Swga: a primer design toolkit for selective whole genome amplification.

ABSTRACT:

Motivation

Population genomic analyses are often hindered by difficulties in obtaining sufficient numbers of genomes for analysis by DNA sequencing. Selective whole-genome amplification (SWGA) provides an efficient approach to amplify microbial genomes from complex backgrounds for sequence acquisition. However, the process of designing sets of primers for this method has many degrees of freedom and would benefit from an automated process to evaluate the vast number of potential primer sets.

Results

Here, we present swga , a program that identifies primer sets for SWGA and evaluates them for efficiency and selectivity. We used swga to design and test primer sets for the selective amplification of Wolbachia pipientis genomic DNA from infected Drosophila melanogaster and Mycoba

SUBMITTER: Clarke EL 

PROVIDER: S-EPMC5870857 | biostudies-literature | 2017 Jul

REPOSITORIES: biostudies-literature