RNA deep sequencing reveals differential microRNA expression during development of sea urchin and sea star.
RNA deep sequencing reveals differential microRNA expression during development of sea urchin and sea star.
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DOI：
10.1371/journal.pone.0029217
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发表时间：
2011
期刊：
影响因子：
3.7
通讯作者：
Benos PV
中科院分区：
文献类型：
--
作者：
Kadri S;Hinman VF;Benos PV
microRNA (miRNA) 是小型（20-23 nt）非编码单链 RNA 分子，充当 mRNA 基因表达的转录后调节因子。它们与多种生物体发育过程的调节有关。棘皮动物、Strongylocentrotus purpuratus（海胆）和 Patiria miniata（海星）是研究具有良好特征的转录网络的发育的优秀模型生物。然而，迄今为止，除了参与 miRNA 生物发生途径的基因在其发育阶段表达外，对 miRNA 在这些生物体发育过程中的作用一无所知。在本文中，我们使用 Illumina 基因组分析仪 (Illumina, Inc.) 对海胆和海星受精后 1 至 3 天的混合阶段胚胎群体中的小 RNA 文库进行了测序（总共 22,670,000 个读数）。对这些数据的分析揭示了这两个物种的 miRNA 群体。我们发现海胆和海星在早期发育过程中分别表达了 47 种和 38 种已知的 miRNA（共有 32 种）。我们还在海胆胚胎文库中发现了 13 种潜在的新型 miRNA。在发育过程中，两个物种之间的 miRNA 表达通常是保守的，但 7 个 miRNA 仅在一个物种中高表达。我们希望我们的两个数据集将成为发育生物学领域和影响该领域的监管网络领域工作的每个人的宝贵资源。用于分析 Illumina 读取的计算流程可在 http://www.benoslab.pitt.edu/services.html 上找到。
microRNAs (miRNAs) are small (20–23 nt), non-coding single stranded RNA molecules that act as post-transcriptional regulators of mRNA gene expression. They have been implicated in regulation of developmental processes in diverse organisms. The echinoderms, Strongylocentrotus purpuratus (sea urchin) and Patiria miniata (sea star) are excellent model organisms for studying development with well-characterized transcriptional networks. However, to date, nothing is known about the role of miRNAs during development in these organisms, except that the genes that are involved in the miRNA biogenesis pathway are expressed during their developmental stages. In this paper, we used Illumina Genome Analyzer (Illumina, Inc.) to sequence small RNA libraries in mixed stage population of embryos from one to three days after fertilization of sea urchin and sea star (total of 22,670,000 reads). Analysis of these data revealed the miRNA populations in these two species. We found that 47 and 38 known miRNAs are expressed in sea urchin and sea star, respectively, during early development (32 in common). We also found 13 potentially novel miRNAs in the sea urchin embryonic library. miRNA expression is generally conserved between the two species during development, but 7 miRNAs are highly expressed in only one species. We expect that our two datasets will be a valuable resource for everyone working in the field of developmental biology and the regulatory networks that affect it. The computational pipeline to analyze Illumina reads is available at http://www.benoslab.pitt.edu/services.html.
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影响因子：
3.7
作者：
Corcoran DL;Pandit KV;Gordon B;Bhattacharjee A;Kaminski N;Benos PV
通讯作者：
Benos PV
影响因子：
4
作者：
Davidson, Eric H.
通讯作者：
Davidson, Eric H.
影响因子：
14.9
作者：
Cameron RA;Samanta M;Yuan A;He D;Davidson E
通讯作者：
Davidson E
DOI：
10.1073/pnas.2235868100
发表时间：
2003-11-11
影响因子：
11.1
作者：
Hinman, VF;Nguyen, AT;Davidson, EH
通讯作者：
Davidson, EH
影响因子：
10.5
作者：
Ketting, RF;Fischer, SEJ;Plasterk, RHA
通讯作者：
Plasterk, RHA