Strain identifier
BacDive ID: 24600
Type strain:
Species: Lactococcus fujiensis
Strain Designation: NJ 317
Strain history: Y. Cai NJ317.
NCBI tax ID(s): 1291764 (strain), 610251 (species)
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 id | Matching level |
---|---|
1291764 | strain |
610251 | species |
strain history
@ref | history |
---|---|
21005 | <- JCM; JCM 16395 <- Y. Cai; NJ 317 |
67770 | Y. 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
@ref | motility | confidence | gram stain |
---|---|---|---|
69480 | no | 92.123 | |
69480 | 99.72 | positive |
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
@ref | growth | type | temperature | range |
---|---|---|---|---|
21005 | positive | growth | 37 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 21005
- oxygen tolerance: microaerophile
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.995 |
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
68371 | Potassium 5-ketogluconate | - | builds acid from | |
68371 | Potassium 2-ketogluconate | - | builds acid from | |
68371 | gluconate | - | builds acid from | 24265 |
68371 | L-arabitol | - | builds acid from | 18403 |
68371 | D-arabitol | - | builds acid from | 18333 |
68371 | L-fucose | - | builds acid from | 18287 |
68371 | D-fucose | - | builds acid from | 28847 |
68371 | D-tagatose | - | builds acid from | 16443 |
68371 | D-lyxose | - | builds acid from | 62318 |
68371 | turanose | - | builds acid from | 32528 |
68371 | gentiobiose | + | builds acid from | 28066 |
68371 | xylitol | - | builds acid from | 17151 |
68371 | glycogen | - | builds acid from | 28087 |
68371 | starch | - | builds acid from | 28017 |
68371 | raffinose | - | builds acid from | 16634 |
68371 | melezitose | - | builds acid from | 6731 |
68371 | inulin | - | builds acid from | 15443 |
68371 | trehalose | - | builds acid from | 27082 |
68371 | sucrose | - | builds acid from | 17992 |
68371 | melibiose | - | builds acid from | 28053 |
68371 | lactose | - | builds acid from | 17716 |
68371 | maltose | + | builds acid from | 17306 |
68371 | cellobiose | + | builds acid from | 17057 |
68371 | salicin | + | builds acid from | 17814 |
68371 | esculin | + | builds acid from | 4853 |
68371 | arbutin | + | builds acid from | 18305 |
68371 | amygdalin | - | builds acid from | 27613 |
68371 | N-acetylglucosamine | + | builds acid from | 59640 |
68371 | methyl alpha-D-glucopyranoside | - | builds acid from | 320061 |
68371 | methyl alpha-D-mannoside | - | builds acid from | 43943 |
68371 | D-sorbitol | - | builds acid from | 17924 |
68371 | D-mannitol | + | builds acid from | 16899 |
68371 | myo-inositol | - | builds acid from | 17268 |
68371 | galactitol | - | builds acid from | 16813 |
68371 | L-rhamnose | - | builds acid from | 62345 |
68371 | L-sorbose | - | builds acid from | 17266 |
68371 | D-mannose | + | builds acid from | 16024 |
68371 | D-fructose | + | builds acid from | 15824 |
68371 | D-glucose | + | builds acid from | 17634 |
68371 | D-galactose | - | builds acid from | 12936 |
68371 | methyl beta-D-xylopyranoside | - | builds acid from | 74863 |
68371 | ribitol | - | builds acid from | 15963 |
68371 | L-xylose | - | builds acid from | 65328 |
68371 | D-xylose | - | builds acid from | 65327 |
68371 | D-ribose | + | builds acid from | 16988 |
68371 | L-arabinose | - | builds acid from | 30849 |
68371 | D-arabinose | - | builds acid from | 17108 |
68371 | erythritol | - | builds acid from | 17113 |
68371 | glycerol | - | builds acid from | 17754 |
API 50CHac
@ref | Q | GLY | ERY | DARA | LARA | RIB | DXYL | LXYL | ADO | MDX | GAL | GLU | FRU | MNE | SBE | RHA | DUL | INO | MAN | SOR | MDM | MDG | NAG | AMY | ARB | ESC | SAL | CEL | MAL | LAC | MEL | SAC | TRE | INU | MLZ | RAF | AMD | GLYG | XLT | GEN | TUR | LYX | TAG | DFUC | LFUC | DARL | LARL | GNT | 2KG | 5KG |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
21005 | - | - | - | - | - | + | - | - | - | - | - | + | + | + | - | - | - | - | + | - | - | - | + | - | + | + | + | + | + | - | - | - | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | geographic location | country | origin.country | continent | host species |
---|---|---|---|---|---|---|
21005 | outer leaves of Chinese cabbages | Shizuoka, Fujinomiya | Japan | JPN | Asia | |
67770 | Outer leaves of Chinese cabbages (Brassica rapa L. var. glabra Regel) | Fujinomiya, Shizuoka | Japan | JPN | Asia | Brassica rapa L. var. glabra Regel |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#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
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
21005 | Lactococcus fujiensis gene for 16S ribosomal RNA, partial sequence, strain: NJ 317 | AB485959 | 1506 | ena | 1291764 |
67770 | Lactococcus fujiensis JCM 16395 gene for 16S rRNA, partial sequence | LC519867 | 1482 | ena | 1291764 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Lactococcus fujiensis JCM 16395 | 1291764.5 | wgs | patric | 1291764 |
66792 | Lactococcus fujiensis JCM 16395 | 1291764.3 | wgs | patric | 1291764 |
66792 | Lactococcus fujiensis JCM 16395 | 2728369676 | draft | img | 1291764 |
66792 | Lactococcus fujiensis JCM 16395 | 2903213521 | draft | img | 1291764 |
67770 | Lactococcus fujiensis JCM 16395 | GCA_001311235 | contig | ncbi | 1291764 |
67770 | Lactococcus fujiensis JCM 16395 | GCA_002441655 | contig | ncbi | 1291764 |
GC content
- @ref: 21005
- GC-content: 42.1
- method: high performance liquid chromatography (HPLC)
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 95.94 | no |
gram-positive | yes | 94.228 | no |
anaerobic | no | 94.296 | yes |
aerobic | no | 98.457 | yes |
halophile | yes | 80.544 | no |
spore-forming | no | 94.15 | no |
glucose-util | yes | 91.828 | no |
flagellated | no | 97.541 | no |
thermophile | no | 99.419 | no |
glucose-ferment | yes | 82.557 | no |
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
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 20675438 | Lactococcus fujiensis sp. nov., a lactic acid bacterium isolated from vegetable matter. | Cai Y, Yang J, Pang H, Kitahara M | Int J Syst Evol Microbiol | 10.1099/ijs.0.025130-0 | 2010 | Bacterial 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, DNA | Genetics |
Phylogeny | 26546382 | Lactococcus nasutitermitis sp. nov. isolated from a termite gut. | Yan Yang S, Zheng Y, Huang Z, Min Wang X, Yang H | Int J Syst Evol Microbiol | 10.1099/ijsem.0.000743 | 2015 | Animals, 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, DNA | Genetics |
Reference
@id | authors | title | doi/url | catalogue | journal | pubmed |
---|---|---|---|---|---|---|
20215 | Parte, 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 DSMZ | 10.1099/ijsem.0.004332 | |||
21005 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-27937 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27937) | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | https://diaspora-project.de/progress.html#genomes | |||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 10.1093/nar/gkaa1025 | Nucleic Acids Res. 49: D498-D508 2020 | 33211880 | |
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68371 | Automatically annotated from API 50CH acid | |||||
69479 | João 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 beta | https://microbeatlas.org/ | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | Predictions 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 | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | Predictions based on the model GenomeNet Sporulation v. 1 | 10.21203/rs.3.rs-2527258/v1 | |||
88446 | Reimer, 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 identifiers | 10.60712/SI-ID407960.1 |