Alternative splicing and gene expression play contrasting roles in the parallel phenotypic evolution of a salmonid fish.
Alternative splicing and gene expression play contrasting roles in the parallel phenotypic evolution of a salmonid fish.
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DOI：
10.1111/mec.15817
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发表时间：
2021-10
影响因子：
4.9
通讯作者：
Elmer KR
中科院分区：
文献类型：
--
作者：
Jacobs A;Elmer KR
了解不同分子过程对进化和发展的贡献对于确定适应机制至关重要。在这里，我们使用RNA测序数据来测试选择性剪接和差异基因表达在平行适应性进化中的重要性，即鲑鱼北极红点鲑（Salvelinus alpinus）在多个独立湖泊中复制的冰后分化为同域底栖和远洋生态型。我们发现，不同生态型之间差异剪接的基因大多没有差异表达（<6%重叠），并参与不同的生物学过程。差异剪接的基因主要富集在肌肉发育和功能中，而差异表达的基因则涉及代谢、免疫和生长。此外，选择性剪接和基因表达主要由独立的顺式调控数量性状基因座控制（重叠<3.4%）。顺式调控区与剪接（16.5%的内含子簇）和表达（6.7%-10.1%的差异表达基因）的平行趋异相关，表明在生态型对之间共享调控变异。与理论预期相反，我们发现，差异剪接基因往往是高度中央的调控网络（“枢纽基因”），并注释显着更多的基因本体论术语相比，非差异剪接基因，符合较高水平的多效性。总之，我们的研究结果表明，通过不同的调控区域的选择性剪接和差异基因表达的协调调控导致的分歧的互补过程的重要局部适应。这提供了新的见解的重要性，对比，但pupeliness互补的分子过程在快速并行适应性进化。 也可参见Sarah J. Salisbury，M.作者声明：Anne C.达洛
Understanding the contribution of different molecular processes to evolution and development is crucial for identifying the mechanisms of adaptation. Here, we used RNA‐sequencing data to test the importance of alternative splicing and differential gene expression in a case of parallel adaptive evolution, the replicated postglacial divergence of the salmonid fish Arctic charr (Salvelinus alpinus) into sympatric benthic and pelagic ecotypes across multiple independent lakes. We found that genes differentially spliced between ecotypes were mostly not differentially expressed (<6% overlap) and were involved in different biological processes. Differentially spliced genes were primarily enriched for muscle development and functioning, while differentially expressed genes were involved in metabolism, immunity and growth. Furthermore, alternative splicing and gene expression were mostly controlled by independent cis‐regulatory quantitative trait loci (<3.4% overlap). Cis‐regulatory regions were associated with the parallel divergence in splicing (16.5% of intron clusters) and expression (6.7%–10.1% of differentially expressed genes), indicating shared regulatory variation across ecotype pairs. Contrary to theoretical expectation, we found that differentially spliced genes tended to be highly central in regulatory networks (“hub genes”) and were annotated to significantly more gene ontology terms compared to nondifferentially spliced genes, consistent with a higher level of pleiotropy. Together, our results suggest that the concerted regulation of alternative splicing and differential gene expression through different regulatory regions leads to the divergence of complementary processes important for local adaptation. This provides novel insights into the importance of contrasting but putatively complementary molecular processes in rapid parallel adaptive evolution. see also the Perspective by Sarah J. Salisbury, M. Lisette Delgado and Anne C. Dalziel.
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影响因子：
2.7
作者：
Guðbrandsson J;Franzdóttir SR;Kristjánsson BK;Ahi EP;Maier VH;Kapralova KH;Snorrason SS;Jónsson ZO;Pálsson A
通讯作者：
Pálsson A
影响因子：
3.7
作者：
Christensen KA;Rondeau EB;Minkley DR;Leong JS;Nugent CM;Danzmann RG;Ferguson MM;Stadnik A;Devlin RH;Muzzerall R;Edwards M;Davidson WS;Koop BF
通讯作者：
Koop BF
影响因子：
4.3
作者：
Batada NN;Hurst LD;Tyers M
通讯作者：
Tyers M
影响因子：
10.7
作者：
Grantham, Mary E.;Brisson, Jennifer A.
通讯作者：
Brisson, Jennifer A.
DOI：
10.1016/j.cbpb.2017.08.001
发表时间：
2018-10-01
影响因子：
2.2
作者：
Dalziel, Anne C.;Laporte, Martin;Bernatchez, Louis
通讯作者：
Bernatchez, Louis