Strain identifier
BacDive ID: 158499
Type strain: 
Species: Ligilactobacillus salitolerans
Strain Designation: YK43
Strain history: M. Tohno; NARO Inst. of Livestock & Grassland Sci., Japan; YK43.
NCBI tax ID(s): 1808352 (species)
version 9.2 (current version)
General
@ref: 65175
BacDive-ID: 158499
DSM-Number: 103433
keywords: genome sequence, 16S sequence, Bacteria, mesophilic
description: Ligilactobacillus salitolerans YK43 is a mesophilic bacterium that was isolated from mushroom bed.
NCBI tax id
- NCBI tax id: 1808352
- Matching level: species
strain history
| @ref | history |
|---|---|
| 65175 | <- M. Tohno, National Agriculture and Food Research Organization, Nasushiobara, Japan; YK43 |
| 67770 | M. Tohno; NARO Inst. of Livestock & Grassland Sci., Japan; YK43. |
doi: 10.13145/bacdive158499.20241212.9.2
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Lactobacillales
- family: Lactobacillaceae
- genus: Ligilactobacillus
- species: Ligilactobacillus salitolerans
- full scientific name: Ligilactobacillus salitolerans (Tohno et al. 2019) Zheng et al. 2020
synonyms
- @ref: 20215
- synonym: Lactobacillus salitolerans
@ref: 65175
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Lactobacillales
family: Lactobacillaceae
genus: Ligilactobacillus
species: Ligilactobacillus salitolerans
full scientific name: Ligilactobacillus salitolerans (Tohno et al. 2019) Zheng et al. 2020
strain designation: YK43
type strain: yes
Culture and growth conditions
culture medium
- @ref: 65175
- 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 |
|---|---|---|---|
| 65175 | positive | growth | 30 |
| 67770 | positive | growth | 30 |
Physiology and metabolism
spore formation
- @ref: 69481
- spore formation: no
- confidence: 100
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent |
|---|---|---|---|---|---|
| 65175 | mushroom bed | Tochigi | Japan | JPN | Asia |
| 67770 | Spent mushroom substrates stored in Nagano | Japan | JPN | Asia |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Fungi | #Mushroom |
| #Engineered | #Agriculture | |
| #Engineered | #Agriculture | #Garden |
taxonmaps
- @ref: 69479
- File name: preview.99_101298.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_45;96_937;97_1090;98_69182;99_101298&stattab=map
- Last taxonomy: Ligilactobacillus
- 16S sequence: LC127508
- Sequence Identity:
- Total samples: 916
- soil counts: 15
- aquatic counts: 24
- animal counts: 865
- plant counts: 12
Sequence information
16S sequences
- @ref: 65175
- description: Lactobacillus salitolerans gene for 16S ribosomal RNA, partial sequence
- accession: LC127508
- length: 1488
- database: nuccore
- NCBI tax ID: 1808352
Genome sequences
- @ref: 67770
- description: Ligilactobacillus salitolerans YK43
- accession: GCA_003864415
- assembly level: scaffold
- database: ncbi
- NCBI tax ID: 1808352
GC content
- @ref: 67770
- GC-content: 43.6
- method: genome sequence analysis
Genome-based predictions
predictions
| @ref | trait | model | description | prediction | confidence | training_data |
|---|---|---|---|---|---|---|
| 69481 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 100 | no |
| 69480 | gram-positive | gram-positive | Positive reaction to Gram-staining | yes | 88.678 | no |
| 69480 | anaerobic | anaerobic | Ability to grow under anoxygenic conditions (including facultative anaerobes) | no | 83.283 | no |
| 69480 | aerobic | aerobic | Ability to grow under oxygenic conditions (including facultative aerobes) | no | 91.904 | no |
| 69480 | spore-forming | spore-forming | Ability to form endo- or exospores | no | 79.532 | no |
| 69480 | thermophilic | thermophile | Ability to grow at temperatures above or equal to 45°C | no | 96.374 | no |
| 69480 | flagellated | motile2+ | Ability to perform flagellated movement | yes | 58 | no |
External links
@ref: 65175
culture collection no.: DSM 103433, JCM 31331
straininfo link
- @ref: 111294
- straininfo: 408167
literature
- topic: Phylogeny
- Pubmed-ID: 30628884
- title: Lactobacillus salitolerans sp. nov., a novel lactic acid bacterium isolated from spent mushroom substrates.
- authors: Tohno M, Tanizawa Y, Kojima Y, Sakamoto M, Nakamura Y, Ohkuma M, Kobayashi H
- journal: Int J Syst Evol Microbiol
- DOI: 10.1099/ijsem.0.003224
- year: 2019
- mesh: *Agaricales, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Japan, Lactobacillus/*classification/isolation & purification, Multilocus Sequence Typing, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA
- topic2: Transcriptome
Reference
| @id | authors | title | doi/url | catalogue |
|---|---|---|---|---|
| 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 | |
| 65175 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-103433 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 103433) | |
| 67770 | Curators of the JCM | https://jcm.brc.riken.jp/en/ | ||
| 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 | |
| 111294 | 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-ID408167.1 |