QTL Detection and Elite Alleles Mining for Stigma Traits in Oryza sativa by Association Mapping

Stigma traits are very important for hybrid seed production in Oryza sativa, which is a self-pollinated crop; however, the genetic mechanism controlling the traits is poorly understood. In this study, we investigated the phenotypic data of 227 accessions across 2 years and assessed their genotypic v...

Full description

Saved in:
Bibliographic Details
Published inFrontiers in plant science Vol. 7; p. 1188
Main Authors Dang, Xiaojing, Liu, Erbao, Liang, Yinfeng, Liu, Qiangming, Breria, Caleb M, Hong, Delin
Format Journal Article
LanguageEnglish
Published Switzerland Frontiers Media S.A 09.08.2016
Subjects
Elite allele
Genome-wide association mapping
Oryza sativa
Plant Science
QTL detection
Stigma traits
Oryza sativa
genome-wide association mapping
QTL detection
stigma traits
elite allele
Online AccessGet full text

Cover

More Information
Summary:Stigma traits are very important for hybrid seed production in Oryza sativa, which is a self-pollinated crop; however, the genetic mechanism controlling the traits is poorly understood. In this study, we investigated the phenotypic data of 227 accessions across 2 years and assessed their genotypic variation with 249 simple sequence repeat (SSR) markers. By combining phenotypic and genotypic data, a genome-wide association (GWA) map was generated. Large phenotypic variations in stigma length (STL), stigma brush-shaped part length (SBPL) and stigma non-brush-shaped part length (SNBPL) were found. Significant positive correlations were identified among stigma traits. In total, 2072 alleles were detected among 227 accessions, with an average of 8.3 alleles per SSR locus. GWA mapping detected 6 quantitative trait loci (QTLs) for the STL, 2 QTLs for the SBPL and 7 QTLs for the SNBPL. Eleven, 5, and 12 elite alleles were found for the STL, SBPL, and SNBPL, respectively. Optimal cross designs were predicted for improving the target traits. The detected genetic variation in stigma traits and QTLs provides helpful information for cloning candidate STL genes and breeding rice cultivars with longer STLs in the future.
Bibliography:ObjectType-Article-1
SourceType-Scholarly Journals-1
ObjectType-Feature-2
content type line 23
This article was submitted to Evolutionary and Population Genetics, a section of the journal Frontiers in Plant Science
Edited by: Tian Tang, Sun Yat-sen University, China
Reviewed by: Jinfeng Chen, University of California, Riverside, USA; Guiquan Zhang, South China Agricultural University, China
ISSN:1664-462X
1664-462X
DOI:10.3389/fpls.2016.01188