Strain identifier
BacDive ID: 5243
Type strain: 
Species: Mangrovibacter plantisponsor
Strain Designation: MSSRF40
Strain history: <- S. Nair, M.S. Swaminathan Research Foundation <- N. Ramesh kumar, M.S. Swaminathan Research Foundation, Taramani, India
NCBI tax ID(s): 451513 (species)
version 8.1 (current version)
General
@ref: 8190
BacDive-ID: 5243
DSM-Number: 19579
keywords: genome sequence, 16S sequence, Bacteria, facultative anaerobe, Gram-negative, motile, rod-shaped
description: Mangrovibacter plantisponsor MSSRF40 is a facultative anaerobe, Gram-negative, motile bacterium that was isolated from Porteresia coarctata from mangrove ecosystem.
NCBI tax id
- NCBI tax id: 451513
- Matching level: species
strain history
- @ref: 8190
- history: <- S. Nair, M.S. Swaminathan Research Foundation <- N. Ramesh kumar, M.S. Swaminathan Research Foundation, Taramani, India
doi: 10.13145/bacdive5243.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Gammaproteobacteria
- order: Enterobacterales
- family: Enterobacteriaceae
- genus: Mangrovibacter
- species: Mangrovibacter plantisponsor
- full scientific name: Mangrovibacter plantisponsor Rameshkumar et al. 2010
@ref: 8190
domain: Bacteria
phylum: Proteobacteria
class: Gammaproteobacteria
order: Enterobacteriales, not validated
family: Enterobacteriaceae
genus: Mangrovibacter
species: Mangrovibacter plantisponsor
full scientific name: Mangrovibacter plantisponsor Rameshkumar et al. 2010
strain designation: MSSRF40
type strain: yes
Morphology
cell morphology
| @ref | gram stain | cell length | cell width | cell shape | motility | confidence |
|---|---|---|---|---|---|---|
| 29192 | negative | 2.6 µm | 1 µm | rod-shaped | yes | |
| 69480 | yes | 98.435 | ||||
| 69480 | negative | 99.98 |
pigmentation
- @ref: 29192
- production: yes
Culture and growth conditions
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 29192 | positive | growth | 15-40 | |
| 29192 | positive | optimum | 29 | mesophilic |
Physiology and metabolism
oxygen tolerance
- @ref: 29192
- oxygen tolerance: facultative anaerobe
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.736 |
halophily
- @ref: 29192
- salt: NaCl
- growth: positive
- tested relation: growth
- concentration: 0-8 %
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 29192 | 58143 | 5-dehydro-D-gluconate | + | carbon source |
| 29192 | 24265 | gluconate | + | carbon source |
| 29192 | 25115 | malate | + | carbon source |
| 29192 | 17632 | nitrate | + | reduction |
enzymes
- @ref: 29192
- value: catalase
- activity: +
- ec: 1.11.1.6
Isolation, sampling and environmental information
isolation
- @ref: 8190
- sample type: Porteresia coarctata (plant related to wild rice) from mangrove ecosystem
- host species: Porteresia coarctata
- geographic location: Pichavaram, Tamil Nadu
- country: India
- origin.country: IND
- continent: Asia
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Aquatic | #Mangrove |
| #Host | #Plants | #Herbaceous plants (Grass,Crops) |
taxonmaps
- @ref: 69479
- File name: preview.99_5566.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_6;96_2687;97_3300;98_4154;99_5566&stattab=map
- Last taxonomy: Enterobacteriaceae
- 16S sequence: EF643377
- Sequence Identity:
- Total samples: 3500
- soil counts: 85
- aquatic counts: 517
- animal counts: 2601
- plant counts: 297
Safety information
risk assessment
- @ref: 8190
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 8190
- description: Mangroveibacter plantisponsor strain MSSRF40 16S ribosomal RNA gene, partial sequence
- accession: EF643377
- length: 1368
- database: ena
- NCBI tax ID: 451513
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Mangrovibacter plantisponsor DSM 19579 | GCA_003182475 | scaffold | ncbi | 451513 |
| 66792 | Mangrovibacter plantisponsor strain DSM 19579 | 451513.3 | wgs | patric | 451513 |
| 66792 | Mangrovibacter plantisponsor DSM 19579 | 2770939621 | draft | img | 451513 |
GC content
- @ref: 29192
- GC-content: 50.1
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| flagellated | yes | 56.004 | no |
| gram-positive | no | 98.517 | yes |
| anaerobic | no | 93.685 | yes |
| halophile | no | 82.124 | no |
| spore-forming | no | 94.27 | no |
| glucose-util | yes | 97.42 | no |
| aerobic | no | 69.705 | yes |
| thermophile | no | 99.308 | yes |
| motile | yes | 90.686 | yes |
| glucose-ferment | yes | 92.726 | no |
External links
@ref: 8190
culture collection no.: DSM 19579, LMG 24236
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 19648330 | Mangrovibacter plantisponsor gen. nov., sp. nov., a nitrogen-fixing bacterium isolated from a mangrove-associated wild rice (Porteresia coarctata Tateoka). | Rameshkumar N, Lang E, Nair S | Int J Syst Evol Microbiol | 10.1099/ijs.0.008292-0 | 2009 | Bacterial Proteins/genetics, Base Composition, DNA, Bacterial/genetics, DNA, Ribosomal/genetics, Enterobacteriaceae/*classification/genetics/*isolation & purification/metabolism, Fatty Acids/metabolism, Molecular Sequence Data, *Nitrogen Fixation, Oryza/*microbiology, Phylogeny, Plant Roots/microbiology, RNA, Ribosomal, 16S/genetics | Metabolism |
| Phylogeny | 25908712 | Mangrovibacter yixingensis sp. nov., isolated from farmland soil. | Zhang H, Guo SH, Sun B, Zhang J, Cheng MG, Li Q, Hong Q, Huang X | Int J Syst Evol Microbiol | 10.1099/ijs.0.000281 | 2015 | Agriculture, Bacterial Typing Techniques, Base Composition, China, DNA, Bacterial/genetics, Enterobacteriaceae/*classification/genetics/isolation & purification, Fatty Acids/chemistry, Genes, Bacterial, Molecular Sequence Data, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, *Soil Microbiology, Ubiquinone/chemistry | Genetics |
| Phylogeny | 28086074 | Mangrovibacter phragmitis sp. nov., an endophyte isolated from the roots of Phragmites karka. | Behera P, Venkata Ramana V, Maharana B, Joseph N, Vaishampayan P, Singh NK, Shouche Y, Bhadury P, Mishra SR, Raina V, Suar M, Pattnaik AK, Rastogi G | Int J Syst Evol Microbiol | 10.1099/ijsem.0.001789 | 2017 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Endophytes/classification/genetics/isolation & purification, Enterobacteriaceae/*classification/genetics/isolation & purification, Fatty Acids/chemistry, India, Nucleic Acid Hybridization, Phospholipids/chemistry, *Phylogeny, Plant Roots/*microbiology, Poaceae/*microbiology, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA | Enzymology |
Reference
| @id | authors | catalogue | doi/url | title | ID_cross_reference | pubmed |
|---|---|---|---|---|---|---|
| 8190 | Curators of the DSMZ | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 19579) | https://www.dsmz.de/collection/catalogue/details/culture/DSM-19579 | |||
| 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 | |||
| 29192 | Barberan A, Caceres Velazquez H, Jones S, Fierer N. | 10.1128/mSphere.00237-17 | Hiding in Plain Sight: Mining Bacterial Species Records for Phenotypic Trait Information | 25616 | 28776041 | |
| 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) | |||
| 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 |