Genetic analysis for the grain number heterosis of a super-hybrid rice WFYT025 combination using RNA-Seq.
Genetic analysis for the grain number heterosis of a super-hybrid rice WFYT025 combination using RNA-Seq.
复制标题
利用RNA-Seq对超级杂交水稻WFYT025组合粒数杂种优势进行遗传分析
DOI：
10.1186/s12284-018-0229-y
复制
发表时间：
2018-06-15
期刊：
影响因子：
--
通讯作者：
He H
中科院分区：
文献类型：
--
作者：
Chen L;Bian J;Shi S;Yu J;Khanzada H;Wassan GM;Zhu C;Luo X;Tong S;Yang X;Peng X;Yong S;Yu Q;He X;Fu J;Chen X;Hu L;Ouyang L;He H
尽管杂种优势对作物生产力的利用做出了巨大贡献，但杂种优势的分子机制仍未得到充分的研究。因此，本研究利用高通量新一代RNA-seq技术，对中国广泛应用的一个晚稻超级杂交稻组合的粒数杂种优势进行了研究。结果在这里，我们获得了8.72亿个干净的读取，并且至少一个读取可以映射35,679个注释中的27,917个转录本。转录本差异表达分析显示，超级杂交稻五丰优T025 （WFYT025）与亲本在幼穗中共鉴定出5910个差异表达基因（DGHP）。5910份DGHP中，63.1%的遗传作用模式为过显性，17.3%的遗传作用模式为完全显性，15.6%的遗传作用模式为部分显性，4.0%的遗传作用模式为加性。dghp在类胡萝卜素生物合成、二萜类生物合成和植物激素信号转导通路中均显著富集，且这三条通路的关键基因在杂交种中表达上调。通过比较KEGG通路中富含的dghp与粒数相关的qtl，多个dghp与其中一些粒数qtl位于同一染色体片段上。结论通过幼穗发育转录组分析，我们认为过显性效应可能是WFYT025粒数杂种优势的主要原因。与粒数qtl共享相同位置的dghp可作为候选基因，为这些粒数qtl的克隆和功能分析提供了有价值的靶点。
BackgroundDespite the great contributions of utilizing heterosis to crop productivity worldwide, the molecular mechanism of heterosis remains largely unexplored. Thus, the present research is focused on the grain number heterosis of a widely used late-croppingindicasuper hybrid rice combination in China using a high-throughput next-generation RNA-seq strategy.ResultsHere, we obtained 872 million clean reads, and at least one read could maps 27,917 transcripts out of 35,679 annotations. Transcript differential expression analysis revealed a total of 5910 differentially expressed genes (DGHP) between super-hybrid rice Wufengyou T025 (WFYT025) and its parents were identified in the young panicles. Out of the 5910 DGHP, 63.1% had a genetic action mode of over-dominance, 17.3% had a complete-dominance action, 15.6% had a partial-dominance action and 4.0% had an additive action. DGHPwere significantly enriched in carotenoid biosynthesis, diterpenoid biosynthesis and plant hormone signal transduction pathways, with the key genes involved in the three pathways being up-regulated in the hybrid. By comparing the DGHPenriched in the KEGG pathway with QTLs associated with grain number, several DGHPwere located on the same chromosomal segment with some of these grain number QTLs.ConclusionThrough young panicle development transcriptome analysis, we conclude that the over-dominant effect is probably the major contributor to the grain number heterosis of WFYT025. The DGHPsharing the same location with grain number QTLs could be considered a candidate gene and provide valuable targets for the cloning and functional analysis of these grain number QTLs.
登录
查看更多内容
影响因子：
48
作者：
Langmead, Ben;Salzberg, Steven L.
通讯作者：
Salzberg, Steven L.
影响因子：
5.1
作者：
Huang, Yi;Zhang, Lida;Zhang, Qifa
通讯作者：
Zhang, Qifa
影响因子：
11.6
作者：
He, Guangming;Zhu, Xiaopeng;Deng, Xing-Wang
通讯作者：
Deng, Xing-Wang
影响因子：
3.1
作者：
Li, ZK;Pinson, SRM;Paterson, AH
通讯作者：
Paterson, AH
影响因子：
5.4
作者：
Lin, HX;Qian, HR;Zheng, KL
通讯作者：
Zheng, KL