Transcriptome analysis of different developmental stages of amphioxus reveals dynamic changes of distinct classes of genes during development.
Transcriptome analysis of different developmental stages of amphioxus reveals dynamic changes of distinct classes of genes during development.
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DOI：
10.1038/srep23195
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发表时间：
2016-03-16
影响因子：
4.6
通讯作者：
Tsui SK
中科院分区：
文献类型：
--
作者：
Yang KY;Chen Y;Zhang Z;Ng PK;Zhou WJ;Zhang Y;Liu M;Chen J;Mao B;Tsui SK
脊椎动物在大约5亿年前从其他脊索动物中分离出来，并对发育过程进行了几次修改。文昌鱼被广泛应用于进化发育生物学研究，如脊索体平面的基本模式形成机制和脊椎动物的起源。下一代测序的快速发展为文昌鱼的基因组组织提供了更深入的知识；然而，文昌鱼发育过程中基因调控的许多方面还没有得到充分的表征。在本研究中，我们应用高通量测序技术对文昌鱼13个发育阶段的转录本进行了测序，以全面了解文昌鱼从受精卵到成鱼阶段的转录过程。3,423个基因的表达水平发生了显著变化(FDR ≤ 0.01)。所有这些基因都被纳入了聚类分析，并确定了与这些簇相关的生物学功能的丰富。在几个重要的过程中观察到了显著的变化，包括细胞周期下调和翻译上调。这些结果将为发现重要的发育基因，特别是与文昌鱼发育有关的调控因子奠定基础，并促进对脊椎动物发育动力学的理解。
Vertebrates diverged from other chordates approximately 500 million years ago and have adopted several modifications of developmental processes. Amphioxus is widely used in evolutionary developmental biology research, such as on the basic patterning mechanisms involved in the chordate body plan and the origin of vertebrates. The fast development of next-generation sequencing has advanced knowledge of the genomic organization of amphioxus; however, many aspects of gene regulation during amphioxus development have not been fully characterized. In this study, we applied high-throughput sequencing on the transcriptomes of 13 developmental stages of Chinese amphioxus to gain a comprehensive understanding of transcriptional processes occurring from the fertilized egg to the adult stage. The expression levels of 3,423 genes were significantly changed (FDR ≤ 0.01). All of these genes were included in a clustering analysis, and enrichment of biological functions associated with these clusters was determined. Significant changes were observed in several important processes, including the down-regulation of the cell cycle and the up-regulation of translation. These results should build a foundation for identifying developmentally important genes, especially those regulatory factors involved in amphioxus development, and advance understanding of the developmental dynamics in vertebrates.