Strain identifier
BacDive ID: 14706
Type strain:
Species: Lactococcus plantarum
Strain Designation: 5L
Strain history: CIP <- 1986, NCFB <- 1966, J.J. Cavett: strain 5L, Streptococcus cremoris
NCBI tax ID(s): 1348632 (strain), 1365 (species)
General
@ref: 9008
BacDive-ID: 14706
DSM-Number: 20686
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, mesophilic
description: Lactococcus plantarum 5L is a facultative anaerobe, mesophilic bacterium that was isolated from frozen peas.
NCBI tax id
NCBI tax id | Matching level |
---|---|
1348632 | strain |
1365 | species |
strain history
@ref | history |
---|---|
9008 | <- NCDO <- J.J. Cavett, 5L |
67770 | CIP 102506 <-- NCFB <-- J. J. Cavett 5L. |
121864 | CIP <- 1986, NCFB <- 1966, J.J. Cavett: strain 5L, Streptococcus cremoris |
doi: 10.13145/bacdive14706.20230509.8.1
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 plantarum
- full scientific name: Lactococcus plantarum (Collins et al. 1984) Schleifer et al. 1986
synonyms
- @ref: 20215
- synonym: Streptococcus plantarum
@ref: 9008
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Lactobacillales
family: Streptococcaceae
genus: Lactococcus
species: Lactococcus plantarum
full scientific name: Lactococcus plantarum (Collins et al. 1984) Schleifer et al. 1986
strain designation: 5L
type strain: yes
Morphology
cell morphology
@ref | motility | confidence | gram stain | cell shape |
---|---|---|---|---|
69480 | no | 97.688 | ||
69480 | 100 | positive | ||
121864 | no | positive | coccus-shaped |
colony morphology
- @ref: 121864
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
9008 | TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) | yes | https://mediadive.dsmz.de/medium/92 | Name: TRYPTICASE SOY YEAST EXTRACT MEDIUM (DSMZ Medium 92) Composition: Trypticase soy broth 30.0 g/l Agar 15.0 g/l Yeast extract 3.0 g/l Distilled water |
38973 | MEDIUM 29- Brain heart agar | yes | Distilled water make up to (1000.000 ml);Brain heart infusion agar (52.000 g) | |
121864 | CIP Medium 72 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=72 | |
121864 | CIP Medium 29 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=29 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
9008 | positive | growth | 30 | mesophilic |
38973 | positive | growth | 30 | mesophilic |
54687 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
121864 | positive | growth | 10-37 | |
121864 | no | growth | 41 | thermophilic |
121864 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 121864
- oxygen tolerance: facultative anaerobe
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 100 |
69480 | no | 99.999 |
halophily
- @ref: 121864
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 6.5 %
murein
- @ref: 9008
- murein short key: A11.18
- type: A3alpha L-Lys-L-Ser-L-Ala
metabolite utilization
@ref | metabolite | utilization activity | kind of utilization tested | Chebi-ID |
---|---|---|---|---|
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 | 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 | 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 | 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 | 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 |
121864 | hippurate | + | hydrolysis | 606565 |
121864 | nitrate | - | reduction | 17632 |
121864 | nitrite | - | reduction | 16301 |
metabolite tests
- @ref: 121864
- Chebi-ID: 15688
- metabolite: acetoin
- voges-proskauer-test: +
enzymes
@ref | value | activity | ec |
---|---|---|---|
121864 | oxidase | - | |
121864 | beta-galactosidase | - | 3.2.1.23 |
121864 | alcohol dehydrogenase | - | 1.1.1.1 |
121864 | catalase | - | 1.11.1.6 |
121864 | gamma-glutamyltransferase | - | 2.3.2.2 |
121864 | lysine decarboxylase | - | 4.1.1.18 |
121864 | ornithine decarboxylase | - | 4.1.1.17 |
68382 | alkaline phosphatase | + | 3.1.3.1 |
68382 | esterase (C 4) | + | |
68382 | esterase lipase (C 8) | + | |
68382 | lipase (C 14) | - | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | valine arylamidase | - | |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | trypsin | - | 3.4.21.4 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucosidase | + | 3.2.1.21 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | alpha-fucosidase | - | 3.2.1.51 |
API zym
@ref | Control | Alkaline phosphatase | Esterase | Esterase Lipase | Lipase | Leucine arylamidase | Valine arylamidase | Cystine arylamidase | Trypsin | alpha- Chymotrypsin | Acid phosphatase | Naphthol-AS-BI-phosphohydrolase | alpha- Galactosidase | beta- Galactosidase | beta- Glucuronidase | alpha- Glucosidase | beta- Glucosidase | N-acetyl-beta- glucosaminidase | alpha- Mannosidase | alpha- Fucosidase |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
121864 | - | + | + | + | - | + | - | - | - | - | + | + | - | - | - | + | + | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
9008 | - | - | - | - | - | - | - | - | - | - | + | + | + | + | - | - | - | - | + | + | - | + | + | + | + | + | + | + | + | - | - | + | + | - | + | - | - | - | - | +/- | + | - | - | - | - | - | - | - | - | - |
121864 | +/- | - | - | - | - | - | - | - | - | - | + | + | + | - | - | - | - | + | + | - | + | + | +/- | + | + | + | + | + | - | - | + | + | + | + | - | - | - | - | + | + | - | - | - | - | - | - | - | - | + |
Isolation, sampling and environmental information
isolation
@ref | sample type |
---|---|
9008 | frozen peas |
54687 | Frozen peas |
67770 | Frozen peas |
121864 | Food, Frozen peas |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Food production | #Food |
#Host | #Plants | #Herbaceous plants (Grass,Crops) |
#Host Body-Site | #Plant | #Fruit (Seed) |
#Condition | #Psychrophilic (<10°C) |
taxonmaps
- @ref: 69479
- File name: preview.99_5260.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_58;96_1605;97_1917;98_3922;99_5260&stattab=map
- Last taxonomy: Lactococcus plantarum subclade
- 16S sequence: LC145561
- Sequence Identity:
- Total samples: 8909
- soil counts: 1086
- aquatic counts: 1614
- animal counts: 5833
- plant counts: 376
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
9008 | 1 | Risk group (German classification) |
121864 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Lactococcus plantarum strain DSM 20686 16S ribosomal RNA gene, partial sequence | EF694029 | 1433 | ena | 1365 |
20218 | Lactococcus plantarum strain DSM 20686 16S ribosomal RNA gene, partial sequence; 16S-23S ribosomal RNA intergenic spacer, complete sequence; and 23S ribosomal RNA gene, partial sequence | HM241919 | 575 | ena | 1365 |
20218 | Lactococcus plantarum strain NIZO2426T 16S ribosomal RNA gene, partial sequence | EU091464 | 646 | ena | 1365 |
20218 | Lactococcus plantarum gene for 16S rRNA, partial sequence, strain: NBRC 100936 | AB681297 | 1474 | ena | 1365 |
20218 | Lactococcus plantarum 16S ribosomal RNA | X54259 | 1473 | ena | 1365 |
67770 | Lactococcus plantarum gene for 16S ribosomal RNA, partial sequence, strain: JCM 11056 | LC145561 | 1488 | ena | 1365 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Lactococcus plantarum NBRC 100936 | 1348632.3 | wgs | patric | 1348632 |
66792 | Lactococcus plantarum strain DSM 20686 | 1365.4 | wgs | patric | 1365 |
66792 | Lactococcus plantarum DSM 20686 | 2903266210 | draft | img | 1365 |
66792 | Lactococcus plantarum NBRC 100936 | 2731957665 | draft | img | 1348632 |
67770 | Lactococcus plantarum NBRC 100936 | GCA_001591745 | contig | ncbi | 1348632 |
67770 | Lactococcus plantarum DSM 20686 | GCA_002441715 | contig | ncbi | 1365 |
GC content
- @ref: 9008
- GC-content: 36.9
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 100 | no |
motile | no | 96.74 | no |
gram-positive | yes | 96.065 | no |
anaerobic | no | 93.436 | no |
halophile | yes | 84.213 | no |
spore-forming | no | 96.202 | no |
thermophile | no | 99.796 | yes |
glucose-util | yes | 88.204 | no |
aerobic | no | 97.679 | no |
flagellated | no | 97.99 | no |
glucose-ferment | yes | 90.009 | no |
External links
@ref: 9008
culture collection no.: DSM 20686, ATCC 43199, NCDO 1869, CCUG 39180, JCM 11056, CCM 4542, CIP 102506, HAMBI 1593, KCTC 3645, LMG 8517, NBRC 100936, NCIMB 11945, VTT E-90411
straininfo link
- @ref: 83825
- straininfo: 3459
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 6663283 | Streptococcus garvieae sp. nov. and Streptococcus plantarum sp. nov. | Collins MD, Farrow JA, Phillips BA, Kandler O | J Gen Microbiol | 10.1099/00221287-129-11-3427 | 1983 | Animals, Carbohydrates/analysis, Cattle, Fabaceae/microbiology, Fatty Acids/analysis, Female, Mastitis, Bovine/microbiology, Plants, Medicinal, Species Specificity, Streptococcus/*classification/isolation & purification/metabolism | Enzymology |
Phylogeny | 32614762 | Lactococcus insecticola sp. nov. and Lactococcus hodotermopsidis sp. nov., isolated from the gut of the wood-feeding lower termite Hodotermopsis sjostedti. | Noda S, Koyama F, Aihara C, Ikeyama N, Yuki M, Ohkuma M, Sakamoto M | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004309 | 2020 | Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Gastrointestinal Tract/*microbiology, Genes, Bacterial, Isoptera/*microbiology, Lactococcus/*classification/isolation & purification, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Wood | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
9008 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 20686) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-20686 | |||
20215 | Parte, A.C., Sardà Carbasse, J., Meier-Kolthoff, J.P., Reimer, L.C. and Göker, M. | 10.1099/ijsem.0.004332 | List of Prokaryotic names with Standing in Nomenclature (LPSN) moves to the DSMZ | |||
20218 | Verslyppe, B., De Smet, W., De Baets, B., De Vos, P., Dawyndt P. | 10.1016/j.syapm.2013.11.002 | StrainInfo introduces electronic passports for microorganisms. | Syst Appl Microbiol. 37: 42-50 2014 | 24321274 | |
38973 | Curators of the CIP | https://brclims.pasteur.fr/brcWeb/souche/detail/1/14199 | ||||
54687 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 39180) | https://www.ccug.se/strain?id=39180 | |||
66792 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Automatically annotated for the DiASPora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||||
68371 | Automatically annotated from API 50CH acid | |||||
68382 | Automatically annotated from API zym | |||||
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. | https://microbeatlas.org/ | MicrobeAtlas 1.0 beta | |||
69480 | Julia Koblitz, Joaquim Sardà, Lorenz Christian Reimer, Boyke Bunk, Jörg Overmann | https://diaspora-project.de/progress.html#genomes | Predictions based on genome sequence made in the Diaspora project (Digital Approaches for the Synthesis of Poorly Accessible Biodiversity Information) | |||
69481 | Xiao-Yin To, René Mreches, Martin Binder, Alice C. McHardy, Philipp C. Münch | 10.21203/rs.3.rs-2527258/v1 | Predictions based on the model GenomeNet Sporulation v. 1 | |||
83825 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID3459.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
121864 | Curators of the CIP | Collection of Institut Pasteur (CIP 102506) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20102506 |