Strain identifier
BacDive ID: 131434
Type strain: 
Species: Vibrio panuliri
Strain Designation: LBS2
Strain history: S. K. Das LBS2.
NCBI tax ID(s): 1381081 (species)
version 8.1 (current version)
General
@ref: 22661
BacDive-ID: 131434
DSM-Number: 27724
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile
description: Vibrio panuliri LBS2 is a mesophilic, motile bacterium that was isolated from eggs carried on pleopods of the spiny lobster Panulirus penicillatus.
NCBI tax id
- NCBI tax id: 1381081
- Matching level: species
strain history
| @ref | history |
|---|---|
| 22661 | <- S. Das, Inst. Life Sci., Bhubaneswar, India; LBS2 |
| 67770 | S. K. Das LBS2. |
doi: 10.13145/bacdive131434.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Vibrionales
- family: Vibrionaceae
- genus: Vibrio
- species: Vibrio panuliri
- full scientific name: Vibrio panuliri Kumari et al. 2015
@ref: 22661
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Vibrionales, not validated
family: Vibrionaceae
genus: Vibrio
species: Vibrio panuliri
full scientific name: Vibrio panuliri Kumari et al. 2015
strain designation: LBS2
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 97.56 | |
| 69480 | 99.987 | negative |
Culture and growth conditions
culture temp
- @ref: 67770
- growth: positive
- type: growth
- temperature: 28
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.969 |
Isolation, sampling and environmental information
isolation
| @ref | sample type | host species | geographic location | country | origin.country | continent | latitude | longitude |
|---|---|---|---|---|---|---|---|---|
| 22661 | eggs carried on pleopods of the spiny lobster Panulirus penicillatus | Panulirus penicillatus | Andaman Sea | India | IND | Asia | 12.2333 | 93.1667 |
| 67770 | Spiny lobster Panulirus penicillatus collected at a depth of 3.5 m in Andaman Sea | Panulirus penicillatus |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Arthropoda | #Crustacea |
| #Host Body-Site | #Other | #Abdomen |
| #Host Body Product | #Urogenital tract | #Egg |
taxonmaps
- @ref: 69479
- File name: preview.99_3965.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_14;96_71;97_74;98_3002;99_3965&stattab=map
- Last taxonomy: Vibrio
- 16S sequence: KF487035
- Sequence Identity:
- Total samples: 1262
- soil counts: 42
- aquatic counts: 733
- animal counts: 407
- plant counts: 80
Sequence information
16S sequences
- @ref: 22661
- description: Vibrio panuliri strain LBS2 16S ribosomal RNA gene, partial sequence
- accession: KF487035
- length: 1422
- database: ena
- NCBI tax ID: 1381081
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Vibrio panuliri JCM 19500 | GCA_009938205 | complete | ncbi | 1381081 |
| 66792 | Vibrio panuliri strain JCM 19500 | 1381081.15 | complete | patric | 1381081 |
| 66792 | Vibrio panuliri JCM 19500 | 2896912464 | complete | img | 1381081 |
GC content
- @ref: 22661
- GC-content: 45.3
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| motile | yes | 92.035 | no |
| flagellated | yes | 88.061 | no |
| gram-positive | no | 99.091 | no |
| anaerobic | no | 96.811 | no |
| aerobic | yes | 87.979 | no |
| halophile | yes | 58.686 | no |
| spore-forming | no | 95.114 | no |
| glucose-util | yes | 84.168 | no |
| thermophile | no | 99.081 | no |
| glucose-ferment | yes | 87.695 | no |
External links
@ref: 22661
culture collection no.: DSM 27724, JCM 19500, LMG 27902
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 25445014 | Vibrio panuliri sp. nov., a marine bacterium isolated from spiny lobster, Panulirus penicillatus and transfer of Vibrio ponticus from Scophthalmi clade to the newly proposed Ponticus clade. | Kumari P, Poddar A, Schumann P, Das SK | Res Microbiol | 10.1016/j.resmic.2014.10.012 | 2014 | Animals, Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/metabolism, Molecular Sequence Data, Palinuridae/*microbiology, Phylogeny, Vibrio/*classification/genetics/*isolation & purification/metabolism | Metabolism |
| Phylogeny | 31862126 | Vibrio taketomensis sp. nov. by genome taxonomy. | Tanaka M, Hongyu B, Jiang C, Mino S, Milet Meirelles P, Thompson F, Gomez-Gil B, Sawabe T | Syst Appl Microbiol | 10.1016/j.syapm.2019.126048 | 2019 | Coral Reefs, DNA, Bacterial/genetics, Genes, Bacterial/genetics, Genome, Bacterial/*genetics, Japan, Nucleic Acid Hybridization, Phylogeny, RNA, Ribosomal, 16S/genetics, Seawater/microbiology, Sequence Analysis, DNA, Vibrio/*classification/cytology/physiology | Genetics |
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 | |
| 22661 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-27724 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 27724) | |
| 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/ | ||
| 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 |