Conservation and diversification of the miR166 family in soybean and potential roles of newly identified miR166s.
Conservation and diversification of the miR166 family in soybean and potential roles of newly identified miR166s.
复制标题
大豆中 miR166 家族的保护和多样化以及新鉴定的 miR166 的潜在作用。
DOI：
10.1186/s12870-017-0983-9
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发表时间：
2017-02-01
影响因子：
5.3
通讯作者：
Bian S
中科院分区：
文献类型：
--
作者：
Li X;Xie X;Li J;Cui Y;Hou Y;Zhai L;Wang X;Fu Y;Liu R;Bian S
microRNA 166（miR 166）是一个高度保守的miRNAs家族，参与植物的多种细胞和生理过程。miR 166家族在植物中通常由多个miR 166成员组成，这些miR 166成员可能具有功能冗余性和特异性。根据miRBase数据库，大豆miR 166家族由21个成员组成。然而，miR 166家族成员在大豆中的进化保守性和功能多样性仍然知之甚少。我们通过数据挖掘方法在大豆中发现了5个新的miR 166，从而将miR 166家族的成员从21个扩大到26个。对26个miR 166及其前体序列的系统发育分析表明，大豆miR 166家族在进化上既具有保守性，又具有多样性，其中10对miR 166前体序列具有较高的同源性，在系统发育树中被单独聚为一个独立的分支。对大豆miR 166基因家族的基因组结构和进化分析表明，在大豆miR 166基因家族的进化过程中可能发生了8个片段重复和4个串联重复。MIR 166家族基因启动子中的顺式元件及其推定的靶点指出了它们可能对功能的保守性和多样性的贡献。预测了大豆miR 166 s的靶基因，并通过RACE PCR验证了ATHB 14-LIKE转录本的切割作用。此外，5个新发现的MIR 166和12个目标基因的表达模式进行了检查在种子发育和响应非生物胁迫，这为解剖其功能和亚型特异性提供了重要线索。本研究将大豆miR 166家族的成员从21个扩大到26个，这26个大豆miR 166基因在进化上具有保守性和多样性。这些发现为阐明miR 166家族成员的功能保守性和多样性奠定了基础，特别是在种子发育或非生物胁迫下。本文的在线版本（doi：10.1186/s12870-017-0983-9）包含补充材料，可供授权用户使用。
microRNA166 (miR166) is a highly conserved family of miRNAs implicated in a wide range of cellular and physiological processes in plants. miR166 family generally comprises multiple miR166 members in plants, which might exhibit functional redundancy and specificity. The soybean miR166 family consists of 21 members according to the miRBase database. However, the evolutionary conservation and functional diversification of miR166 family members in soybean remain poorly understood. We identified five novel miR166s in soybean by data mining approach, thus enlarging the size of miR166 family from 21 to 26 members. Phylogenetic analyses of the 26 miR166s and their precursors indicated that soybean miR166 family exhibited both evolutionary conservation and diversification, and ten pairs of miR166 precursors with high sequence identity were individually grouped into a discrete clade in the phylogenetic tree. The analysis of genomic organization and evolution of MIR166 gene family revealed that eight segmental duplications and four tandem duplications might occur during evolution of the miR166 family in soybean. The cis-elements in promoters of MIR166 family genes and their putative targets pointed to their possible contributions to the functional conservation and diversification. The targets of soybean miR166s were predicted, and the cleavage of ATHB14-LIKE transcript was experimentally validated by RACE PCR. Further, the expression patterns of the five newly identified MIR166s and 12 target genes were examined during seed development and in response to abiotic stresses, which provided important clues for dissecting their functions and isoform specificity. This study enlarged the size of soybean miR166 family from 21 to 26 members, and the 26 soybean miR166s exhibited evolutionary conservation and diversification. These findings have laid a foundation for elucidating functional conservation and diversification of miR166 family members, especially during seed development or under abiotic stresses. The online version of this article (doi:10.1186/s12870-017-0983-9) contains supplementary material, which is available to authorized users.