Strain identifier

BacDive ID: 167746

Type strain: Yes

Species: Lactococcus kimchii

Strain Designation: S-13

NCBI tax ID(s): 2568007 (species)

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General

@ref: 20215

BacDive-ID: 167746

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

description: Lactococcus kimchii S-13 is a facultative anaerobe, Gram-positive, coccus-shaped bacterium that was isolated from randomly bought cabbage kimchi market.

NCBI tax id

  • NCBI tax id: 2568007
  • Matching level: species

doi: 10.13145/bacdive167746.20230509.8.1

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Streptococcaceae
  • genus: Lactococcus
  • species: Lactococcus kimchii
  • full scientific name: Lactococcus kimchii Pheng et al. 2020

@ref: 20215

domain: Bacteria

phylum: Bacillota

class: Bacilli

order: Lactobacillales

family: Streptococcaceae

genus: Lactococcus

species: Lactococcus kimchii

full scientific name: Lactococcus kimchii Pheng et al. 2020

strain designation: S-13

type strain: yes

Morphology

cell morphology

  • @ref: 69515
  • gram stain: positive
  • cell shape: coccus-shaped

Culture and growth conditions

culture medium

@refnamegrowth
69515Trypticase Soy Agar (TSA)yes
69515MRSyes

culture temp

@refgrowthtypetemperaturerange
69515positivegrowth15.0-37.0
69515nogrowth10psychrophilic
69515nogrowth45thermophilic
69515positiveoptimum25.0-30.0mesophilic

culture pH

@refabilitytypepH
69515positivegrowth5.0-7.0
69515positiveoptimum6.0-7.0

Physiology and metabolism

oxygen tolerance

  • @ref: 69515
  • oxygen tolerance: facultative anaerobe

halophily

@refsaltgrowthtested relationconcentration
69515NaClpositivegrowth0.0-3.0 %(w/v)
69515NaClpositiveoptimum0.0-1.0 %(w/v)

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
6951517108D-arabinose-builds acid from
6951518333D-arabitol-builds acid from
6951528847D-fucose-builds acid from
6951562318D-lyxose-builds acid from
6951517924D-sorbitol-builds acid from
6951516443D-tagatose-builds acid from
6951517113erythritol-builds acid from
6951516813galactitol-builds acid from
6951524265gluconate-builds acid from
6951517754glycerol-builds acid from
6951528087glycogen-builds acid from
6951515443inulin-builds acid from
6951518403L-arabitol-builds acid from
6951518287L-fucose-builds acid from
6951562345L-rhamnose-builds acid from
6951517266L-sorbose-builds acid from
6951565328L-xylose-builds acid from
695156731melezitose-builds acid from
6951517268myo-inositol-builds acid from
6951515963ribitol-builds acid from
6951517992sucrose-builds acid from
6951532528turanose-builds acid from
6951517151xylitol-builds acid from
6951527613amygdalin+builds acid from
6951518305arbutin+builds acid from
6951517057cellobiose+builds acid from
6951515824D-fructose+builds acid from
6951512936D-galactose+builds acid from
6951517634D-glucose+builds acid from
6951516899D-mannitol+builds acid from
6951516024D-mannose+builds acid from
6951565327D-xylose+builds acid from
6951528066gentiobiose+builds acid from
6951530849L-arabinose+builds acid from
6951517716lactose+builds acid from
6951517306maltose+builds acid from
6951528053melibiose+builds acid from
6951517814salicin+builds acid from
6951528017starch+builds acid from
6951527082trehalose+builds acid from

enzymes

@refvalueactivityec
69515acid phosphatase+3.1.3.2
69515cystine arylamidase+3.4.11.3
69515esterase (C 4)+
69515esterase Lipase (C 8)+
69515alpha-glucosidase+3.2.1.20
69515leucine arylamidase+3.4.11.1
69515naphthol-AS-BI-phosphohydrolase+
69515valine arylamidase+
69515lipase (C 14)+/-
69515N-acetyl-beta-glucosaminidase-3.2.1.52
69515alkaline phosphatase-3.1.3.1
69515alpha-chymotrypsin-3.4.21.1
69515alpha-fucosidase-3.2.1.51
69515alpha-galactosidase-3.2.1.22
69515alpha-mannosidase-3.2.1.24
69515beta-glucosidase-3.2.1.21
69515beta-glucuronidase-3.2.1.31
69515trypsin-3.4.21.4

fatty acid profile

  • fatty acids

    @reffatty acidpercentage
    69515C14:015.3
    69515C16:046.4
    69515C16:1 w7c / C16:1 w6c4.9
    69515C18:00.7
    69515C18:1 w7c / C18:1 w6c6.8
    69515cyclo-C17:01.6
    69515cyclo-C19:0 w8c23.6
  • type of FA analysis: whole cell analysis
  • incubation medium: TSA
  • agar/liquid: agar
  • incubation temperature: 30
  • incubation time: 2
  • software version: Sherlock 6.0
  • library/peak naming table: TSBA 6.0
  • system: MIS MIDI
  • instrument: gas chromatography
  • cutoff value:

Isolation, sampling and environmental information

isolation

  • @ref: 69515
  • sample type: randomly bought cabbage kimchi market
  • geographic location: Seoul
  • country: Republic of Korea
  • origin.country: KOR
  • continent: Asia
  • enrichment culture: MRS
  • enrichment culture temperature: 25
  • isolation procedure: serial dilution procedure

Sequence information

16S sequences

  • @ref: 20215
  • description: Lactococcus kimchii 16S ribosomal RNA gene, partial sequence
  • accession: MG576055
  • length: 1482
  • database: ena
  • NCBI tax ID: 2568007

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
69515Lactococcus sp. S-13GCA_004210295contigncbi2507158
69515genome sequenceSDAK01000001ncbi2507158

GC content

  • @ref: 69515
  • GC-content: 39.4
  • method: genome sequence analysis

External links

@ref: 20215

culture collection no.: NBRC 113348, KCTC 21096

literature

  • topic: Phylogeny
  • Pubmed-ID: 31651376
  • title: Lactococcus kimchii sp. nov., a new lactic acid bacterium isolated from kimchi.
  • authors: Pheng S, Han HL, Park DS, Chung CH, Kim SG
  • journal: Int J Syst Evol Microbiol
  • DOI: 10.1099/ijsem.0.003782
  • year: 2020
  • mesh: Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Fermented Foods/*microbiology, Food Microbiology, Genes, Bacterial, Lactic Acid, Lactococcus/*classification/isolation & purification, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Sequence Analysis, DNA
  • topic2: Biotechnology

Reference

@idauthorstitledoi/url
20215Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M.List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ10.1099/ijsem.0.004332
69515Sophea Pheng, Ho Le Han, Doo-Sang Park, Chang Ho Chung, Song-Gun KimLactococcus kimchii sp. nov., a new lactic acid bacterium isolated from kimchi10.1099/ijsem.0.003782