Large-Scale Annotation and Evolution Analysis of MiRNA in Insects.
Large-Scale Annotation and Evolution Analysis of MiRNA in Insects.
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DOI：
10.1093/gbe/evab083
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发表时间：
2021-05-07
影响因子：
3.3
通讯作者：
Chen XX
中科院分区：
文献类型：
--
作者：
Ma X;He K;Shi Z;Li M;Li F;Chen XX
昆虫是最多样化和最成功的动物群体之一，表现出巨大的形态多样性和复杂性。翅膀的创新和变形是昆虫迷人的生物进化的一些例子。大多数microRNA（miRNAs）通过赋予基因网络鲁棒性而有助于渠道化，从而增加重要表型的遗传率。虽然以前的研究已经证明了miRNA如何调节重要的表型，但对昆虫中miRNA的进化仍然知之甚少。在这里，我们使用小RNA-seq数据和同源性搜索方法来注释152种节肢动物的miRNA库，包括135种昆虫和17种非昆虫节肢动物。我们鉴定了16，212个miRNA基因，并将它们分为高度保守（62），昆虫保守（90）和谱系特异性（354）miRNA家族。miRNA二元存在/不存在动态的系统发育关系表明，保守的miRNA家族的同源性丢失倾向于发生在远相关的形态简化的类群中，包括介壳虫（Coccoidea）和扭曲翼昆虫（Strepsiptera），导致系统发育树重建不一致。昆虫门的共同祖先共有62个保守的miRNA家族，其中5个家族在早期有翼昆虫（翼门）中迅速获得。我们还检测到广泛的miRNA损失与形态减少，和miRNA增益在早期内翅类的时间全变态变态出现。其次是大量的miRNA增益Hyplitera和鳞翅目。总之，我们提供了一个全面的数据集和详细的昆虫miRNAs的进化分析。这些数据将是重要的未来研究与昆虫形态创新和性状生物多样性相关的miRNA功能。
Insects are among the most diverse and successful groups of animals and exhibit great morphological diversity and complexity. The innovation of wings and metamorphosis are some examples of the fascinating biological evolution of insects. Most microRNAs (miRNAs) contribute to canalization by conferring robustness to gene networks and thus increase the heritability of important phenotypes. Though previous studies have demonstrated how miRNAs regulate important phenotypes, little is still known about miRNA evolution in insects. Here, we used both small RNA-seq data and homology searching methods to annotate the miRNA repertoires of 152 arthropod species, including 135 insects and 17 noninsect arthropods. We identified 16,212 miRNA genes, and classified them into highly conserved (62), insect-conserved (90), and lineage-specific (354) miRNA families. The phylogenetic relationship of miRNA binary presence/absence dynamics implies that homoplastic loss of conserved miRNA families tends to occur in far-related morphologically simplified taxa, including scale insects (Coccoidea) and twisted-wing insects (Strepsiptera), leading to inconsistent phylogenetic tree reconstruction. The common ancestor of Insecta shares 62 conserved miRNA families, of which five were rapidly gained in the early winged-insects (Pterygota). We also detected extensive miRNA losses in Paraneoptera that are correlated with morphological reduction, and miRNA gains in early Endopterygota around the time holometabolous metamorphosis appeared. This was followed by abundant miRNA gains in Hymenoptera and Lepidoptera. In summary, we provide a comprehensive data set and a detailed evolutionary analysis of miRNAs in insects. These data will be important for future studies on miRNA functions associated with insect morphological innovation and trait biodiversity.
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影响因子：
10.7
作者：
Castresana, J
通讯作者：
Castresana, J
年轻和中年猪骨骼肌的全基因组 DNA 甲基化变化
影响因子：
4.4
作者：
Jin L;Jiang Z;Xia Y;Lou P;Chen L;Wang H;Bai L;Xie Y;Liu Y;Li W;Zhong B;Shen J;Jiang A;Zhu L;Wang J;Li X;Li M
通讯作者：
Li M
DOI：
10.1073/pnas.0907391106
发表时间：
2009-12-22
影响因子：
11.1
作者：
Gomez-Orte, Eva;Belles, Xavier
通讯作者：
Belles, Xavier
影响因子：
7
作者：
de Wit, Elzo;Linsen, Sam E. V.;Berezikov, Eugene
通讯作者：
Berezikov, Eugene
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影响因子：
2.7
作者：
Bejarano, Fernando;Smibert, Peter;Lai, Eric C.
通讯作者：
Lai, Eric C.