Strain identifier
BacDive ID: 6606
Type strain:
Species: Ligilactobacillus acidipiscis
Strain Designation: FS60-1
Strain history: CIP <- 2000, S. Tanasupawat, Bangkok, Thailand: strain FS60-1
NCBI tax ID(s): 1423716 (strain), 89059 (species)
General
@ref: 6049
BacDive-ID: 6606
DSM-Number: 15836
keywords: genome sequence, 16S sequence, Bacteria, microaerophile, mesophilic, Gram-positive
description: Ligilactobacillus acidipiscis FS60-1 is a microaerophile, mesophilic, Gram-positive bacterium that was isolated from fermented fish.
NCBI tax id
NCBI tax id | Matching level |
---|---|
1423716 | strain |
89059 | species |
strain history
@ref | history |
---|---|
6049 | <- JCM <- S. Tanasupawat; FS60-1 |
67770 | S. Tanasupawat FS60-1. |
116012 | CIP <- 2000, S. Tanasupawat, Bangkok, Thailand: strain FS60-1 |
doi: 10.13145/bacdive6606.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/bacillota
- domain: Bacteria
- phylum: Bacillota
- class: Bacilli
- order: Lactobacillales
- family: Lactobacillaceae
- genus: Ligilactobacillus
- species: Ligilactobacillus acidipiscis
- full scientific name: Ligilactobacillus acidipiscis (Tanasupawat et al. 2000) Zheng et al. 2020
synonyms
@ref synonym 20215 Lactobacillus acidipiscis 20215 Lactobacillus cypricasei
@ref: 6049
domain: Bacteria
phylum: Firmicutes
class: Bacilli
order: Lactobacillales
family: Lactobacillaceae
genus: Ligilactobacillus
species: Ligilactobacillus acidipiscis
full scientific name: Ligilactobacillus acidipiscis (Tanasupawat et al. 2000) Zheng et al. 2020
strain designation: FS60-1
type strain: yes
Morphology
cell morphology
@ref | gram stain | confidence | cell shape | motility |
---|---|---|---|---|
69480 | positive | 100 | ||
116012 | positive | rod-shaped | no |
Culture and growth conditions
culture medium
@ref | name | growth | link | composition |
---|---|---|---|---|
6049 | MODIFIED MEDIUM 11 (DSMZ Medium 11a) | yes | https://mediadive.dsmz.de/medium/11a | Name: MODIFIED MEDIUM 11 (DSMZ Medium 11a) Composition: Glucose 19.8 g/l Meat extract 9.9 g/l Casein peptone 9.9 g/l Na-acetate 4.95 g/l Yeast extract 4.95 g/l (NH4)3 citrate 1.98 g/l K2HPO4 1.98 g/l Tween 80 0.99 g/l MgSO4 x 7 H2O 0.198 g/l MnSO4 x H2O 0.0495 g/l Pyridoxine hydrochloride 0.0001 g/l Thiamine-HCl x 2 H2O 5e-05 g/l Riboflavin 5e-05 g/l Nicotinic acid 5e-05 g/l Calcium pantothenate 5e-05 g/l Biotin 2e-05 g/l Folic acid 2e-05 g/l p-Aminobenzoic acid 1e-05 g/l Vitamin B12 1e-07 g/l Distilled water |
116012 | CIP Medium 40 | yes | https://catalogue-crbip.pasteur.fr/fiche_milieu.xhtml?crbip=40 |
culture temp
@ref | growth | type | temperature | range |
---|---|---|---|---|
6049 | positive | growth | 30 | mesophilic |
57262 | positive | growth | 30 | mesophilic |
67770 | positive | growth | 30 | mesophilic |
116012 | positive | growth | 22-37 | |
116012 | no | growth | 10 | psychrophilic |
116012 | no | growth | 15 | psychrophilic |
116012 | no | growth | 45 | thermophilic |
Physiology and metabolism
oxygen tolerance
@ref | oxygen tolerance |
---|---|
6049 | microaerophile |
57262 | aerobe |
116012 | facultative anaerobe |
spore formation
@ref | spore formation | confidence |
---|---|---|
69481 | no | 97 |
69480 | no | 99.991 |
halophily
- @ref: 116012
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 10 %
murein
- @ref: 6049
- murein short key: A11.31
- type: A4alpha L-Lys-D-Asp
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 | 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 | melibiose | - | builds acid from | 28053 |
68371 | lactose | - | builds acid from | 17716 |
68371 | cellobiose | - | builds acid from | 17057 |
68371 | salicin | - | builds acid from | 17814 |
68371 | arbutin | - | builds acid from | 18305 |
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 | 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 | 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 |
116012 | nitrate | - | reduction | 17632 |
116012 | nitrite | - | reduction | 16301 |
116012 | nitrate | + | respiration | 17632 |
antibiotic resistance
- @ref: 116012
- metabolite: 0129 (2,4-Diamino-6,7-di-iso-propylpteridine phosphate)
- is antibiotic: yes
- is sensitive: no
- is resistant: yes
metabolite tests
- @ref: 116012
- Chebi-ID: 15688
- metabolite: acetoin
- voges-proskauer-test: -
enzymes
@ref | value | activity | ec |
---|---|---|---|
68382 | alpha-fucosidase | - | 3.2.1.51 |
68382 | alpha-mannosidase | - | 3.2.1.24 |
68382 | N-acetyl-beta-glucosaminidase | - | 3.2.1.52 |
68382 | beta-glucosidase | - | 3.2.1.21 |
68382 | alpha-glucosidase | + | 3.2.1.20 |
68382 | beta-glucuronidase | - | 3.2.1.31 |
68382 | beta-galactosidase | - | 3.2.1.23 |
68382 | alpha-galactosidase | - | 3.2.1.22 |
68382 | naphthol-AS-BI-phosphohydrolase | + | |
68382 | acid phosphatase | + | 3.1.3.2 |
68382 | alpha-chymotrypsin | - | 3.4.21.1 |
68382 | trypsin | - | 3.4.21.4 |
68382 | cystine arylamidase | - | 3.4.11.3 |
68382 | valine arylamidase | + | |
68382 | leucine arylamidase | + | 3.4.11.1 |
68382 | lipase (C 14) | - | |
68382 | esterase lipase (C 8) | - | |
68382 | esterase (C 4) | + | |
68382 | alkaline phosphatase | - | 3.1.3.1 |
116012 | oxidase | - | |
116012 | alcohol dehydrogenase | - | 1.1.1.1 |
116012 | catalase | - | 1.11.1.6 |
116012 | lysine decarboxylase | - | 4.1.1.18 |
116012 | ornithine decarboxylase | - | 4.1.1.17 |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
116012 | - | - | + | - | - | + | + | - | - | - | + | + | - | - | - | + | - | - | - | - |
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 |
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
6049 | - | - | - | - | - | - | - | - | - | - | + | + | + | + | - | - | - | - | - | - | - | + | + | + | - | + | - | - | + | - | - | + | + | - | - | - | - | - | - | - | + | - | - | - | - | - | - | - | - | - |
116012 | - | - | - | - | +/- | - | - | - | - | +/- | +/- | +/- | +/- | - | - | - | - | - | - | - | +/- | - | - | - | - | - | - | +/- | - | - | +/- | +/- | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
@ref | sample type | country | origin.country | continent | isolation date |
---|---|---|---|---|---|
6049 | fermented fish | Thailand | THA | Asia | |
67770 | Fermented fish (pla-ra) | Thailand | THA | Asia | |
116012 | Fermented fish | Thailand | THA | Asia | 1996 |
isolation source categories
Cat1 | Cat2 | Cat3 |
---|---|---|
#Engineered | #Food production | #Seafood |
#Host | #Fishes | |
#Engineered | #Food production | #Fermented |
taxonmaps
- @ref: 69479
- File name: preview.99_1644.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_45;96_937;97_1090;98_1300;99_1644&stattab=map
- Last taxonomy: Ligilactobacillus
- 16S sequence: LC145575
- Sequence Identity:
- Total samples: 24138
- soil counts: 1132
- aquatic counts: 706
- animal counts: 21773
- plant counts: 527
Safety information
risk assessment
@ref | biosafety level | biosafety level comment |
---|---|---|
6049 | 1 | Risk group (German classification) |
116012 | 1 | Risk group (French classification) |
Sequence information
16S sequences
@ref | description | accession | length | database | NCBI tax ID |
---|---|---|---|---|---|
20218 | Lactobacillus acidipiscis gene for 16S rRNA, partial sequence, strain: JCM 10692 | AB289009 | 680 | ena | 89059 |
6049 | Lactobacillus sp. FS60-1 gene for 16S rRNA, partial sequence | AB023836 | 1406 | ena | 89059 |
67770 | Lactobacillus acidipiscis gene for 16S ribosomal RNA, partial sequence, strain: JCM 10692 | LC145575 | 1411 | ena | 89059 |
Genome sequences
@ref | description | accession | assembly level | database | NCBI tax ID |
---|---|---|---|---|---|
66792 | Ligilactobacillus acidipiscis NBRC 102163 | GCA_007991135 | contig | ncbi | 89059 |
66792 | Ligilactobacillus acidipiscis JCM 10692 | GCA_002117995 | scaffold | ncbi | 89059 |
66792 | Lactobacillus acidipiscis DSM 15836 | 1423716.3 | wgs | patric | 1423716 |
66792 | Lactobacillus acidipiscis strain JCM 10692 | 89059.4 | wgs | patric | 89059 |
66792 | Lactobacillus acidipiscis strain NBRC 102163 | 89059.10 | wgs | patric | 89059 |
66792 | Ligilactobacillus acidipiscis DSM 15836 | 2667527822 | draft | img | 1423716 |
67770 | Ligilactobacillus acidipiscis DSM 15836 | GCA_001435755 | scaffold | ncbi | 1423716 |
GC content
@ref | GC-content | method |
---|---|---|
6049 | 38.7 | |
67770 | 38.7 | high performance liquid chromatography (HPLC) |
67770 | 39.1 | genome sequence analysis |
Genome-based predictions
predictions
trait | prediction | confidence | training_data |
---|---|---|---|
spore-forming | no | 97 | no |
motile | yes | 64.079 | no |
gram-positive | yes | 93.436 | no |
anaerobic | no | 89.194 | yes |
halophile | yes | 88.41 | no |
spore-forming | no | 89.61 | no |
glucose-util | yes | 91.113 | no |
thermophile | no | 98.019 | yes |
aerobic | no | 95.355 | no |
flagellated | no | 86.583 | no |
glucose-ferment | yes | 90.691 | no |
External links
@ref: 6049
culture collection no.: CCUG 46556, CIP 106750, PCU 207, DSM 15836, HSCC 1411, JCM 10692, NRIC 0300, TISTR 1386, NBRC 102163, DSM 15353
straininfo link
- @ref: 76080
- straininfo: 14972
literature
topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
---|---|---|---|---|---|---|---|---|
Phylogeny | 10939653 | Lactobacillus acidipiscis sp. nov. and Weissella thailandensis sp. nov., isolated from fermented fish in Thailand. | Tanasupawat S, Shida O, Okada S, Komagata K | Int J Syst Evol Microbiol | 10.1099/00207713-50-4-1479 | 2000 | Base Composition, Cloning, Molecular, DNA, Bacterial/chemistry/genetics, Fermentation, Fish Products/*microbiology, *Food Microbiology, *Genes, Bacterial, Gram-Positive Cocci/*classification/genetics, Lactobacillus/classification/genetics, Molecular Sequence Data, Phylogeny, RNA, Bacterial/genetics, RNA, Ribosomal, 16S/genetics | Enzymology |
Phylogeny | 19783610 | Lactobacillus pobuzihii sp. nov., isolated from pobuzihi (fermented cummingcordia). | Chen YS, Miyashita M, Suzuki KI, Sato H, Hsu JS, Yanagida F | Int J Syst Evol Microbiol | 10.1099/ijs.0.016873-0 | 2009 | Carbohydrate Metabolism, Cordia/metabolism/*microbiology, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Fermentation, Lactobacillus/*classification/genetics/*isolation & purification/metabolism, Molecular Sequence Data, Phylogeny, RNA, Ribosomal, 16S/genetics | Metabolism |
Genetics | 29942291 | Comparative Genomics of Lactobacillus acidipiscis ACA-DC 1533 Isolated From Traditional Greek Kopanisti Cheese Against Species Within the Lactobacillus salivarius Clade. | Kazou M, Alexandraki V, Blom J, Pot B, Tsakalidou E, Papadimitriou K | Front Microbiol | 10.3389/fmicb.2018.01244 | 2018 | Phylogeny | |
Phylogeny | 30628884 | Lactobacillus salitolerans sp. nov., a novel lactic acid bacterium isolated from spent mushroom substrates. | Tohno M, Tanizawa Y, Kojima Y, Sakamoto M, Nakamura Y, Ohkuma M, Kobayashi H | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003224 | 2019 | *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 | Transcriptome |
Reference
@id | authors | catalogue | doi/url | title | journal | pubmed |
---|---|---|---|---|---|---|
6049 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 15836) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-15836 | |||
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 | |
57262 | Curators of the CCUG | Culture Collection University of Gothenburg (CCUG) (CCUG 46556) | https://www.ccug.se/strain?id=46556 | |||
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) | |||
66794 | Antje Chang, Lisa Jeske, Sandra Ulbrich, Julia Hofmann, Julia Koblitz, Ida Schomburg, Meina Neumann-Schaal, Dieter Jahn, Dietmar Schomburg | 10.1093/nar/gkaa1025 | BRENDA, the ELIXIR core data resource in 2021: new developments and updates | 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 | |||||
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 | |||
76080 | Reimer, L.C., Lissin, A.,Schober, I., Witte,J.F., Podstawka, A., Lüken, H., Bunk, B.,Overmann, J. | 10.60712/SI-ID14972.1 | StrainInfo: A central database for resolving microbial strain identifiers | |||
116012 | Curators of the CIP | Collection of Institut Pasteur (CIP 106750) | https://catalogue-crbip.pasteur.fr/fiche_catalogue.xhtml?crbip=CIP%20106750 |