The developmental transcriptome for Lytechinus variegatus exhibits temporally punctuated gene expression changes
The developmental transcriptome for Lytechinus variegatus exhibits temporally punctuated gene expression changes
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DOI：
10.1016/j.ydbio.2019.12.002
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发表时间：
2020-04-15
影响因子：
2.7
通讯作者：
Bradham, Cynthia A.
中科院分区：
文献类型：
--
作者：
Hogan, John D.;Keenan, Jessica L.;Bradham, Cynthia A.
胚胎发育可以说是生物体在其一生中经历的最复杂的过程，并且最好从系统级的角度来理解这种复杂性。海胆已成为了解发育规范、形态发生和进化的非常有价值的模式生物。作为一种非脊索动物后口动物，海胆在原口动物和脊椎动物之间占据着重要的进化生态位。 Lytechinus variegatus (Lv) 是一种大西洋物种，已得到充分研究，为胚胎和幼虫发育过程中的信号转导、模式和形态发生变化提供了重要的见解。太平洋物种 Strongylocentrotus purpuratus (Sp) 是另一种经过充分研究的海胆，特别是在基因调控网络 (GRN) 和顺式调控分析方面。 Sp 的详细注释基因组和转录组是可用的，但尚未为 Lv 开发类似的资源。在这里，我们提供了胚胎和幼虫发育过程中 11 个时间点的 Lv 转录组分析。时间分析表明，作为规范基础的基因调控网络在海胆物种中得到了很好的保守。我们发现胚胎转录变异的主要转变将发育时间序列分为四个不同的、时间上连续的阶段。我们的工作表明，海胆的发育是通过相对稳定的基因表达状态的连续间隔发生的，这些状态被突然的转变所打断。
Embryonic development is arguably the most complex process an organism undergoes during its lifetime, and understanding this complexity is best approached with a systems-level perspective. The sea urchin has become a highly valuable model organism for understanding developmental specification, morphogenesis, and evolution. As a non-chordate deuterostome, the sea urchin occupies an important evolutionary niche between protostomes and vertebrates. Lytechinus variegatus (Lv) is an Atlantic species that has been well studied, and which has provided important insights into signal transduction, patterning, and morphogenetic changes during embryonic and larval development. The Pacific species, Strongylocentrotus purpuratus (Sp), is another well-studied sea urchin, particularly for gene regulatory networks (GRNs) and cis-regulatory analyses. A well-annotated genome and transcriptome for Sp are available, but similar resources have not been developed for Lv. Here, we provide an analysis of the Lv transcriptome at 11 timepoints during embryonic and larval development. Temporal analysis suggests that the gene regulatory networks that underlie specification are well-conserved among sea urchin species. We show that the major transitions in variation of embryonic transcription divide the developmental time series into four distinct, temporally sequential phases. Our work shows that sea urchin development occurs via sequential intervals of relatively stable gene expression states that are punctuated by abrupt transitions.