Genome-wide association study and candidate gene analysis of alkalinity tolerance in japonica rice germplasm at the seedling stage.

ABSTRACT:

Background

Salinity-alkalinity stress is one of the major factors limiting rice production. The damage caused by alkaline salt stress to rice growth is more severe than that caused by neutral salt stress. At present, the genetic resources (quantitative trait loci (QTLs) and genes) that can be used by rice breeders to improve alkalinity tolerance are limited. Here, we assessed the alkalinity tolerance of rice at the seedling stage and performed a genome-wide association study (GWAS) based on genotypic data including 788,396 single-nucleotide polymorphisms (SNPs) developed by re-sequencing 295 japonica rice varieties.

Results

We used the score of alkalinity tolerance (SAT), the concentrations of Na⁺ and K⁺ in the shoots (SNC and SKC, respectively) and the

SUBMITTER: Li N 

PROVIDER: S-EPMC6459459 | biostudies-literature | 2019 Apr

REPOSITORIES: biostudies-literature