Deep sequencing identifies novel and conserved microRNAs in peanuts (Arachis hypogaea L.).
Deep sequencing identifies novel and conserved microRNAs in peanuts (Arachis hypogaea L.).
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深度测序鉴定花生 (Arachishypogaea L.) 中新颖且保守的 microRNA
DOI：
10.1186/1471-2229-10-3
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发表时间：
2010-01-05
影响因子：
5.3
通讯作者：
Wang XJ
中科院分区：
文献类型：
--
作者：
Zhao CZ;Xia H;Frazier TP;Yao YY;Bi YP;Li AQ;Li MJ;Li CS;Zhang BH;Wang XJ
微小RNA（miRNA）是一类新的小型内源性RNA，通过在转录后水平对基因表达产生负面影响来在细胞中发挥调节作用。miRNAs已被证明控制参与各种生物和代谢过程的许多基因。在拟南芥和水稻等模式物种中发现miRNAs并分析其功能已经有了广泛的研究。越来越多的研究已经进行了重要的农业作物，包括大豆，针叶树，和Phaselous vulgaris，但还没有研究报告，发现花生miRNAs使用克隆策略。在这项研究中，我们采用下一代高通量Solexa测序技术克隆和鉴定花生中保守和物种特异性的miRNA。下一代高通量Solexa测序显示，花生具有复杂的小RNA群体，并且小RNA的长度变化，24-nt是大多数小RNA的主要长度。结合深度测序和生物信息学，我们在花生中发现了14个新的miRNA家族和75个保守的miRNA。所有14个新的花生miRNAs被认为是物种特异性的，因为除了ahy-miRn 1在大豆中有同源物之外，在其他植物物种中没有发现同源物。qRT-PCR分析表明，保守和花生特异性的miRNA在花生中表达。这项研究发现了14个新的和22个保守的花生miRNA家族。这些结果表明，调节miRNAs存在于农艺上重要的花生中，并且可能在花生的生长、发育和对环境胁迫的响应中起重要作用。
MicroRNAs (miRNAs) are a new class of small, endogenous RNAs that play a regulatory role in the cell by negatively affecting gene expression at the post-transcriptional level. miRNAs have been shown to control numerous genes involved in various biological and metabolic processes. There have been extensive studies on discovering miRNAs and analyzing their functions in model species, such as Arabidopsis and rice. Increasing investigations have been performed on important agricultural crops including soybean, conifers, and Phaselous vulgaris but no studies have been reported on discovering peanut miRNAs using a cloning strategy. In this study, we employed the next generation high through-put Solexa sequencing technology to clone and identify both conserved and species-specific miRNAs in peanuts. Next generation high through-put Solexa sequencing showed that peanuts have a complex small RNA population and the length of small RNAs varied, 24-nt being the predominant length for a majority of the small RNAs. Combining the deep sequencing and bioinformatics, we discovered 14 novel miRNA families as well as 75 conserved miRNAs in peanuts. All 14 novel peanut miRNAs are considered to be species-specific because no homologs have been found in other plant species except ahy-miRn1, which has a homolog in soybean. qRT-PCR analysis demonstrated that both conserved and peanut-specific miRNAs are expressed in peanuts. This study led to the discovery of 14 novel and 22 conserved miRNA families from peanut. These results show that regulatory miRNAs exist in agronomically important peanuts and may play an important role in peanut growth, development, and response to environmental stress.
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影响因子：
14.9
作者：
Chen C;Ridzon DA;Broomer AJ;Zhou Z;Lee DH;Nguyen JT;Barbisin M;Xu NL;Mahuvakar VR;Andersen MR;Lao KQ;Livak KJ;Guegler KJ
通讯作者：
Guegler KJ
基于十六烷基三甲基溴化铵的从富含多糖的植物组织中提取低分子量 RNA 的方法
影响因子：
2.9
作者：
Carra, Andrea;Gambino, Giorgio;Schubert, Andrea
通讯作者：
Schubert, Andrea
Mirbase：MicroRNA基因组学的工具。
影响因子：
14.9
作者：
Griffiths-Jones, Sam;Saini, Harpreet Kaur;van Dongen, Stijn;Enright, Anton J.
通讯作者：
Enright, Anton J.
影响因子：
16
作者：
Jones-Rhoades, MW;Bartel, DP
通讯作者：
Bartel, DP
影响因子：
30.8
作者：
Cullen, Bryan R.
通讯作者：
Cullen, Bryan R.