Hairs on the leaf are an important agronomic characteristic for rice growth and farming. The segregation ratio of pubescence in the F2 population showed that the pubescence on the leaf is controlled by a single dominant gene. Fine mapping for the gene was carried out by producing an Indel (insertion-deletion) primer based on BSA-Seq data. Results of the analysis revealed within the candidate site the presence of HL6, a published pubescence gene. By haplotype analysis of HL6 in the core-collection data, SNPs were found in HL6’s exons between the plants. These sequence variations can be useful for marker-assisted selection.
Rice domestication has led to cultivated rice with no or short awns. Discovery of novel genes associated to awn length is of paramount importance for understanding the molecular mechanisms for the transformation of wild rice long awns to awnless cultivated rice. In this study, we employed Next-Generation Sequencing based QTL-seq approach to identify genomic regions associated with awn length using mapping population derived from a cross between awnless Tun Sart and awned Sobaekmangsudo. QTL-seq analysis identified two awn length QTLs viz. qAwn-4 (12.8-20.3 Mb) and qAwn-8 (22.3-27.2 Mb) on chromosome 4 and 8, respectively. Based on the sequence comparison between the two parents, Os04g0350700 (bHLH transcription factor) was postulated to be the candidate of Awn-4 gene. Further discovery of the novel genes in qAwn-8 interval will provide insights into the genetic architecture of awn length.
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