Strain identifier
BacDive ID: 24071
Type strain: 
Species: Natronorubrum texcoconense
Strain Designation: B4
Strain history: L. Dendooven B4.
NCBI tax ID(s): 1095776 (species)
version 8.1 (current version)
General
@ref: 20676
BacDive-ID: 24071
DSM-Number: 25211
keywords: genome sequence, 16S sequence, Archaea, mesophilic
description: Natronorubrum texcoconense B4 is a mesophilic archaeon that was isolated from soil saline-alkaline.
NCBI tax id
- NCBI tax id: 1095776
- Matching level: species
strain history
| @ref | history |
|---|---|
| 20676 | <- L. Dendooven, Cinvestav, Dept. Biotechnology and Bioengineer; B4 <- E. Ruiz-Romero |
| 67770 | L. Dendooven B4. |
doi: 10.13145/bacdive24071.20230509.8.1
Name and taxonomic classification
LPSN
- @ref: 20215
- description: domain/archaea
- keyword: phylum/methanobacteriota
- domain: Archaea
- phylum: Methanobacteriota
- class: Halobacteria
- order: Natrialbales
- family: Natrialbaceae
- genus: Natronorubrum
- species: Natronorubrum texcoconense
- full scientific name: Natronorubrum texcoconense Ruiz-Romero et al. 2013
@ref: 20676
domain: Archaea
phylum: Euryarchaeota
class: Halobacteria
order: Halobacteriales
family: Natrialbaceae
genus: Natronorubrum
species: Natronorubrum texcoconense
full scientific name: Natronorubrum texcoconense Ruiz-Romero et al. 2013
strain designation: B4
type strain: yes
Morphology
colony morphology
- @ref: 20676
- incubation period: 3-7 days
Culture and growth conditions
culture medium
- @ref: 20676
- name: NATRONOBACTERIA MEDIUM (DSMZ Medium 371)
- growth: yes
- link: https://mediadive.dsmz.de/medium/371
- composition: Name: NATRONOBACTERIA MEDIUM (DSMZ Medium 371) Composition: NaCl 200.0 g/l Agar 20.0 g/l Casamino acids 5.0 g/l Yeast extract 5.0 g/l Na2CO3 5.0 g/l Na2-glutamate 1.0 g/l KH2PO4 1.0 g/l KCl 1.0 g/l NH4Cl 1.0 g/l MgSO4 x 7 H2O 0.24 g/l CaSO4 x 2 H2O 0.17 g/l HCl 0.0025 g/l FeCl2 x 4 H2O 0.0015 g/l CoCl2 x 6 H2O 0.00019 g/l MnCl2 x 4 H2O 0.0001 g/l ZnCl2 7e-05 g/l Na2MoO4 x 2 H2O 3.6e-05 g/l NiCl2 x 6 H2O 2.4e-05 g/l H3BO3 6e-06 g/l CuCl2 x 2 H2O 2e-06 g/l Distilled water
culture temp
| @ref | growth | type | temperature | range |
|---|---|---|---|---|
| 20676 | positive | growth | 37 | mesophilic |
| 67770 | positive | growth | 37 | mesophilic |
Isolation, sampling and environmental information
isolation
| @ref | sample type | geographic location | country | origin.country | continent | latitude | longitude |
|---|---|---|---|---|---|---|---|
| 20676 | soil saline-alkaline | former lake of Texcoco (19°30'52''N 98°59'24''W) | Mexico | MEX | North America | 19.5144 | -98.99 |
| 67770 | Soil of the former lake Texcoco in Mexico |
isolation source categories
| Cat1 | Cat2 | Cat3 |
|---|---|---|
| #Environmental | #Terrestrial | #Soil |
| #Condition | #Alkaline | |
| #Condition | #Saline |
taxonmaps
- @ref: 69479
- File name: preview.99_188390.png
- url: https://microbeatlas.org/index.html?action=taxon&taxon_id=90_17652;96_69484;97_90250;98_122661;99_188390&stattab=map
- Last taxonomy: Natronorubrum
- 16S sequence: HQ456225
- Sequence Identity:
- Total samples: 16
- aquatic counts: 15
- animal counts: 1
Safety information
risk assessment
- @ref: 20676
- biosafety level: 1
- biosafety level comment: Risk group (German classification)
Sequence information
16S sequences
| @ref | description | accession | length | database | NCBI tax ID |
|---|---|---|---|---|---|
| 20676 | Natronorubrum texcoconense strain B4 16S ribosomal RNA gene, partial sequence | HQ456225 | 1394 | ena | 1095776 |
| 67770 | Natronorubrum texcoconense strain B4 RNA polymerase subunit B' (rpoB) gene, partial cds | JQ736672 | 1228 | ena | 1095776 |
Genome sequences
| @ref | description | accession | assembly level | database | NCBI tax ID |
|---|---|---|---|---|---|
| 66792 | Natronorubrum texcoconense DSM 25211 | 2636416021 | draft | img | 1095776 |
| 67770 | Natronorubrum texcoconense B4,CECT 8067,JCM 17497 | GCA_900100335 | contig | ncbi | 1095776 |
| 66792 | Natronorubrum texcoconense strain B4,CECT 8067,JCM 17497 | 1095776.3 | wgs | patric | 1095776 |
GC content
- @ref: 20676
- GC-content: 63.3
- method: high performance liquid chromatography (HPLC)
External links
@ref: 20676
culture collection no.: DSM 25211, CECT 8067, JCM 17497
straininfo link
- @ref: 88041
- straininfo: 388326
literature
- topic: Phylogeny
- Pubmed-ID: 23187705
- title: Natronorubrum texcoconense sp. nov., a haloalkaliphilic archaeon isolated from soil of the former lake Texcoco (Mexico).
- authors: Ruiz-Romero E, Valenzuela-Encinas C, Lopez-Ramirez MP, de los Angeles Coutino-Coutino M, Marsch R, Dendooven L
- journal: Arch Microbiol
- DOI: 10.1007/s00203-012-0852-8
- year: 2012
- mesh: Bacterial Typing Techniques, Base Composition, Base Sequence, DNA, Archaeal/genetics, Genes, rRNA, Halobacteriaceae/*classification/genetics/isolation & purification, Hydrogen-Ion Concentration, Lakes/*microbiology, Mexico, Molecular Sequence Data, Phospholipids/genetics, *Phylogeny, RNA, Ribosomal, 16S/genetics, Sequence Analysis, DNA, Sodium Chloride, *Soil Microbiology, Temperature
- topic2: 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 | |
| 20676 | Curators of the DSMZ | https://www.dsmz.de/collection/catalogue/details/culture/DSM-25211 | Leibniz Institut DSMZ-Deutsche Sammlung von Mikroorganismen und Zellkulturen GmbH (DSM 25211) | |
| 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/ | |
| 88041 | 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-ID388326.1 |