Unveiling the genetic architecture of barley embryo: QTL mapping, candidate genes identification and its relationship with kernel size and early vigour.

Abstract

Keymessage: In this first QTL mapping study of embryo size in barley, novel and stable QTL were identified and candidate genes underlying a significant locus independent of kernel size were identified based on orthologous analysis and comparison of the whole-genome assemblies for both parental genotypes of the mapping population. Embryo, also known as germ, in cereal grains plays a crucial role in plant development. The embryo accounts for only a small portion of grain weight but it is rich in nutrients. Larger embryo translates to a more nutritious grain and larger store of energy reserves, which can benefit seed germination and seedling establishment. However, reports on quantitative trait loci (QTL) affecting embryo size in barley is rare. To understand the genetic basis of embryo size in barley, a population consisting of 201 F9 recombination inbred lines (RILs) was assessed in four environments. Three regions affecting various characteristics of embryo size including embryo length (EL), embryo width (EW) and embryo area (EA) were consistently identified. They located on chromosomes 2H, 4H and 7H, respectively. Among them, the QTL on 7H was not significantly affected by kernel size. Phenotypic variances explained by this QTL for EL, EW and EA were 11.8%, 9.3% and 12.7%, respectively. Taken advantage of the available genomic assemblies of the two parental genotypes, candidate genes for this locus on 7H were identified. In addition, significant correlations between embryo size and early vigour and kernel traits were detected. To our knowledge, the present study is for the first time reporting QTL conferring embryo size by directly measuring the characteristics as quantitative trait in barley, which would broaden our understanding of the genetic basis of barley embryo size and offer valuable targets for future breeding programmes.