Strain identifier
BacDive ID: 134042
Type strain: 
Species: Lactococcus formosensis
Strain Designation: 516
Strain history: LMG 29105 <-- NBRC 109475 <-- Y.-S. Chen; Ming Chuan Univ., Taiwan; 516.
NCBI tax ID(s): 1281486 (species)
version 8.1 (current version)
General
@ref: 31125
BacDive-ID: 134042
keywords: genome sequence, 16S sequence, Bacteria, Gram-positive, ovoid-shaped
description: Lactococcus formosensis 516 is a Gram-positive, ovoid-shaped bacterium that was isolated from fermented broccoli stems.
NCBI tax id
- NCBI tax id: 1281486
- Matching level: species
strain history
- @ref: 67770
- history: LMG 29105 <-- NBRC 109475 <-- Y.-S. Chen; Ming Chuan Univ., Taiwan; 516.
doi: 10.13145/bacdive134042.20230509.8.1
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 formosensis
- full scientific name: Lactococcus formosensis Chen et al. 2014
@ref: 31125
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Lactobacillales
family: Streptococcaceae
genus: Lactococcus
species: Lactococcus formosensis
strain designation: 516
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell shape | motility | confidence |
|---|---|---|---|---|
| 31125 | positive | ovoid-shaped | no | |
| 69480 | positive | 100 | ||
| 69480 | no | 94.335 |
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 31125 | positive | growth | 20-37 | |
| 67770 | positive | growth | 37 | mesophilic |
culture pH
- @ref: 31125
- ability: positive
- type: optimum
- pH: 5
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 99 |
| 69480 | no | 99.997 |
halophily
| @ref | salt | growth | tested relation | concentration |
|---|---|---|---|---|
| 31125 | NaCl | positive | growth | 04-06 % |
| 31125 | NaCl | positive | optimum | 2 % |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 31125 | 29864 | mannitol | + | carbon source |
| 31125 | 33942 | ribose | + | carbon source |
enzymes
- @ref: 31125
- value: acid phosphatase
- activity: +
- ec: 3.1.3.2
Isolation, sampling and environmental information
isolation
| @ref | sample type | host species | country | origin.country | continent |
|---|---|---|---|---|---|
| 31125 | fermented broccoli stems | ||||
| 67770 | Yan-tsai-shin (fermented broccoli stems) | Yan-tsai-shin | Taiwan | TWN | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Engineered | #Food production | #Vegetable (incl. Grains) |
| #Engineered | #Food production | #Fermented |
Sequence information
16S sequences
- @ref: 31125
- description: Lactococcus formosensis gene for 16S ribosomal RNA, partial sequence
- accession: AB775178
- length: 1515
- database: nuccore
- NCBI tax ID: 1281486
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Lactococcus formosensis NBRC 109475 | GCA_018403745 | contig | ncbi | 1281486 |
| 66792 | Lactococcus formosensis strain NBRC 109475 | 1281486.5 | wgs | patric | 1281486 |
GC content
| @ref | GC-content | method |
|---|---|---|
| 31125 | 38.1 | |
| 67770 | 38.1 | high performance liquid chromatography (HPLC) |
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 99 | no |
| motile | no | 94.988 | yes |
| gram-positive | yes | 96.076 | yes |
| anaerobic | no | 97.069 | no |
| aerobic | no | 97.264 | no |
| halophile | yes | 78.096 | no |
| spore-forming | no | 93.885 | no |
| thermophile | no | 99.855 | yes |
| glucose-util | yes | 92.13 | no |
| flagellated | no | 98.008 | yes |
| glucose-ferment | yes | 84.606 | no |
External links
@ref: 31125
culture collection no.: NBRC 109475, BCRC 80576, JCM 31966, LMG 29105
straininfo link
- @ref: 91682
- straininfo: 391807
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 24067730 | Lactococcus formosensis sp. nov., a lactic acid bacterium isolated from yan-tsai-shin (fermented broccoli stems). | Chen YS, Otoguro M, Lin YH, Pan SF, Ji SH, Yu CR, Liou MS, Chang YC, Wu HC, Yanagida F | Int J Syst Evol Microbiol | 10.1099/ijs.0.052811-0 | 2013 | Bacterial Typing Techniques, Base Composition, Brassica/*microbiology, DNA, Bacterial/genetics, Fatty Acids/chemistry, *Fermentation, *Food Microbiology, Genes, Bacterial, Lactic Acid/biosynthesis, Lactococcus/*classification/genetics/isolation & purification, Molecular Sequence Data, Nucleic Acid Hybridization, Peptidoglycan/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Taiwan | Biotechnology |
| Phylogeny | 34427555 | Proposal of Lactococcus garvieae subsp. bovis Varsha and Nampoothiri 2016 as a later heterotypic synonym of Lactococcus formosensis Chen et al. 2014 and Lactococcus formosensis subsp. bovis comb. nov. | Zhang HX, Tian WL, Gu CT | Int J Syst Evol Microbiol | 10.1099/ijsem.0.004980 | 2021 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Genes, Bacterial, Lactococcus/*classification, Nucleic Acid Hybridization, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Transcriptome |
Reference
| @id | authors | title | doi/url | ID_cross_reference | 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 | ||
| 31125 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 10.1128/mSphere.00237-17 | 27454 | 28776041 |
| 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 | ||
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | |||
| 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 | ||
| 91682 | 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-ID391807.1 |