Strain identifier
BacDive ID: 24312
Type strain: 
Species: Mesorhizobium tamadayense
Strain Designation: Ala-3
Strain history: <- CECT <- M. Léon-Barrios, Univ. de La Laguna, Spain; Ala-3
NCBI tax ID(s): 425306 (species)
version 8.1 (current version)
General
@ref: 21148
BacDive-ID: 24312
DSM-Number: 28320
keywords: genome sequence, 16S sequence, Bacteria, mesophilic, motile
description: Mesorhizobium tamadayense Ala-3 is a mesophilic, motile bacterium that was isolated from root nodules of A. latifolia.
NCBI tax id
- NCBI tax id: 425306
- Matching level: species
strain history
- @ref: 21148
- history: <- CECT <- M. Léon-Barrios, Univ. de La Laguna, Spain; Ala-3
doi: 10.13145/bacdive24312.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/bacteria
- keyword: phylum/pseudomonadota
- domain: Bacteria
- phylum: Pseudomonadota
- class: Alphaproteobacteria
- order: Hyphomicrobiales
- family: Phyllobacteriaceae
- genus: Mesorhizobium
- species: Mesorhizobium tamadayense
- full scientific name: Mesorhizobium tamadayense Ramírez-Bahena et al. 2012
@ref: 21148
domain: Bacteria
phylum: Proteobacteria
class: Alphaproteobacteria
order: Rhizobiales
family: Phyllobacteriaceae
genus: Mesorhizobium
species: Mesorhizobium tamadayense
full scientific name: Mesorhizobium tamadayense Ramírez-Bahena et al. 2012
strain designation: Ala-3
type strain: yes
Morphology
cell morphology
| @ref | motility | confidence | gram stain |
|---|---|---|---|
| 69480 | yes | 92.915 | |
| 69480 | 99.979 | negative |
colony morphology
- @ref: 21148
- incubation period: 2-3 days
Culture and growth conditions
culture medium
| @ref | name | growth | link | composition |
|---|---|---|---|---|
| 21148 | RHIZOBIUM MEDIUM (DSMZ Medium 98) | yes | https://mediadive.dsmz.de/medium/98 | Name: RHIZOBIUM MEDIUM (DSMZ Medium 98) Composition: air-dried garden soil 80.0 g/l Agar 15.0 g/l Mannitol 10.0 g/l Yeast extract 1.0 g/l Na2CO3 0.2 g/l Distilled water |
| 21148 | NUTRIENT AGAR (DSMZ Medium 1) | yes | https://mediadive.dsmz.de/medium/1 | Name: NUTRIENT AGAR (DSMZ Medium 1) Composition: Agar 15.0 g/l Peptone 5.0 g/l Meat extract 3.0 g/l Distilled water |
culture temp
- @ref: 21148
- growth: positive
- type: growth
- temperature: 30
- range: mesophilic
Physiology and metabolism
spore formation
| @ref | spore formation | confidence |
|---|---|---|
| 69481 | no | 100 |
| 69480 | no | 99.997 |
metabolite utilization
| @ref | Chebi-ID | metabolite | utilization activity | kind of utilization tested |
|---|---|---|---|---|
| 68369 | 25115 | malate | - | assimilation |
| 68369 | 17128 | adipate | - | assimilation |
| 68369 | 27689 | decanoate | - | assimilation |
| 68369 | 24265 | gluconate | - | assimilation |
| 68369 | 17306 | maltose | - | assimilation |
| 68369 | 59640 | N-acetylglucosamine | + | assimilation |
| 68369 | 16899 | D-mannitol | - | assimilation |
| 68369 | 16024 | D-mannose | - | assimilation |
| 68369 | 30849 | L-arabinose | + | assimilation |
| 68369 | 17634 | D-glucose | - | assimilation |
| 68369 | 5291 | gelatin | - | hydrolysis |
| 68369 | 29016 | arginine | - | hydrolysis |
| 68369 | 17634 | D-glucose | - | fermentation |
| 68369 | 27897 | tryptophan | - | energy source |
| 68369 | 17632 | nitrate | - | reduction |
metabolite production
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- production: no
metabolite tests
- @ref: 68369
- Chebi-ID: 35581
- metabolite: indole
- indole test: -
enzymes
| @ref | value | activity | ec |
|---|---|---|---|
| 21148 | catalase | + | 1.11.1.6 |
| 21148 | cytochrome-c oxidase | + | 1.9.3.1 |
| 68369 | gelatinase | - | |
| 68369 | arginine dihydrolase | - | 3.5.3.6 |
API 20NE
| @ref | NO3 | TRP | GLU_ Ferm | ADH Arg | URE | ESC | GEL | PNPG | GLU_ Assim | ARA | MNE | MAN | NAG | MAL | GNT | CAP | ADI | MLT | CIT | PAC |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
| 21148 | - | - | - | - | +/- | +/- | - | +/- | - | + | - | - | + | - | - | - | - | - | - | - |
Isolation, sampling and environmental information
isolation
- @ref: 21148
- sample type: root nodules of A. latifolia
- host species: Anagyris latifolia
- geographic location: Tenerife, Arico
- country: Spain
- origin.country: ESP
- continent: Europe
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Host | #Plants | #Tree |
| #Host Body-Site | #Plant | #Root nodule |
taxonmaps
- @ref: 69479
- File name: preview.99_1684.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_5;96_220;97_239;98_268;99_1684&stattab=map
- Last taxonomy: Mesorhizobium
- 16S sequence: AM491621
- Sequence Identity:
- Total samples: 4459
- soil counts: 2635
- aquatic counts: 507
- animal counts: 282
- plant counts: 1035
Safety information
risk assessment
- @ref: 21148
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
- @ref: 21148
- description: Mesorhizobium tamadayense partial 16S rRNA gene, type strain Ala-3T
- accession: AM491621
- length: 1477
- database: ena
- NCBI tax ID: 425306
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Mesorhizobium tamadayense DSM 28320 | GCA_003863365 | contig | ncbi | 425306 |
| 66792 | Mesorhizobium tamadayense strain DSM 28320 | 425306.3 | wgs | patric | 425306 |
GC content
- @ref: 21148
- GC-content: 60.3
Genome-based predictions
predictions
| trait | prediction | confidence | training_data |
|---|---|---|---|
| spore-forming | no | 100 | no |
| gram-positive | no | 97.508 | no |
| anaerobic | no | 99.025 | no |
| halophile | no | 93.001 | no |
| spore-forming | no | 93.715 | no |
| glucose-util | yes | 89.204 | yes |
| aerobic | yes | 93.97 | no |
| flagellated | no | 83.244 | no |
| thermophile | no | 99.127 | yes |
| motile | yes | 86.657 | no |
| glucose-ferment | no | 89.735 | no |
External links
@ref: 21148
culture collection no.: DSM 28320, CECT 8040, LMG 26736
straininfo link
- @ref: 88245
- straininfo: 378858
literature
| topic | Pubmed-ID | title | authors | journal | DOI | year | mesh | topic2 |
|---|---|---|---|---|---|---|---|---|
| Phylogeny | 22749782 | Mesorhizobial strains nodulating Anagyris latifolia and Lotus berthelotii in Tamadaya ravine (Tenerife, Canary Islands) are two symbiovars of the same species, Mesorhizobium tamadayense sp. nov. | Ramirez-Bahena MH, Hernandez M, Peix A, Velazquez E, Leon-Barrios M | Syst Appl Microbiol | 10.1016/j.syapm.2012.05.003 | 2012 | Bayes Theorem, DNA, Bacterial/analysis, Fabaceae/*microbiology, Lotus/microbiology, Mesorhizobium/*classification/genetics/isolation & purification, Molecular Sequence Data, Multilocus Sequence Typing, Phenotype, Phylogeny, Root Nodules, Plant/microbiology, Spain | Genetics |
| Phylogeny | 31046898 | Oceaniradius stylonematis gen. nov., sp. nov., isolated from a red alga, Stylonema cornu-cervi. | Jeong SE, Kim KH, Lhee D, Yoon HS, Quan ZX, Lee EY, Jeon CO | Int J Syst Evol Microbiol | 10.1099/ijsem.0.003413 | 2019 | Bacterial Typing Techniques, Base Composition, DNA, Bacterial/genetics, Fatty Acids/chemistry, Phospholipids/chemistry, Phyllobacteriaceae/*classification/isolation & purification, *Phylogeny, RNA, Ribosomal, 16S/genetics, Republic of Korea, Rhodophyta/*microbiology, Sequence Analysis, DNA, Ubiquinone/chemistry | 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 | |
| 21148 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-28320 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 28320) | |
| 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 | |
| 68369 | Automatically annotated from API 20NE | |||
| 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 | |
| 88245 | 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-ID378858.1 |