Dissecting a heterotic gene through GradedPool-Seq mapping informs a rice-improvement strategy

Abstract

Hybrid rice breeding for exploiting hybrid vigor, heterosis, has greatly increased grain yield. However, the heterosis-related genes associated with rice grain production remain largely unknown, partly because comprehensive mapping of heterosis-related traits is still labor-intensive and time-consuming. Here, we present a quantitative trait locus (QTL) mapping method, GradedPool-Seq, for rapidly mapping QTLs by whole-genome sequencing of graded-pool samples from F 2 progeny via bulked-segregant analysis. We implement this method and map-based cloning to dissect the heterotic QTL GW3p6 from the female line. We then generate the near isogenic line NIL-FH676:: GW3p6 by introgressing the GW3p6 allele from the female line Guangzhan63-4S into the male inbred line Fuhui676. The NIL-FH676:: GW3p6 exhibits grain yield highly increased compared to Fuhui676. This study demonstrates that it may be possible to achieve a high level of grain production in inbred rice lines without the need to construct hybrids.

Characterization of the ‘Oat-Like Rice’ Caused by a Novel Allele OsMADS1Olr Reveals Vital Importance of OsMADS1 in Regulating Grain Shape in Oryza sativa L.

“…And previous studies indicated that OsMADS1 regulates spikelet development partly by specification of the lemma and palea and acts as an inhibitor of overdevelopment of the lemma and palea (Jeon et al 2000 ; Prasad et al 2001 ; Chen et al 2006 ; Wang et al 2017 ). Furthermore, recent studies indicated that OsMADS1 not only regulates spikelet development, but also plays important roles in regulating grain shape (Liu et al 2018 ; Sun et al 2018 ; Yu et al 2018 ; Wang et al 2019 ).…”

An enhanced photosynthesis and carbohydrate metabolic capability contributes to heterosis of the cotton (Gossypium hirsutum) hybrid ‘Huaza Mian H318’, as revealed by genome-wide gene expression analysis

“…In previous years, many important genes or QTLs associated with heterosis have been identi ed in many species, such as WUSCHEL (WUS), (AUXIN-REGULATED GENE INVOLVED IN ORGAN SIZE) ARGOS in Arabidopsis [39], SINGLE FLOWER TRUSS (SFT) and fw2.2 in tomato [40,41], GW3p6 (OsMADS1), OsNramp5 (Natural Resistance-Associated Macrophage Protein 5), Ghd8/DTH8, Gn1a (OsCKX2), IPA1 (OsSPL14), Hd3a (Heading date3a) in rice [42][43][44][45] and CNR in maize [46]. These genes involved in various functions including cell number or cell cycle regulation; environmental adaption; heading date, plant height and grain-yield controlling.…”

WITHDRAWN: Differentially directional selection on grain size genes identified by RapMap during rice domestication

“…1). RapMap has several notable advantages compared with traditional schemes of linkage and GWAS analysis, and recently reported methods for mapping and cloning functional genes (QTL-seq, QTGseq, MutMap and others) 31,[46][47][48] . (1) F 2 gradient populations constructed from trait-adjacent parents from diverse germplasms are technically central and innovative in RapMap (Fig.…”