Evolutionary rate variation, genomic dominance and duplicate gene expression evolution during allotetraploid cotton speciation
Evolutionary rate variation, genomic dominance and duplicate gene expression evolution during allotetraploid cotton speciation
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DOI：
10.1111/j.1469-8137.2009.03107.x
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发表时间：
2010-01-01
期刊：
影响因子：
9.4
通讯作者：
Wendel, Jonathan F.
中科院分区：
文献类型：
--
作者：
Flagel, Lex E.;Wendel, Jonathan F.
在这里，我们描述了棉花属（棉属）中五个异源多倍体物种的基因表达的进化。使用这种系统发育框架和比较伴随F-1杂交的表达变化，我们提供了一个时间的角度来看，表达多样化以下共享的基因组duplication.Global模式的基因表达的花瓣RNA的杂交自定义微阵列进行了研究。这个平台测量C的总表达。42 000个重复基因，c. 1400个同源同源基因（通过多倍体复制的基因）。我们报告了所有物种中同源基因表达偏好，异源多倍体D基因组优于A基因组（在五个多倍体物种中，D偏好范围从c. 54%至60%），除了基因之间的偏见保守。此外，我们发现令人惊讶的水平的超越的上调和下调的异源多倍体，减少的基因组表达的优势，但不是在其幅度的水平的偏见，和高水平的率之间的异源四倍体species.We的变化说明如何系统发育和时间的表达进化的组成部分可能会被分配和揭示异源多倍体。表达进化的总体模式是相似的棉花异源四倍体之间，尽管种间率的变化很高的水平，但显着不同的方向基因组表达的显性模式在合成的F-1杂交。
P>Here, we describe the evolution of gene expression among a diversified cohort of five allopolyploid species in the cotton genus (Gossypium). Using this phylogenetic framework and comparisons with expression changes accompanying F-1 hybridization, we provide a temporal perspective on expression diversification following a shared genome duplication.Global patterns of gene expression were studied by the hybridization of petal RNAs to a custom microarray. This platform measures total expression for c. 42 000 duplicated genes, and genome-specific expression for c. 1400 homoeologs (genes duplicated by polyploidy).We report homoeolog expression bias favoring the allopolyploid D genome over the A genome in all species (among five polyploid species, D biases ranging from c. 54 to 60%), in addition to conservation of biases among genes. Furthermore, we find surprising levels of transgressive up- and down-regulation in the allopolyploids, a diminution of the level of bias in genomic expression dominance but not in its magnitude, and high levels of rate variation among allotetraploid species.We illustrate how phylogenetic and temporal components of expression evolution may be partitioned and revealed following allopolyploidy. Overall patterns of expression evolution are similar among the Gossypium allotetraploids, notwithstanding a high level of interspecific rate variation, but differ strikingly from the direction of genomic expression dominance patterns in the synthetic F-1 hybrid.