Identification of functionally important microRNAs from rice inflorescence at heading stage of a qDTY4.1-QTL bearing Near Isogenic Line under drought conditions.
Identification of functionally important microRNAs from rice inflorescence at heading stage of a qDTY4.1-QTL bearing Near Isogenic Line under drought conditions.
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DOI：
10.1371/journal.pone.0186382
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发表时间：
2017
期刊：
影响因子：
3.7
通讯作者：
Nadarajah K
中科院分区：
文献类型：
--
作者：
Cheah BH;Jadhao S;Vasudevan M;Wickneswari R;Nadarajah K
在国际水稻研究所的干旱筛选田间试验中，IR 64（高产但干旱敏感）和Aday Sel（耐旱）水稻品种之间的杂交产生了一个稳定的品系，产量增加。在IR 77298 -14-1-2-10回交自交系及其近等基因系IR 87705 -7-15-B中检测到qDTY4.1主效抗旱性和产量QTL，与IR 64的遗传相似性为93.9%。尽管水稻产量对生殖生长期水分胁迫极为敏感，但目前只有一份在粳稻花序组织中检测到干旱响应microRNA的报道。在这项研究中，通过下一代测序，在IR 64、IR 77298 -14-1-2-10和IR 87705 -7-15-B的花序组织中鉴定出更多的干旱响应microRNA。在鉴定的32个花序特异性非保守microRNA家族中，有22个家族在IR 87705 -7-15-B中上调。在水稻花序中发现了9个保守和34个非保守的microRNA家族，其中5个保守家族和30个非保守家族在IR 87705 -7-15-B中诱导表达。在水稻花序中发现了更多的干旱响应非保守microRNA，这可能意味着它们在水稻花序干旱响应机制中比保守microRNA更重要。对IR 87705 -7-15-B中鉴定的干旱响应microRNA的靶基因的基因本体论注释分析揭示了生物过程的过度表达，包括发育、信号传导和对刺激的响应。特别地，四种花序特异性microRNA，即osa-miR 5485、osa-miR 5487、osa-miR 5492和osa-miR 5517，以及两种非花序特异性microRNA，即osa-miR 169 d和osa-miR 169 f。其中osa-miR 169 d、osa-miR 5492和osa-miR 5517与花期控制相关。值得一提的是，与水稻花序特异性小干扰RNA生物合成有关的osa-miR 2118和osa-miR 2275在IR 87705 -7-15-B中被诱导，但在IR 77298 -14-1-2-10中被阻遏。此外，在qDTY4.1 QTL区域内的基因搜索已经鉴定了NBS-LRR抗性基因（osa-miR 2118的潜在靶标）、枯草杆菌蛋白酶和与气孔运动、阿坝代谢和表皮蜡生物合成有关的基因的多个拷贝。
A cross between IR64 (high-yielding but drought-susceptible) and Aday Sel (drought-tolerant) rice cultivars yielded a stable line with enhanced grain yield under drought screening field trials at International Rice Research Institute. The major effect qDTY4.1 drought tolerance and yield QTL was detected in the IR77298-14-1-2-10 Backcrossed Inbred Line (BIL) and its IR87705-7-15-B Near Isogenic Line (NIL) with 93.9% genetic similarity to IR64. Although rice yield is extremely susceptible to water stress at reproductive stage, currently, there is only one report on the detection of drought-responsive microRNAs in inflorescence tissue of a Japonica rice line. In this study, more drought-responsive microRNAs were identified in the inflorescence tissues of IR64, IR77298-14-1-2-10 and IR87705-7-15-B via next-generation sequencing. Among the 32 families of inflorescence-specific non-conserved microRNAs that were identified, 22 families were up-regulated in IR87705-7-15-B. Overall 9 conserved and 34 non-conserved microRNA families were found as drought-responsive in rice inflorescence with 5 conserved and 30 non-conserved families induced in the IR87705-7-15-B. The observation of more drought-responsive non-conserved microRNAs may imply their prominence over conserved microRNAs in drought response mechanisms of rice inflorescence. Gene Ontology annotation analysis on the target genes of drought-responsive microRNAs identified in IR87705-7-15-B revealed over-representation of biological processes including development, signalling and response to stimulus. Particularly, four inflorescence-specific microRNAs viz. osa-miR5485, osa-miR5487, osa-miR5492 and osa-miR5517, and two non-inflorescence specific microRNAs viz. osa-miR169d and osa-miR169f.2 target genes that are involved in flower or embryonic development. Among them, osa-miR169d, osa-miR5492 and osa-miR5517 are related to flowering time control. It is also worth mentioning that osa-miR2118 and osa-miR2275, which are implicated in the biosynthesis of rice inflorescence-specific small interfering RNAs, were induced in IR87705-7-15-B but repressed in IR77298-14-1-2-10. Further, gene search within qDTY4.1 QTL region had identified multiple copies of NBS-LRR resistance genes (potential target of osa-miR2118), subtilisins and genes implicated in stomatal movement, ABA metabolism and cuticular wax biosynthesis.
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