for 16S rRNA, partial sequence, strain: YIT 11161 (= NRIC 0744, = JCM 15039, = DSM 19904)AB3663851567ena481719
67770Lactobacillus sunkii gene for 16S ribosomal RNA, partial sequence, strain: JCM 15039LC0962391510ena481719

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactobacillus sunkii DSM 199041423808.3wgspatric1423808
66792Lentilactobacillus sunkii DSM 199042660238337draftimg1423808
67770Lentilactobacillus sunkii DSM 19904GCA_001435575contigncbi1423808

GC content

@refGC-contentmethod
837639.2high performance liquid chromatography (HPLC)
6777042.1genome sequence analysis

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
motileno95.675no
gram-positiveyes97.916no
anaerobicno93.999yes
halophileyes93.198no
spore-formingno93.948no
thermophileno99.006yes
glucose-utilyes88.558no
aerobicno93.305no
flagellatedno98.476no
glucose-fermentyes87.197no

External links

@ref: 8376

culture collection no.: DSM 19904, JCM 15039, NRIC 0744, YIT 11161, CIP 110028

straininfo link

  • @ref: 76161
  • straininfo: 362309

literature

  • topic: Phylogeny
  • Pubmed-ID: 19329601
  • title: Lactobacillus kisonensis sp. nov., Lactobacillus otakiensis sp. nov., Lactobacillus rapi sp. nov. and Lactobacillus sunkii sp. nov., heterofermentative species isolated from sunki, a traditional Japanese pickle.
  • authors: Watanabe K, Fujimoto J, Tomii Y, Sasamoto M, Makino H, Kudo Y, Okada S
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijs.0.004689-0
  • year: 2009
  • mesh: Bacterial Typing Techniques, DNA Fingerprinting, DNA, Bacterial/chemistry/genetics, *Food Microbiology, Japan, Lactobacillus/*classification/*isolation & purification, Molecular Sequence Data, Polymorphism, Restriction Fragment Length, Rec A Recombinases/genetics, Sequence Analysis, DNA
  • topic2: Biotechnology

Reference

@idauthorscataloguedoi/urltitle
8376Curators of the DSMZLeibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19904)https://www.dsmz.de/collection/catalogue/details/culture/DSM-19904
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
40628Curators of the CIPhttps://brclims.pasteur.fr/brcWeb/souche/detail/1/7840
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/
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
76161Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.10.60712/SI-ID362309.1StrainInfo: A central database for resolving microbial strain identifiers
123389Curators of the CIPCollection of Institut Pasteur (CIP 110028)https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20110028