Root Transcriptomic Analysis Revealing the Importance of Energy Metabolism to the Development of Deep Roots in Rice (Oryza sativa L.).
Root Transcriptomic Analysis Revealing the Importance of Energy Metabolism to the Development of Deep Roots in Rice (Oryza sativa L.).
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根转录组分析揭示能量代谢对水稻深根发育的重要性 (Oryza sativa L.)
DOI：
10.3389/fpls.2017.01314
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发表时间：
2017
影响因子：
5.6
通讯作者：
Zhong Y
中科院分区：
文献类型：
--
作者：
Lou Q;Chen L;Mei H;Xu K;Wei H;Feng F;Li T;Pang X;Shi C;Luo L;Zhong Y
干旱是制约水稻生产的最严重的非生物胁迫，而深根是水稻抗旱的关键因素。然而，调控深根发育的遗传机制在很大程度上是未知的。本研究采用RNA-seq方法对37个水稻品种的74个根系样本的转录组进行了分析，分别代表浅根和深根的极端基因型。深根和浅根品种（H vs L）之间的13242个差异表达基因（deg）在遗传信息加工和代谢途径中富集，而深根和浅根品种（D vs S）之间的1052个差异表达基因（deg）在代谢途径特别是能量代谢途径中显著富集。鉴定出10个数量性状转录本（qtt），其中一些与能量代谢有关。采用qRT-PCR和芯片技术对49个候选deg进行鉴定。通过加权基因共表达网络分析（WGCNA），我们发现了18个枢纽基因。令人惊讶的是，所有这些中心基因在深根中的表达都高于浅根，而且其中一半在能量代谢中起作用。我们还估计，深根的ATP产生速度比浅根快。我们的研究结果提供了许多可靠的候选基因来促进深根发育，并首次强调了能量代谢对深根发育的重要性。
Drought is the most serious abiotic stress limiting rice production, and deep root is the key contributor to drought avoidance. However, the genetic mechanism regulating the development of deep roots is largely unknown. In this study, the transcriptomes of 74 root samples from 37 rice varieties, representing the extreme genotypes of shallow or deep rooting, were surveyed by RNA-seq. The 13,242 differentially expressed genes (DEGs) between deep rooting and shallow rooting varieties (H vs. L) were enriched in the pathway of genetic information processing and metabolism, while the 1,052 DEGs between the deep roots and shallow roots from each of the plants (D vs. S) were significantly enriched in metabolic pathways especially energy metabolism. Ten quantitative trait transcripts (QTTs) were identified and some were involved in energy metabolism. Forty-nine candidate DEGs were confirmed by qRT-PCR and microarray. Through weighted gene co-expression network analysis (WGCNA), we found 18 hub genes. Surprisingly, all these hub genes expressed higher in deep roots than in shallow roots, furthermore half of them functioned in energy metabolism. We also estimated that the ATP production in the deep roots was faster than shallow roots. Our results provided a lot of reliable candidate genes to improve deep rooting, and firstly highlight the importance of energy metabolism to the development of deep roots.
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影响因子：
5.3
作者：
Moumeni A;Satoh K;Kondoh H;Asano T;Hosaka A;Venuprasad R;Serraj R;Kumar A;Leung H;Kikuchi S
通讯作者：
Kikuchi S
影响因子：
6.9
作者：
Edwards JM;Roberts TH;Atwell BJ
通讯作者：
Atwell BJ
影响因子：
64.8
作者：
Gan X;Stegle O;Behr J;Steffen JG;Drewe P;Hildebrand KL;Lyngsoe R;Schultheiss SJ;Osborne EJ;Sreedharan VT;Kahles A;Bohnert R;Jean G;Derwent P;Kersey P;Belfield EJ;Harberd NP;Kemen E;Toomajian C;Kover PX;Clark RM;Rätsch G;Mott R
通讯作者：
Mott R
影响因子：
5.6
作者：
Jung JK;McCouch S
通讯作者：
McCouch S
近等基因系的抗旱QTL评价以及影响水稻剑叶宽度、小穗数和根体积的位点精细定位
影响因子：
5.4
作者：
Ding, Xipeng;Li, Xiaokai;Xiong, Lizhong
通讯作者：
Xiong, Lizhong