Strain identifier

BacDive ID: 136206

Type strain: No

Species: Lactococcus lactis

Strain history: CIP <- 1990, JCM <- strain O-1, Lactobacillus xylosus

NCBI tax ID(s): 1358 (species)

« back to strain detail view
For citation purpose refer to the digital object identifier (doi) of the current version.
Archive
version 9.3 (current version):
version 9.2:
version 9.1:
version 9:
version 8.1:
version 8:
version 7.1:
version 7:
version 6:
version 5:
version 4.1:
version 4:
version 3:
version 2.1:
version 9.3 (current version)

General

@ref: 35548

BacDive-ID: 136206

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

description: Lactococcus lactis CIP 103449 is a facultative anaerobe, mesophilic, Gram-positive bacterium of the family Streptococcaceae.

NCBI tax id

  • NCBI tax id: 1358
  • Matching level: species

strain history

@refhistory
67770A. Ishizaki IO-1.
35548CIP <- 1990, JCM <- strain O-1, Lactobacillus xylosus

doi: 10.13145/bacdive136206.20250331.9.3

Name and taxonomic classification

LPSN

  • @ref: 20215
  • description: domain/bacteria
  • keyword: phylum/bacillota
  • domain: Bacteria
  • phylum: Bacillota
  • class: Bacilli
  • order: Lactobacillales
  • family: Streptococcaceae
  • genus: Lactococcus
  • species: Lactococcus lactis
  • full scientific name: Lactococcus lactis (Lister 1873) Schleifer et al. 1986

  • synonyms

    @refsynonym
    20215Streptococcus lactis subsp. diacetilactis
    20215Bacterium lactis
    20215Streptococcus lactis
    20215Lactobacillus xylosus

@ref: 35548

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Streptococcaceae

genus: Lactococcus

species: Lactococcus lactis

type strain: no

Morphology

cell morphology

@refmotilityconfidencegram staincell shape
125438no92.5
12543893.758positive
35548nopositivecoccus-shaped

Culture and growth conditions

culture medium

@refnamegrowthcompositionlink
35548MEDIUM 40- for Lactobacillus and LeuconostocyesDistilled water make up to (1000.000 ml);Man Rogosa Sharp agar (68.000 g)
35548CIP Medium 40yeshttps://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40

culture temp

@refgrowthtypetemperature
35548positivegrowth37
67770positivegrowth37

Physiology and metabolism

oxygen tolerance

@refoxygen toleranceconfidence
35548facultative anaerobe
125439obligate aerobe95.9

compound production

  • @ref: 67770
  • compound: Nisin Z

metabolite utilization

@refChebi-IDmetaboliteutilization activitykind of utilization tested
3554817632nitrate-reduction
3554816301nitrite-reduction
6837127613amygdalin+builds acid from
6837115824D-fructose+builds acid from
6837117634D-glucose+builds acid from
6837112936D-galactose+builds acid from
6837117113erythritol-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
6837159640N-acetylglucosamine+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
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

metabolite production

  • @ref: 35548
  • 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
35548oxidase-
35548catalase-1.11.1.6
35548urease-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
35548-----+----++--------

API 50CHac

@refGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
35548+/----++---++++----+-+/-+/-++++++++-++---+--+-------+-+/-

Isolation, sampling and environmental information

isolation

@refgeographic locationcountryorigin.countrycontinentsample typeisolation date
35548Fukuoaka-shiJapanJPNAsia
67770FukuokaJapanJPNAsiaWater in the drain pit of a kitchen sink
35548FukuokaJapanJPNAsiaEnvironment, Water in a drain pit of a kitchen sink1986

taxonmaps

  • @ref: 69479
  • File name: preview.99_170.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_58;96_124;97_132;98_149;99_170&stattab=map
  • Last taxonomy: Lactococcus
  • 16S sequence: LC096207
  • Sequence Identity:
  • Total samples: 157686
  • soil counts: 7135
  • aquatic counts: 13841
  • animal counts: 132033
  • plant counts: 4677

Safety information

risk assessment

  • @ref: 35548
  • biosafety level: 1
  • biosafety level comment: Risk group (French classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
67770Lactococcus lactis subsp. lactis gene for 16S ribosomal RNA, partial sequence, strain: JCM 7638LC0962071486nuccore1360
124043Lactococcus lactis gene for 16S rRNA, partial sequence, strain:JCM7638.AB1180371532nuccore1358

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactococcus lactis subsp. lactis JCM 7638GCA_001311315contigncbi1291762
66792Lactococcus lactis subsp. lactis JCM 76381291762.3wgspatric1291762
66792Lactococcus lactis lactis JCM 76382728369680draftimg1291762
67770Lactococcus lactis subsp. lactis IO-1GCA_000344575completencbi1046624

GC content

  • @ref: 67770
  • GC-content: 38
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

@refmodeltraitdescriptionpredictionconfidencetraining_data
125439BacteriaNetoxygen_toleranceOxygenic conditions needed for growthobligate aerobe95.9
125439BacteriaNetgram_stainReaction to gram-stainingnegative77.5
125439BacteriaNetmotilityAbility to perform movementno66.4
125439BacteriaNetspore_formationAbility to form endo- or exosporesno85.8
125438gram-positivegram-positivePositive reaction to Gram-stainingyes93.758no
125438anaerobicanaerobicAbility to grow under anoxygenic conditions (including facultative anaerobes)no89.753no
125438spore-formingspore-formingAbility to form endo- or exosporesno87.069no
125438aerobicaerobicAbility to grow under oxygenic conditions (including facultative aerobes)no96.152no
125438thermophilethermophilicAbility to grow at temperatures above or equal to 45°Cno98.5yes
125438motile2+flagellatedAbility to perform flagellated movementno92.5no

External links

@ref: 35548

culture collection no.: CIP 103449, JCM 7638

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Metabolism12382058Two different pathways for D-xylose metabolism and the effect of xylose concentration on the yield coefficient of L-lactate in mixed-acid fermentation by the lactic acid bacterium Lactococcus lactis IO-1.Tanaka K, Komiyama A, Sonomoto K, Ishizaki A, Hall SJ, Stanbury PFAppl Microbiol Biotechnol10.1007/s00253-002-1078-52002Enzymes/metabolism, Fermentation, *Glycolysis, Lactic Acid/*metabolism, Lactococcus lactis/enzymology/growth & development/*metabolism, Pentose Phosphate Pathway/physiology, Xylose/antagonists & inhibitors/*metabolismEnzymology
Genetics22461545Complete genome sequence of Lactococcus lactis IO-1, a lactic acid bacterium that utilizes xylose and produces high levels of L-lactic acid.Kato H, Shiwa Y, Oshima K, Machii M, Araya-Kojima T, Zendo T, Shimizu-Kadota M, Hattori M, Sonomoto K, Yoshikawa HJ Bacteriol10.1128/JB.00074-122012Fermentation, Gene Expression Regulation, Bacterial, *Genome, Bacterial, Lactic Acid/*biosynthesis, Lactococcus lactis/*classification/*genetics, Molecular Sequence Data, Nisin/analogs & derivatives/biosynthesis, Xylose/*metabolismPhylogeny
Genetics24018670Genomic features of Lactococcus lactis IO-1, a lactic acid bacterium that utilizes xylose and produces high levels of L-lactic acid.Shimizu-Kadota M, Kato H, Shiwa Y, Oshima K, Machii M, Araya-Kojima T, Zendo T, Hattori M, Sonomoto K, Yoshikawa HBiosci Biotechnol Biochem10.1271/bbb.1300802013Amino Acids/biosynthesis, Base Sequence, DNA Transposable Elements/genetics, Gene Transfer, Horizontal, Genome, Bacterial/genetics, *Genomics, Lactic Acid/*biosynthesis/*metabolism, Lactococcus lactis/*genetics/*metabolism/virology, Molecular Sequence Data, Nisin/metabolism, Prophages/genetics, Sucrose/metabolism, Vitamins/biosynthesis, Xylose/*metabolismMetabolism
Metabolism31836379Suppression of lactate production in fed-batch culture of some lactic acid bacteria with sucrose as the carbon source.Kawai M, Tsuchiya A, Ishida J, Yoda N, Yashiki-Yamasaki S, Katakura YJ Biosci Bioeng10.1016/j.jbiosc.2019.11.0092019Bacterial Proteins/metabolism, Batch Cell Culture Techniques, Carbon/metabolism, Fermentation, Glucose/metabolism, Glycolysis, L-Lactate Dehydrogenase/metabolism, Lactic Acid/*metabolism, Lactobacillus reuteri/growth & development/*metabolism, Lactococcus lactis/growth & development/*metabolism, NAD/metabolism, Sucrose/metabolismBiotechnology
Metabolism32728792Comparison of Different Lactobacilli Regarding Substrate Utilization and Their Tolerance Towards Lignocellulose Degradation Products.Gubelt A, Blaschke L, Hahn T, Rupp S, Hirth T, Zibek SCurr Microbiol10.1007/s00284-020-02131-y2020Fermentation, Glucose, *Lactobacillus brevis, Lignin, *Xylose

Reference

@idauthorstitledoi/urlcatalogue
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
35548Curators of the CIPhttps://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20103449Collection of Institut Pasteur (CIP 103449)
66792Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannAutomatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
124043Isabel Schober, Julia KoblitzData extracted from sequence databases, automatically matched based on designation and taxonomy
125438Julia Koblitz, Lorenz Christian Reimer, Rüdiger Pukall, Jörg OvermannPredicting bacterial phenotypic traits through improved machine learning using high-quality, curated datasets10.1101/2024.08.12.607695
125439Philipp Münch, René Mreches, Martin Binder, Hüseyin Anil Gündüz, Xiao-Yin To, Alice McHardydeepG: Deep Learning for Genome Sequence Data. R package version 0.3.1https://github.com/GenomeNet/deepG