Linear modeling reveals a predominance of cis- over trans- regulatory effects in wild and domesticated barley
Linear modeling reveals a predominance of cis- over trans- regulatory effects in wild and domesticated barley
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DOI：
10.1101/661926
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发表时间：
2019-06
期刊：
影响因子：
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通讯作者：
M. Haas;A. Himmelbach;M. Mascher
中科院分区：
文献类型：
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作者：
M. Haas;A. Himmelbach;M. Mascher
大麦和其他作物一样，经历了一系列基因变化，影响了其结构和生长习性，以满足人类的需求，称为驯化综合症。驯化还导致了随之而来的瓶颈，减少了基因和调控区域的序列多样性。人们对大麦驯化引起的监管变化知之甚少。我们使用 RNA-seq 来检查野生大麦和驯化大麦杂交种中的等位基因特异性表达 (ASE)。我们的结果表明大多数基因具有保守的调控。与种间杂种等位基因特异性表达的研究相反，我们发现几乎完全不存在反式效应。我们还发现顺式调节在应对短期冷应激时基本上是稳定的。我们的研究对于利用野生近缘种改良作物具有实际意义。顺式调控的基因更有可能在新的遗传背景中以与其天然背景相同的水平表达。
Barley, like other crops, has experienced a series of genetic changes that have impacted its architecture and growth habit to suit the needs of humans, termed the domestication syndrome. Domestication also resulted in a concomitant bottleneck that reduced sequence diversity in genes and regulatory regions. Little is known about regulatory changes resulting from domestication in barley. We used RNA-seq to examine allele-specific expression (ASE) in hybrids between wild and domesticated barley. Our results show that most genes have conserved regulation. In contrast to studies of allele specific expression in interspecific hybrids, we find almost a complete absence of trans effects. We also find that cis regulation is largely stable in response to short-term cold stress. Our study has practical implications for crop improvement using wild relatives. Genes regulated in cis are more likely to be expressed in a new genetic background at the same level as in their native background.