Extensive local gene duplication and functional divergence among paralogs in Atlantic salmon.
Extensive local gene duplication and functional divergence among paralogs in Atlantic salmon.
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DOI：
10.1093/gbe/evu131
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发表时间：
2014-06-19
影响因子：
3.3
通讯作者：
Sumner S
中科院分区：
文献类型：
--
作者：
Warren IA;Ciborowski KL;Casadei E;Hazlerigg DG;Martin S;Jordan WC;Sumner S
许多生物体可以从相同的基因组中产生不同的表型，使个体能够利用多样化和可变的环境。一个流行的假设是，这种适应已被基因复制事件，产生冗余的基因组材料，可能会演变不同的功能青睐。脊椎动物的例子，最近的全基因组复制是稀疏的，虽然一个例子是鲑鱼，其中经历了全基因组复制事件在过去的1亿年。大西洋鲑鱼（萨尔莫salar）的生命周期取决于从同一基因组产生交替表型的能力，以促进迁移并维持其溯河产卵的生活史。在这里，我们调查的假设，全基因组和本地的基因复制事件作出了贡献的鲑鱼适应。我们使用高通量测序来表征参与调节S迁移的三个关键器官的转录组。嗅叶：脑、垂体和嗅上皮。我们发现了超过10，000个未描述的S。salar序列，并设计了一个分析工作流程，以区分源自局部基因复制事件或源自全基因组复制事件的旁系同源物。这些数据表明，大量的局部基因复制发生后不久，全基因组复制事件。许多已识别的parabolic对要么在功能上分歧，要么成为非编码。未来的功能基因组学研究将揭示在何种程度上这种丰富的遗传序列的分歧来源可能促进了溯河产卵生命周期所需的极端表型可塑性的进化。
Many organisms can generate alternative phenotypes from the same genome, enabling individuals to exploit diverse and variable environments. A prevailing hypothesis is that such adaptation has been favored by gene duplication events, which generate redundant genomic material that may evolve divergent functions. Vertebrate examples of recent whole-genome duplications are sparse although one example is the salmonids, which have undergone a whole-genome duplication event within the last 100 Myr. The life-cycle of the Atlantic salmon, Salmo salar, depends on the ability to produce alternating phenotypes from the same genome, to facilitate migration and maintain its anadromous life history. Here, we investigate the hypothesis that genome-wide and local gene duplication events have contributed to the salmonid adaptation. We used high-throughput sequencing to characterize the transcriptomes of three key organs involved in regulating migration in S. salar: Brain, pituitary, and olfactory epithelium. We identified over 10,000 undescribed S. salar sequences and designed an analytic workflow to distinguish between paralogs originating from local gene duplication events or from whole-genome duplication events. These data reveal that substantial local gene duplications took place shortly after the whole-genome duplication event. Many of the identified paralog pairs have either diverged in function or become noncoding. Future functional genomics studies will reveal to what extent this rich source of divergence in genetic sequence is likely to have facilitated the evolution of extreme phenotypic plasticity required for an anadromous life-cycle.
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DOI：
10.1111/j.1469-8137.2009.03087.x
发表时间：
2010-04
期刊：
The New phytologist
影响因子：
--
作者：
Birchler JA;Veitia RA
通讯作者：
Veitia RA
影响因子：
16.6
作者：
Berthelot, Camille;Brunet, Frederic;Chalopin, Domitille;Juanchich, Amelie;Bernard, Maria;Noel, Benjamin;Bento, Pascal;Da Silva, Corinne;Labadie, Karine;Alberti, Adriana;Aury, Jean-Marc;Louis, Alexandra;Dehais, Patrice;Bardou, Philippe;Montfort, Jerome;Klopp, Christophe;Cabau, Cedric;Gaspin, Christine;Thorgaard, Gary H.;Boussaha, Mekki;Quillet, Edwige;Guyomard, Rene;Galiana, Delphine;Bobe, Julien;Volff, Jean-Nicolas;Genet, Carine;Wincker, Patrick;Jaillon, Olivier;Roest Crollius, Hugues;Guiguen, Yann
通讯作者：
Guiguen, Yann
影响因子：
14.9
作者：
Benson DA;Karsch-Mizrachi I;Lipman DJ;Ostell J;Wheeler DL
通讯作者：
Wheeler DL
影响因子：
4.5
作者：
Fares MA;Keane OM;Toft C;Carretero-Paulet L;Jones GW
通讯作者：
Jones GW
影响因子：
14.9
作者：
UniProt Consortium
通讯作者：
UniProt Consortium