Evaluation of whole genome amplification and bioinformatic methods for the characterization of Leishmania genomes at a single cell level.

ABSTRACT: Here, we report a pilot study paving the way for further single cell genomics studies in Leishmania. First, the performances of two commercially available kits for Whole Genome Amplification (WGA), PicoPLEX and RepliG were compared on small amounts of Leishmania donovani DNA, testing their ability to preserve specific genetic variations, including aneuploidy levels and SNPs. We show here that the choice of WGA method should be determined by the planned downstream genetic analysis, PicoPLEX and RepliG performing better for aneuploidy and SNP calling, respectively. This comparison allowed us to evaluate and optimize corresponding bio-informatic methods. As PicoPLEX was shown to be the preferred method for studying single cell aneuploidy, this method was applied in a second step, on single ce

SUBMITTER: Imamura H 

PROVIDER: S-EPMC7490275 | biostudies-literature | 2020 Sep

REPOSITORIES: biostudies-literature