Sequencing vs. amplification for the estimation of allele dosages in sugarcane (Saccharum spp.).

ABSTRACT:

Premise

Detecting single-nucleotide polymorphisms (SNPs) in a cost-effective way is fundamental in any plant breeding pipeline. Here, we compare three genotyping techniques for their ability to reproduce the allele dosage of SNPs of interest in sugarcane (Saccharum spp.).

Methods

To identify a reproducible technique to estimate allele dosage for the validation of SNP markers, the correlation between Flex-Seq, kompetitive allele-specific PCR (KASP), and genotyping-by-sequencing and restriction site-associated DNA sequencing (GBS+RADseq) was determined for a set of 76 SNPs. To find alternative methodologies for allele dosage estimation, the KASP and Flex-Seq techniques were compared for the same set of SNPs. For the three techniques, a population of 53 genotypes from th

SUBMITTER: Jaimes H 

PROVIDER: S-EPMC11443436 | biostudies-literature | 2024 Sep-Oct

REPOSITORIES: biostudies-literature