New genus-specific primers for PCR identification of Rubrobacter strains
| Autor: | Jean Franco Castro, Michael Goodfellow, Juan A. Asenjo, Barbara A. Andrews, Imen Nouioui, Alan T. Bull |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2019 |
| Předmět: |
DNA
Bacterial Genus-specific primers Rubrobacter Microbiology DNA Ribosomal Polymerase Chain Reaction Sensitivity and Specificity Actinobacteria 03 medical and health sciences Genus RNA Ribosomal 16S Environmental DNA Molecular Biology Gene Soil Microbiology 030304 developmental biology Taxonomy DNA Primers Genetics 0303 health sciences Original Paper Atacama desert biology 030306 microbiology Nucleic acid sequence General Medicine South America biology.organism_classification 16S ribosomal RNA Molecular Diagnostic Techniques Taxonomy (biology) |
| Zdroj: | Antonie Van Leeuwenhoek |
| ISSN: | 1572-9699 0003-6072 |
| Popis: | A set of oligonucleotide primers, Rubro223f and Rubro454r, were found to amplify a 267 nucleotide sequence of 16S rRNA genes of Rubrobacter type strains. The primers distinguished members of this genus from other deeply-rooted actinobacterial lineages corresponding to the genera Conexibacter, Gaiella, Parviterribacter, Patulibacter, Solirubrobacter and Thermoleophilum of the class Thermoleophilia. Amplification of DNA bands of about 267 nucleotides were generated from environmental DNA extracted from soil samples taken from two locations in the Atacama Desert. Sequencing of a DNA library prepared from the bands showed that all of the clones fell within the evolutionary radiation occupied by the genus Rubrobacter. Most of the clones were assigned to two lineages that were well separated from phyletic lines composed of Rubrobacter type strains. It can be concluded that primers Rubro223f and Rubro454r are specific for the genus Rubrobacter and can be used to detect the presence and abundance of members of this genus in the Atacama Desert and other biomes. Electronic supplementary material The online version of this article (10.1007/s10482-019-01314-3) contains supplementary material, which is available to authorized users. |
| Databáze: | OpenAIRE |
| Externí odkaz: |
|
Full text from SpringerLink