Full transcriptome analysis of early dorsoventral patterning in zebrafish.
Full transcriptome analysis of early dorsoventral patterning in zebrafish.
复制标题
斑马鱼早期背腹图案的完整转录组分析。
DOI：
10.1371/journal.pone.0070053
复制
发表时间：
2013
期刊：
影响因子：
3.7
通讯作者：
Varga M
中科院分区：
文献类型：
--
作者：
Fodor E;Zsigmond Á;Horváth B;Molnár J;Nagy I;Tóth G;Wilson SW;Varga M
了解在胚胎发生过程中导致主要体轴建立的分子相互作用是发育生物学的主要目标之一。尽管过去的二十年已经彻底改变了我们对这些模式化过程的遗传基础的认识，但参与轴形成的基因列表不太可能是完整的。为了鉴定在斑马鱼胚胎发育的早期阶段参与背腹（DV）轴建立的新基因，我们采用下一代测序技术对正常胚胎和缺乏明显DV模式的胚胎进行全转录组分析。不同的统计方法相结合，产生了41个差异表达的候选基因，我们证实了32个基因的早期背侧表达，转录后不久，合子转录的原位杂交。虽然验证基因的启动子分析表明，早期作用的转录因子的结合位点没有普遍的富集，这些基因中的大多数携带“二价”表观遗传组蛋白修饰时，合子转录启动，这表明一个“平衡”的转录状态。我们的研究结果揭示了背侧基因调控网络的一些新的候选者，并表明背侧最早上调的多个基因在经典Wnt通路的调制中发挥作用。
Understanding the molecular interactions that lead to the establishment of the major body axes during embryogenesis is one of the main goals of developmental biology. Although the past two decades have revolutionized our knowledge about the genetic basis of these patterning processes, the list of genes involved in axis formation is unlikely to be complete. In order to identify new genes involved in the establishment of the dorsoventral (DV) axis during early stages of zebrafish embryonic development, we employed next generation sequencing for full transcriptome analysis of normal embryos and embryos lacking overt DV pattern. A combination of different statistical approaches yielded 41 differentially expressed candidate genes and we confirmed by in situ hybridization the early dorsal expression of 32 genes that are transcribed shortly after the onset of zygotic transcription. Although promoter analysis of the validated genes suggests no general enrichment for the binding sites of early acting transcription factors, most of these genes carry “bivalent” epigenetic histone modifications at the time when zygotic transcription is initiated, suggesting a “poised” transcriptional status. Our results reveal some new candidates of the dorsal gene regulatory network and suggest that a plurality of the earliest upregulated genes on the dorsal side have a role in the modulation of the canonical Wnt pathway.
登录
查看更多内容
影响因子：
64.8
作者：
Glinka, A;Wu, W;Niehrs, C
通讯作者：
Niehrs, C
影响因子：
11.8
作者：
Blythe, Shelby A.;Cha, Sang-Wook;Tadjuidje, Emmanuel;Heasman, Janet;Klein, Peter S.
通讯作者：
Klein, Peter S.
影响因子：
4.6
作者：
Bellipanni, G;Varga, MT;Weinberg, ES
通讯作者：
Weinberg, ES
影响因子：
2.7
作者：
Fujimi, Takahiko J.;Hatayama, Minoru;Aruga, Jun
通讯作者：
Aruga, Jun
影响因子：
4.6
作者：
Flowers, G. Parker;Topczewska, Jolanta M.;Topczewski, Jacek
通讯作者：
Topczewski, Jacek