Strain identifier

BacDive ID: 24600

Type strain: Yes

Species: Lactococcus fujiensis

Strain Designation: NJ 317

Strain history: Y. Cai NJ317.

For citation purpose refer to the digital object identifier (doi) of the current version.
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General

@ref: 21005

BacDive-ID: 24600

DSM-Number: 27937

keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic

description: Lactococcus fujiensis NJ 317 is a microaerophile, mesophilic bacterium that was isolated from outer leaves of Chinese cabbages.

NCBI tax id

NCBI tax idMatching level
1291764strain
610251species

strain history

@refhistory
21005<- JCM; JCM 16395 <- Y. Cai; NJ 317
67770Y. Cai NJ317.

doi: 10.13145/bacdive24600.20230509.8.1

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 fujiensis
  • full scientific name: Lactococcus fujiensis Cai et al. 2011

@ref: 21005

domain: Bacteria

phylum: Firmicutes

class: Bacilli

order: Lactobacillales

family: Streptococcaceae

genus: Lactococcus

species: Lactococcus fujiensis

full scientific name: Lactococcus fujiensis Cai et al. 2011

strain designation: NJ 317

type strain: yes

Morphology

cell morphology

@refmotilityconfidencegram stain
69480no92.123
6948099.72positive

Culture and growth conditions

culture medium

  • @ref: 21005
  • 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
21005positivegrowth37mesophilic
67770positivegrowth30mesophilic

Physiology and metabolism

oxygen tolerance

  • @ref: 21005
  • oxygen tolerance: microaerophile

spore formation

@refspore formationconfidence
69481no100
69480no99.995

metabolite utilization

@refmetaboliteutilization activitykind of utilization testedChebi-ID
68371Potassium 5-ketogluconate-builds acid from
68371Potassium 2-ketogluconate-builds acid from
68371gluconate-builds acid from24265
68371L-arabitol-builds acid from18403
68371D-arabitol-builds acid from18333
68371L-fucose-builds acid from18287
68371D-fucose-builds acid from28847
68371D-tagatose-builds acid from16443
68371D-lyxose-builds acid from62318
68371turanose-builds acid from32528
68371gentiobiose+builds acid from28066
68371xylitol-builds acid from17151
68371glycogen-builds acid from28087
68371starch-builds acid from28017
68371raffinose-builds acid from16634
68371melezitose-builds acid from6731
68371inulin-builds acid from15443
68371trehalose-builds acid from27082
68371sucrose-builds acid from17992
68371melibiose-builds acid from28053
68371lactose-builds acid from17716
68371maltose+builds acid from17306
68371cellobiose+builds acid from17057
68371salicin+builds acid from17814
68371esculin+builds acid from4853
68371arbutin+builds acid from18305
68371amygdalin-builds acid from27613
68371N-acetylglucosamine+builds acid from59640
68371methyl alpha-D-glucopyranoside-builds acid from320061
68371methyl alpha-D-mannoside-builds acid from43943
68371D-sorbitol-builds acid from17924
68371D-mannitol+builds acid from16899
68371myo-inositol-builds acid from17268
68371galactitol-builds acid from16813
68371L-rhamnose-builds acid from62345
68371L-sorbose-builds acid from17266
68371D-mannose+builds acid from16024
68371D-fructose+builds acid from15824
68371D-glucose+builds acid from17634
68371D-galactose-builds acid from12936
68371methyl beta-D-xylopyranoside-builds acid from74863
68371ribitol-builds acid from15963
68371L-xylose-builds acid from65328
68371D-xylose-builds acid from65327
68371D-ribose+builds acid from16988
68371L-arabinose-builds acid from30849
68371D-arabinose-builds acid from17108
68371erythritol-builds acid from17113
68371glycerol-builds acid from17754

API 50CHac

@refQGLYERYDARALARARIBDXYLLXYLADOMDXGALGLUFRUMNESBERHADULINOMANSORMDMMDGNAGAMYARBESCSALCELMALLACMELSACTREINUMLZRAFAMDGLYGXLTGENTURLYXTAGDFUCLFUCDARLLARLGNT2KG5KG
21005-----+-----+++----+---+-+++++----------+----------

Isolation, sampling and environmental information

isolation

@refsample typegeographic locationcountryorigin.countrycontinenthost species
21005outer leaves of Chinese cabbagesShizuoka, FujinomiyaJapanJPNAsia
67770Outer leaves of Chinese cabbages (Brassica rapa L. var. glabra Regel)Fujinomiya, ShizuokaJapanJPNAsiaBrassica rapa L. var. glabra Regel

isolation source categories

Cat1Cat2Cat3
#Host#Plants#Herbaceous plants (Grass,Crops)
#Host Body-Site#Plant#Leaf (Phyllosphere)

taxonmaps

  • @ref: 69479
  • File name: preview.99_117983.png
  • url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_58;96_46671;97_59936;98_79628;99_117983&stattab=map
  • Last taxonomy: Lactococcus fujiensis subclade
  • 16S sequence: LC519867
  • Sequence Identity:
  • Total samples: 2352
  • soil counts: 179
  • aquatic counts: 726
  • animal counts: 1396
  • plant counts: 51

Safety information

risk assessment

  • @ref: 21005
  • biosafety level: 1
  • biosafety level comment: Risk group (German classification)

Sequence information

16S sequences

@refdescriptionaccessionlengthdatabaseNCBI tax ID
21005Lactococcus fujiensis gene for 16S ribosomal RNA, partial sequence, strain: NJ 317AB4859591506ena1291764
67770Lactococcus fujiensis JCM 16395 gene for 16S rRNA, partial sequenceLC5198671482ena1291764

Genome sequences

@refdescriptionaccessionassembly leveldatabaseNCBI tax ID
66792Lactococcus fujiensis JCM 163951291764.5wgspatric1291764
66792Lactococcus fujiensis JCM 163951291764.3wgspatric1291764
66792Lactococcus fujiensis JCM 163952728369676draftimg1291764
66792Lactococcus fujiensis JCM 163952903213521draftimg1291764
67770Lactococcus fujiensis JCM 16395GCA_001311235contigncbi1291764
67770Lactococcus fujiensis JCM 16395GCA_002441655contigncbi1291764

GC content

  • @ref: 21005
  • GC-content: 42.1
  • method: high performance liquid chromatography (HPLC)

Genome-based predictions

predictions

traitpredictionconfidencetraining_data
spore-formingno100no
motileno95.94no
gram-positiveyes94.228no
anaerobicno94.296yes
aerobicno98.457yes
halophileyes80.544no
spore-formingno94.15no
glucose-utilyes91.828no
flagellatedno97.541no
thermophileno99.419no
glucose-fermentyes82.557no

External links

@ref: 21005

culture collection no.: DSM 27937, CGMCC 1.10453, JCM 16395, LMG 29534, NCIMB 14813

straininfo link

  • @ref: 88446
  • straininfo: 407960

literature

topicPubmed-IDtitleauthorsjournalDOIyearmeshtopic2
Phylogeny20675438Lactococcus fujiensis sp. nov., a lactic acid bacterium isolated from vegetable matter.Cai Y, Yang J, Pang H, Kitahara MInt J Syst Evol Microbiol10.1099/ijs.0.025130-02010Bacterial Typing Techniques, Base Composition, Brassica/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, Japan, Lactic Acid, Lactococcus/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Ribotyping, Sequence Analysis, DNAGenetics
Phylogeny26546382Lactococcus nasutitermitis sp. nov. isolated from a termite gut.Yan Yang S, Zheng Y, Huang Z, Min Wang X, Yang HInt J Syst Evol Microbiol10.1099/ijsem.0.0007432015Animals, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Fatty Acids/chemistry, Genes, Bacterial, Isoptera/*microbiology, Lactococcus/*classification/genetics/isolation & purification, Molecular Sequence Data, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNAGenetics

Reference

@idauthorstitledoi/urlcataloguejournalpubmed
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
21005Curators of the DSMZhttps://www.dsmz.de/collection/catalogue/details/culture/DSM-27937Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27937)
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
66794Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar SchomburgBRENDA, the ELIXIR core data resource in 2021: new developments and updates10.1093/nar/gkaa1025Nucleic Acids Res. 49: D498-D508 202033211880
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.MicrobeAtlas 1.0 betahttps://microbeatlas.org/
69480Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg OvermannPredictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information)https://diaspora-project.de/progress.html#genomes
69481Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. MünchPredictions based on the model GenomeNet Sporulation v. 110.21203/rs.3.rs-2527258/v1
88446Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J.StrainInfo: A central database for resolving microbial strain identifiers10.60712/SI-ID407960.1