Development and characterization of chromosome segment substitution lines derived from Oryza rufipogon in the genetic background of O. sativa spp. indica cultivar 9311.
Development and characterization of chromosome segment substitution lines derived from Oryza rufipogon in the genetic background of O. sativa spp. indica cultivar 9311.
复制标题
在 O. sativa spp 遗传背景下源自普通野生稻 (Oryza rufipogon) 的染色体片段替代系的开发和表征。
DOI：
10.1186/s12864-016-2987-5
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发表时间：
2016-08-09
期刊：
影响因子：
4.4
通讯作者：
Yang Q
中科院分区：
文献类型：
--
作者：
Qiao W;Qi L;Cheng Z;Su L;Li J;Sun Y;Ren J;Zheng X;Yang Q
野生稻是水稻品种改良的主要基因源。染色体片段代换系（CSSL）为O. rufipogon是数量性状精细定位、新基因发现和标记辅助育种的有力工具。因此，它们为广泛的基因组和遗传研究提供了基础。本研究以籼稻为轮回亲本，通过杂交获得了198个CSSLs。9311和O. rufipogon供体亲本;然后使用均匀分布在12条水稻染色体上的313个多态性SSR标记对这些进行基因分型。平均每个CSSL携带2.16个渐渗片段，每个片段间的遗传距离约为6cM。这些片段总共覆盖了野生稻基因组的84.9%。在此基础上，共检测到涉及10个农艺性状的25个QTL。利用全基因组单核苷酸多态性芯片检测了7个CSSLs，检测到qSH 4 -1和qDTH 10 -1两个QTL。此外，在第10染色体上的78-Kb区域检测到一个新的与抽穗期相关的QTL，从而证明了这些CSSLs鉴定新的QTL和基因的能力。新建立的CSSL群体为野生稻的基因鉴定和全基因组研究提供了有用的工具。这些CSSL材料将为水稻品种改良提供基础。
Wild rice (Oryza rufipogon) constitutes a primary gene source for rice breed improvement. Chromosome segment substitution line (CSSL) for O. rufipogon is a powerful tool for fine mapping of quantitative traits, new gene discovery, and marker-assisted breeding. Thus, they provide a basis for a wide range of genomic and genetic studies. In this study, a set of 198 CSSLs were developed from a cross between recurrent parent indica var. 9311 and an O. rufipogon donor parent; these were then genotyped using 313 polymorphic SSR markers evenly distributed across the 12 rice chromosomes. On average, each CSSL carried 2.16 introgressed segments, and the genetic distance of each segment was about 6 cM. The segments collectively covered 84.9 % of the wild rice genome. Based on these CSSLs, 25 QTLs involved in 10 agronomic traits were identified. Seven CSSLs were subjected to a whole-genome single nucleotide polymorphism chip assay and two QTLs, qSH4-1 and qDTH10-1, detected. In addition, a new QTL associated with the heading date was detected in a 78-Kb region on chromosome 10, thus proving the ability of these CSSLs to identify new QTLs and genes. The newly developed CSSL population proved a useful tool for both gene identification and whole-genome research of wild rice. These CSSL materials will provide a foundation for rice variety improvement.