Gene duplication and rate variation in the evolution of plastid ACCase and Clp genes in angiosperms.
Gene duplication and rate variation in the evolution of plastid ACCase and Clp genes in angiosperms.
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DOI：
10.1016/j.ympev.2022.107395
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发表时间：
2022-03
影响因子：
4.1
通讯作者：
Sloan, Daniel B.
中科院分区：
文献类型：
--
作者：
Williams, Alissa M.;Carter, Olivia G.;Forsythe, Evan S.;Mendoza, Hannah K.;Sloan, Daniel B.
虽然叶绿体（质体）因其在光合作用中的作用而闻名，但它也参与植物生存所必需的许多其他代谢途径。因此，质体含有非光合作用过程所需的大量酶。相关基因的进化在开花植物（被子植物）中尤其动态，包括基因复制和广泛的速率变异的例子。我们研究了两个关键的质体酶，乙酰辅酶A羧化酶（ACCase）和酪蛋白分解蛋白酶（Clp），负责脂肪酸的生物合成和蛋白质周转，分别正在进行的基因复制的作用。在植物中，有两种ACC酶复合物--胞质溶胶中存在的同聚形式和质体中存在的异聚形式。核编码的同源ACCase基因的重复和一个所得蛋白质的重新靶向质体先前已在多个物种中报道。我们发现，这些重定向的同源ACCase蛋白表现出序列进化的速率升高，与新功能化和/或放松选择一致。质体Clp复合物催化核心由9种旁系同源蛋白组成，这些蛋白通过蓝藻/质体谱系中的古老基因复制而产生。我们发现，进一步的基因复制最近发生在核编码的核心亚基的这个复杂的，产生额外的旁系同源物在许多种被子植物。此外，在八个案例中的六个中，相对于那些保持单拷贝的亚基，最近经历了重复的亚基显示出更高的序列进化速率。我们还比较了Clp核心旁系同源物对之间的替代模式，以深入了解重复后的进化路线。这些结果表明，基因重复和速率变异继续塑造质体蛋白质组。
While the chloroplast (plastid) is known for its role in photosynthesis, it is also involved in many other metabolic pathways essential for plant survival. As such, plastids contain an extensive suite of enzymes required for non-photosynthetic processes. The evolution of the associated genes has been especially dynamic in flowering plants (angiosperms), including examples of gene duplication and extensive rate variation. We examined the role of ongoing gene duplication in two key plastid enzymes, the acetyl-CoA carboxylase (ACCase) and the caseinolytic protease (Clp), responsible for fatty acid biosynthesis and protein turnover, respectively. In plants, there are two ACCase complexes—a homomeric version present in the cytosol and a heteromeric version present in the plastid. Duplications of the nuclear-encoded homomeric ACCase gene and retargeting of one resultant protein to the plastid have been previously reported in multiple species. We find that these retargeted homomeric ACCase proteins exhibit elevated rates of sequence evolution, consistent with neofunctionalization and/or relaxation of selection. The plastid Clp complex catalytic core is composed of nine paralogous proteins that arose via ancient gene duplication in the cyanobacterial/plastid lineage. We show that further gene duplication occurred more recently in the nuclear-encoded core subunits of this complex, yielding additional paralogs in many species of angiosperms. Moreover, in six of eight cases, subunits that have undergone recent duplication display increased rates of sequence evolution relative to those that have remained single copy. We also compared substitution patterns between pairs of Clp core paralogs to gain insight into post-duplication evolutionary routes. These results show that gene duplication and rate variation continue to shape the plastid proteome.
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影响因子：
10.7
作者：
Castresana, J
通讯作者：
Castresana, J
DOI：
10.1016/j.jbc.2021.100338
发表时间：
2021-01
期刊：
The Journal of biological chemistry
影响因子：
--
作者：
Bouchnak I;van Wijk KJ
通讯作者：
van Wijk KJ
影响因子：
3.4
作者：
Barnard-Kubow, Karen B.;Sloan, Daniel B.;Galloway, Laura F.
通讯作者：
Galloway, Laura F.
影响因子：
10.7
作者：
Dermitzakis, ET;Clark, AG
通讯作者：
Clark, AG
影响因子：
14.9
作者：
Goodstein DM;Shu S;Howson R;Neupane R;Hayes RD;Fazo J;Mitros T;Dirks W;Hellsten U;Putnam N;Rokhsar DS
通讯作者：
Rokhsar DS