Compositional shifts associated with major evolutionary transitions in plants
Compositional shifts associated with major evolutionary transitions in plants
复制标题
DOI：
10.1111/nph.19099
复制
发表时间：
2023-06-28
期刊：
影响因子：
9.4
通讯作者：
Parins-Fukuchi，Charles Tomomi
中科院分区：
文献类型：
--
作者：
Smith，Stephen A. A.;Walker-Hale，Nathanael;Parins-Fukuchi，Charles Tomomi
基因树、形态特征和组成中的异源性与几个主要的植物分支有关。在这里，我们在一个大型的植物转录组数据集上研究了组成的异质性，以更好地了解组成变化的位置是否在基因区域之间共享，以及进化枝内变化的方向是否在基因区域之间共享。我们在最近的一个大型植物转录组数据集上估计了核苷酸和氨基酸组成的混合模型。我们发现核苷酸和氨基酸组成的变化酸数据集，在核苷酸中检测到更多的位移。我们发现，绿藻和谱系内的经验最转变。然而，许多变化发生在陆地，维管和种子植物的起源。虽然这些进化枝中的基因通常不具有相同的组成，但它们倾向于向同一方向转变。我们讨论了这些模式的潜在原因。组成的异质性已被强调为系统发育分析的一个潜在问题，但这里提出的变化突出了需要进一步调查这些模式的信号的生物过程。
Heterogeneity in gene trees, morphological characters, and composition has been associated with several major plant clades. Here, we examine heterogeneity in composition across a large transcriptomic dataset of plants to better understand whether locations of shifts in composition are shared across gene regions and whether directions of shifts within clades are shared across gene regions.We estimate mixed models of composition for both nucleotide and amino acids across a recent large‐scale transcriptomic dataset for plants.We find shifts in composition across both nucleotide and amino acid datasets, with more shifts detected in nucleotides. We find that Chlorophytes and lineages within experience the most shifts. However, many shifts occur at the origins of land, vascular, and seed plants. While genes in these clades do not typically share the same composition, they tend to shift in the same direction. We discuss potential causes of these patterns.Compositional heterogeneity has been highlighted as a potential problem for phylogenetic analysis, but the variation presented here highlights the need to further investigate these patterns for the signal of biological processes.