Back to Search
Start Over
An rpoB signature sequence provides unique resolution for the molecular typing of cyanobacteria
- Source :
- International Journal of Systematic and Evolutionary Microbiology, International Journal of Systematic and Evolutionary Microbiology, Microbiology Society, 2011, 61 (1), pp.170-183. ⟨10.1099/ijs.0.019018-0⟩, International Journal of Systematic and Evolutionary Microbiology, 2011, 61 (1), pp.170-183. ⟨10.1099/ijs.0.019018-0⟩
- Publication Year :
- 2011
- Publisher :
- HAL CCSD, 2011.
-
Abstract
- The use of morphological characters for the classification of cyanobacteria has often led to ambiguous strain assignment. In the past two decades, the availability of sequences, such as those of the 16S rRNA,nif,cpcandrpoC1genes, and the use of metagenomics, has steadily increased and has made the reconstruction of evolutionary relationships of some cyanobacterial groups possible in addition to improving strain assignment. Conserved indels (insertions/deletions) are present in all cyanobacterial RpoB (βsubunit of RNA polymerase) sequences presently available in public databases. These indels are located in the Rpb2_6 domain of RpoB, which is involved in DNA binding and DNA-directed RNA polymerase activity. They are variable in length (6–44 aa) and sequence, and form part of what appears to be a longer signature sequence (43–81 aa). Indeed, a number of these sequences turn out to be distinctive among several strains of a given genus and even among strains of a given species. These signature sequences can thus be used to identify cyanobacteria at a subgenus level and can be useful molecular markers to establish the taxonomic positions of cyanobacterial isolates in laboratory cultures, and/or to assess cyanobacterial biodiversity in space and time in natural ecosystems.
- Subjects :
- DNA, Bacterial
NJ
[SDV]Life Sciences [q-bio]
Biology
Cyanobacteria
Microbiology
MESH: Bacterial Typing Techniques
MESH: INDEL Mutation
03 medical and health sciences
chemistry.chemical_compound
Bacterial Proteins
INDEL Mutation
maximum-parsimony
RNA polymerase
Indel
Gene
MESH: Bacterial Proteins
Ecology, Evolution, Behavior and Systematics
030304 developmental biology
Genetics
0303 health sciences
MESH: Molecular Typing
030306 microbiology
MP
DNA-Directed RNA Polymerases
General Medicine
MESH: Cyanobacteria
rpoB
16S ribosomal RNA
ML
neighbour-joining
MESH: DNA, Bacterial
Bacterial Typing Techniques
MESH: DNA-Directed RNA Polymerases
Molecular Typing
[SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology
chemistry
Evolutionary biology
Metagenomics
maximum-likelihood
Subgenus
DNA
Subjects
Details
- Language :
- English
- ISSN :
- 14665026 and 14665034
- Database :
- OpenAIRE
- Journal :
- International Journal of Systematic and Evolutionary Microbiology, International Journal of Systematic and Evolutionary Microbiology, Microbiology Society, 2011, 61 (1), pp.170-183. ⟨10.1099/ijs.0.019018-0⟩, International Journal of Systematic and Evolutionary Microbiology, 2011, 61 (1), pp.170-183. ⟨10.1099/ijs.0.019018-0⟩
- Accession number :
- edsair.doi.dedup.....55c47c3174b84cc764ff94716ec8b38a