Department of Genetics & Biochemistry, Clemson University, Clemson, SC 29634, USA.
Department of Plant and Microbial Biology, University of California Berkeley, Berkeley, CA 94720, USA.
New Phytol. 2012 Jan;193(1):241-252. doi: 10.1111/j.1469-8137.2011.03916.x. Epub 2011 Sep 28.
• Whole genome duplication events provide a lineage with a large reservoir of genes that can be molded by evolutionary forces into phenotypes that fit alternative environments. A well-studied whole genome duplication, the α-event, occurred in an ancestor of the model plant Arabidopsis thaliana. Retained segments of the α-event have been defined in recent years in the form of duplicate protein coding sequences (α-pairs) and associated conserved noncoding DNA sequences (CNSs). Our aim was to identify any association between CNSs and α-pair co-functionality at the gene expression level. • Here, we tested for correlation between CNS counts and α-pair co-expression and expression intensity across nine expression datasets: aerial tissue, flowers, leaves, roots, rosettes, seedlings, seeds, shoots and whole plants. • We provide evidence for a putative regulatory role of the CNSs. The association of CNSs with α-pair co-expression and expression intensity varied by gene function, subgene position and the presence of transcription factor binding motifs. A range of possible CNS regulatory mechanisms, including intron-mediated enhancement, messenger RNA fold stability and transcriptional regulation, are discussed. • This study provides a framework to understand how CNS motifs are involved in the maintenance of gene expression after a whole genome duplication event.
• 全基因组复制事件为谱系提供了大量的基因储备，这些基因可以通过进化力量塑造成适应替代环境的表型。在模式植物拟南芥的一个祖先中，发生了一个研究得很好的全基因组复制，即α-事件。近年来，以重复的蛋白质编码序列（α-对）和相关的保守非编码 DNA 序列（CNSs）的形式定义了 α-事件的保留片段。我们的目的是确定 CNSs 与基因表达水平的 α-对共功能性之间是否存在任何关联。 • 在这里，我们在 9 个表达数据集（空中组织、花、叶、根、莲座丛、幼苗、种子、芽和整株植物）中测试了 CNS 计数与 α-对共表达和表达强度之间的相关性。 • 我们提供了 CNS 可能具有调节作用的证据。CNSs 与 α-对共表达和表达强度的关联因基因功能、亚基因位置和转录因子结合基序的存在而不同。讨论了一系列可能的 CNS 调节机制，包括内含子介导的增强、信使 RNA 折叠稳定性和转录调节。 • 这项研究为理解 CNS 基序如何在全基因组复制事件后参与基因表达的维持提供了一个框架。
