K-seq, an affordable, reliable, and open Klenow NGS-based genotyping technology.

ABSTRACT:

Background

K-seq, a new genotyping methodology based on the amplification of genomic regions using two steps of Klenow amplification with short oligonucleotides, followed by standard PCR and Illumina sequencing, is presented. The protocol was accompanied by software developed to aid with primer set design.

Results

As the first examples, K-seq in species as diverse as tomato, dog and wheat was developed. K-seq provided genetic distances similar to those based on WGS in dogs. Experiments comparing K-seq and GBS in tomato showed similar genetic results, although K-seq had the advantage of finding more SNPs for the same number of Illumina reads. The technology reproducibility was tested with two independent runs of the tomato samples, and the correlation coefficient of the SNP c

SUBMITTER: Ziarsolo P 

PROVIDER: S-EPMC7993484 | biostudies-literature | 2021 Mar

REPOSITORIES: biostudies-literature