Quantitative Proteomics Reveals Remodeling of Protein Repertoire Across Life Phases of Daphnia pulex.
Quantitative Proteomics Reveals Remodeling of Protein Repertoire Across Life Phases of Daphnia pulex.
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定量蛋白质组学揭示了溞生命阶段蛋白质库的重塑。
DOI：
10.1002/pmic.201900155
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发表时间：
2019
期刊：
影响因子：
3.4
通讯作者：
Yampolsky,LevY
中科院分区：
文献类型：
--
作者：
Peshkin,Leonid;Boukhali,Myriam;Haas,Wilhelm;Kirschner,MarcW;Yampolsky,LevY
尽管微甲壳类水蚤正在成为蛋白质组学研究的首选生物体，但其整个生命周期的蛋白质表达尚未得到充分表征。分析了成年雌性、幼体、无性产生的胚胎以及含有有性产生的滞育冷冻和干燥抗性胚胎的 ephippia 休眠阶段的蛋白质组。总体而言，具有已知分子功能的蛋白质比没有可检测直系同源的蛋白质更有可能被检测到。类似地，与没有这种支持的蛋白质相比，可以检测到在两个独立的基因组组装中具有更强的基因模型支持的蛋白质。这表明蛋白质组学流程可用于验证假设的蛋白质，即使给定有问题的参考基因模型。特别是，相对于幼体和成体，两种类型的胚胎中卵黄蛋白原的上调和肌动蛋白和肌球蛋白的下调，以及相对于滞育胚胎和成体而言，发育中的胚胎中细胞周期相关蛋白的过度表达。研究发现，相对于无性产生的非滞育胚胎，小热休克蛋白和过氧化物酶的上调，以及 ephippium 中应激反应蛋白的过度表达。 ephippium 还显示出三种海藻糖合成蛋白的上调和海藻糖水解酶的下调，这与海藻糖在防止冷冻和干燥中的作用一致。
Although the microcrustaceanDaphniais becoming an organism of choice for proteomic studies, protein expression across its life cycle have not been fully characterized. Proteomes of adult females, juveniles, asexually produced embryos, and the ephippia‐resting stages containing sexually produced diapausing freezing‐ and desiccation‐resistant embryos are analyzed. Overall, proteins with known molecular functions are more likely to be detected than proteins with no detectable orthology. Similarly, proteins with stronger gene model support in two independent genome assemblies can be detected, than those without such support. This suggests that the proteomics pipeline can be applied to verify hypothesized proteins, even given questionable reference gene models. In particular, upregulation of vitellogenins and downregulation of actins and myosins in embryos of both types, relative to juveniles and adults, and overrepresentation of cell‐cycle related proteins in the developing embryos, relative to diapausing embryos and adults, are observed. Upregulation of small heat‐shock proteins and peroxidases, as well as overrepresentation of stress‐response proteins in the ephippium relative to the asexually produced non‐diapausing embryos, is found. The ephippium also shows upregulation of three trehalose‐synthesis proteins and downregulation of a trehalose hydrolase, consistent with the role of trehalose in protection against freezing and desiccation.