Screening of segregating F2 progenies and validation of DNA markers through bulk segregant analysis for phosphorous deficiency tolerance in rice

Abstract

Phosphorous deficiency (PD) tolerance is a polygenic trait. The underlying genetics of PD tolerance trait is important to provide the basis for detecting Quantitative Trait Loci (QTLs) and validating markers that could be used in Marker Assisted Breeding (MAB) in rice. The PD tolerance of Sri Lankan rice germplasm has been characterized. However, no attempts were taken to develop and validate the DNA markers for the breeding purposes and to understand the genetic basis of the traits. The present research project was conducted to assess the PD related traits and to validate internationally published DNA markers that are linked to PD tolerance using Sri Lankan rice cultivars. A total of 84 crosses were made and advanced to F 2 and higher generations. Out of these crosses, an important subset of three crosses was selected based on the overall PD tolerance and sensitivity, importance as mega production varieties and pedigree connections between the cultivars. The plant height, number of tillers, shoot dry weight, leaf width, flag leaf width and the color metrics L*, a*, b*, hue (h*) and chroma (C*) were measured from 200 individuals each from the three populations grown under P deficient (P o) soil conditions. Except color traits, other traits were normally distributed and exhibited higher broad sensitivity. The color metrics indicate the presence of possible epistatic interactions between the major underlying loci. From each population, two extreme bulks were selected from the highest and lowest ends of shoot dry weight (SDW) for bulk segregant analyses (BSA) to validate the DNA markers for PD tolerance. It was observed that, DNA marker K46-K1 can be used for MAB of rice for PD tolerance. The genetic information generated in the present study can also be used for larger scale genomic studies such as SNPs, GBS and GWAS mapping.