Abstract
The panicle exsertion length (PEL) in rice (Oryza sativa L.) is an important trait for hybrid seed production. We investigated the PEL in a chromosome segment substitution line (CSSL) population consisting of 66 lines and a natural population composed of 540 varieties. In the CSSL population, a total of seven QTLs for PEL were detected across two environments. The percentage of phenotypic variance explained (PVE) ranged from 10.22 to 50.18%, and the additive effect ranged from −1.77 to 6.47 cm. Among the seven QTLs, qPEL10.2 had the largest PVE, 44.05 and 50.18%, with an additive effect of 5.91 and 6.47 cm in 2015 and in 2016, respectively. In the natural population, 13 SSR marker loci were detected that were associated with PEL in all four environments, with the PVE ranging from 1.20 to 6.26%. Among the 13 loci, 7 were novel. The RM5746-170 bp allele had the largest phenotypic effect (5.11 cm), and the typical carrier variety was Qiaobinghuang. An RM5620-RM6100 region harboring the EUI2 locus on chromosome 10 was detected in both populations. The sequencing results showed that the accessions with a shorter PEL contained the A base, while the accessions with a longer PEL contained the G base at the 1,475 bp location of the EUI2 gene.
Highlights
Rice (Oryza sativa L.), one of the most important food crops, feeds more than half of the world’s population (Sasaki and Burr, 2000)
The objectives of the present study were (1) to detect QTLs for panicle exsertion length (PEL) in a chromosome segment substitution line (CSSL) population using a likelihood ratio test based on stepwise regression (RSTEP-LRT) method; (2) to identify favorable marker alleles of PEL in a natural population composed of 540 accessions collected from 18◦N to 54◦N by Association mapping (AM); and (3) to compare the relationship between common chromosome regions controlling PEL detected by the two categories of population and the known gene locus
The favorable marker alleles at qPEL1.1, qPEL8, and qPEL10.1 loci were from II-32B, and the favorable marker alleles at qPEL1.2, qPEL10.2, qPEL11, and qPEL12 loci were from A7444
Summary
Rice (Oryza sativa L.), one of the most important food crops, feeds more than half of the world’s population (Sasaki and Burr, 2000). With rapid global population growth and the decreasing availability of arable land, food security has encountered great challenges, and the demand for a high-yielding rice cultivar is a high priority for breeders. Utilization of heterosis is considered one of the most effective strategies for increasing rice yield. Hybrid rice technology has been adopted in 27 rice-growing countries in the world (Xie, 2009). In China, hybrid rice has been planted in up to 50% of the total area each year since 1985 (Yuan and Virmani, 1988). The rice hybrid seed production area is ∼150,000 hectares annually (Lu and Hong, 1999; Cheng et al, 2004)
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