First-tier detection of intragenomic 16S rRNA gene variation in culturable endophytic bacteria from cacao seeds.

ABSTRACT:

Background

Intragenomic variability in 16S rDNA is a limiting factor for taxonomic and diversity characterization of Bacteria, and studies on its occurrence in natural/environmental populations are scarce. In this work, direct DNA amplicon sequencing coupled with frequent-cutter restriction analysis allowed detection of intragenomic 16S rDNA variation in culturable endophytic bacteria from cacao seeds in a fast and attractive manner.

Methods

Total genomic DNA from 65 bacterial strains was extracted and the 16S rDNA hyper variable V5-V9 regions were amplified for enzyme digestion and direct Sanger-type sequencing. The resulting electropherograms were visually inspected and compared to the corresponding AluI-restriction profiles, as well as to complete genome sequences

SUBMITTER: da Silva CB 

PROVIDER: S-EPMC6874854 | biostudies-literature | 2019

REPOSITORIES: biostudies-literature