Experimental Evolution of Gene Expression and Plasticity in Alternative Selective Regimes.
Experimental Evolution of Gene Expression and Plasticity in Alternative Selective Regimes.
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DOI：
10.1371/journal.pgen.1006336
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发表时间：
2016-09
期刊：
影响因子：
4.5
通讯作者：
Agrawal AF
中科院分区：
文献类型：
--
作者：
Huang Y;Agrawal AF
随着种群适应不同的环境制度，人们对基因表达及其可塑性如何演变知之甚少。预计所有种群的表达都会适应性进化，但只有那些经历环境异质性的种群才会表现出适应性的可塑性进化。我们测量了富镉饲料和富盐饲料中黑腹果蝇实验种群的转录组，这些实验种群在四种选择性模式中进化了约130代：两种恒定模式在镉或盐饮食中保持不变，以及两种不同模式在时间或空间上有所不同。对于在恒定制度下进化的种群，我们发现了一个强烈的逆梯度进化的特征；适应替代饮食的种群之间进化的表达差异与祖先种群对两种饮食都天真的可塑性反应相反。基于祖先群体中的表达模式，我们确定了一组基因，我们预测在不同的制度下对这些基因的选择会导致可塑性的增加，我们找到了预期的模式。相比之下，我们预测可塑性降低的一组基因并不符合预期。尽管如此，这两组基因都显示出一种与异质环境中适应性表达进化一致的模式，突显了观察到“最佳”可塑性和环境特异性表达改善之间的差异。纵观所有基因，有证据表明不同环境的偏向等位基因表达存在差异(“等位基因可塑性”)，这在总表达可塑性的基因中更为常见。不同的发育环境改变了基因的表达方式和产生的表型。在这里，我们研究了基因表达对不同环境的响应(“表达可塑性”)是如何在适应恒定环境或异质性环境(时间或空间异质性)的种群中进化的。我们发现，祖先种群对这两种环境天真的可塑性反应，通常与适应于不同环境的种群之间的进化差异相反。生活在异质环境中的种群表明，在预测进化可塑性变化的基因中，存在适应性表达进化的证据。
Little is known of how gene expression and its plasticity evolves as populations adapt to different environmental regimes. Expression is expected to evolve adaptively in all populations but only those populations experiencing environmental heterogeneity are expected to show adaptive evolution of plasticity. We measured the transcriptome in a cadmium-enriched diet and a salt-enriched diet for experimental populations of Drosophila melanogaster that evolved for ~130 generations in one of four selective regimes: two constant regimes maintained in either cadmium or salt diets and two heterogeneous regimes that varied either temporally or spatially between the two diets. For populations evolving in constant regimes, we find a strong signature of counter-gradient evolution; the evolved expression differences between populations adapted to alternative diets is opposite to the plastic response of the ancestral population that is naïve to both diets. Based on expression patterns in the ancestral populations, we identify a set of genes for which we predict selection in heterogeneous regimes to result in increases in plasticity and we find the expected pattern. In contrast, a set of genes where we predicted reduced plasticity did not follow expectation. Nonetheless, both gene sets showed a pattern consistent with adaptive expression evolution in heterogeneous regimes, highlighting the difference between observing “optimal” plasticity and improvements in environment-specific expression. Looking across all genes, there is evidence in all regimes of differences in biased allele expression across environments (“allelic plasticity”) and this is more common among genes with plasticity in total expression. Different developmental environments change how genes are expressed and what phenotypes are produced. Here we examine how the responsiveness of gene expression to different environments (“expression plasticity”) evolves in populations adapted to constant environments or heterogeneous ones (temporal or spatial heterogeneity) using experimental populations of D. melanogaster. We find the plastic response of the ancestral population that is naïve to both environments is generally opposed by the evolved differences between populations adapted to alternative environments. Populations that live in heterogeneous environments show evidence of adaptive expression evolution in genes predicted to evolve changes in plasticity.
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DOI：
10.1126/science.1242379
发表时间：
2013-11-29
期刊：
Science (New York, N.Y.)
影响因子：
--
作者：
Khan Z;Ford MJ;Cusanovich DA;Mitrano A;Pritchard JK;Gilad Y
通讯作者：
Gilad Y
影响因子：
12.3
作者：
Gentleman RC;Carey VJ;Bates DM;Bolstad B;Dettling M;Dudoit S;Ellis B;Gautier L;Ge Y;Gentry J;Hornik K;Hothorn T;Huber W;Iacus S;Irizarry R;Leisch F;Li C;Maechler M;Rossini AJ;Sawitzki G;Smith C;Smyth G;Tierney L;Yang JY;Zhang J
通讯作者：
Zhang J
影响因子：
3.3
作者：
BERVEN, KA;GILL, DE;SMITHGILL, SJ
通讯作者：
SMITHGILL, SJ
DOI：
10.1111/j.2517-6161.1995.tb02031.x
发表时间：
1995-01-01
影响因子：
5.8
作者：
BENJAMINI, Y;HOCHBERG, Y
通讯作者：
HOCHBERG, Y
DOI：
10.1111/j.1749-6632.2009.04575.x
发表时间：
2009-01-01
期刊：
YEAR IN EVOLUTIONARY BIOLOGY 2009
影响因子：
--
作者：
Conover, David O.;Duffy, Tara A.;Hice, Lyndie A.
通讯作者：
Hice, Lyndie A.