Identification of microRNAs and their gene targets in cytoplasmic male sterile and fertile maintainer lines of pigeonpea
Identification of microRNAs and their gene targets in cytoplasmic male sterile and fertile maintainer lines of pigeonpea
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DOI：
10.1007/s00425-021-03568-6
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发表时间：
2021-02-04
期刊：
影响因子：
4.3
通讯作者：
Singh, Narendra P.
中科院分区：
文献类型：
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作者：
Bohra, Abhishek;Gandham, Prasad;Singh, Narendra P.
Main conclusionComparative analysis of genome-wide miRNAs and their gene target between cytoplasmic male sterility（CMS）and fertilizer lines of pigeonpea suggests a possible role of miRNAs-regulated pathways in reproductive development.AbstractExploitation of hybrid vigor using CMS technology has delivered nearly 50% yield gain in pigeonpea.在目前报道的木豆不育诱导细胞质中，A（2）和A（4）是促进杂交种子生产的两个主要来源。最近的证据表明microRNA参与了包括植物生殖发育在内的大量生物过程。在木豆中，关于miRNAs的信息是不够的。鉴于此，我们利用Illumina技术对不育系UPAS 120 A和等基因可育系UPAS 120 B的6个小RNA文库进行了测序。结果共发现316种miRNAs，其中已知248种，新发现68种。共有637个基因靶点被预测为已知的miRNAs，而324个基因与新的miRNAs相关。Degradome分析揭示了预测的miRNAs的77个基因靶标，其中包括在植物繁殖中起关键作用的各种转录因子，如F-box家族蛋白、无瓣2、生长素反应因子、乙烯反应因子、同源域亮氨酸拉链蛋白等。已知和新的miRNAs的差异表达暗示了保守和物种特异性参与者的作用。我们还获得了几个miRNA家族，如miR 156，miR 159，miR 167，这些家族已知影响植物育性的关键方面。基因本体和途径水平的分析表明，这些目标基因可能涉及的关键事件在雄性生殖发育，如绒毡层退化，花粉壁形成，逆行信号等，据我们所知，本研究是第一个联合收割机的小RNA和degradome的深度测序，阐明的作用，在花和雄性生殖发育的木豆。
Main conclusionComparative analysis of genome-wide miRNAs and their gene targets between cytoplasmic male sterile (CMS) and fertile lines of pigeonpea suggests a possible role of miRNA-regulated pathways in reproductive development.AbstractExploitation of hybrid vigor using CMS technology has delivered nearly 50% yield gain in pigeonpea. Among various sterility-inducing cytoplasms (A(1)-A(9)) reported so far in pigeonpea, A(2) and A(4) are the two major sources that facilitate hybrid seed production. Recent evidence suggests involvement of micro RNA in vast array of biological processes including plant reproductive development. In pigeonpea, information about the miRNAs is insufficient. In view of this, we sequenced six small RNA libraries of CMS line UPAS 120A and isogenic fertile line UPAS 120B using Illumina technology. Results revealed 316 miRNAs including 248 known and 68 novel types. A total of 637 gene targets were predicted for known miRNAs, while 324 genes were associated with novel miRNAs. Degradome analysis revealed 77 gene targets of predicted miRNAs, which included a variety of transcription factors playing key roles in plant reproduction such as F-box family proteins, apetala 2, auxin response factors, ethylene-responsive factors, homeodomain-leucine zipper proteins etc. Differential expression of both known and novel miRNAs implied roles for both conserved as well as species-specific players. We also obtained several miRNA families such as miR156, miR159, miR167 that are known to influence crucial aspects of plant fertility. Gene ontology and pathway level analyses of the target genes showed their possible implications for crucial events during male reproductive development such as tapetal degeneration, pollen wall formation, retrograde signaling etc. To the best of our knowledge, present study is first to combine deep sequencing of small RNA and degradome for elucidating the role of miRNAs in flower and male reproductive development in pigeonpea.