Comparative qualitative phosphoproteomics analysis identifies shared phosphorylation motifs and associated biological processes in evolutionary divergent plants.
Comparative qualitative phosphoproteomics analysis identifies shared phosphorylation motifs and associated biological processes in evolutionary divergent plants.
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DOI：
10.1016/j.jprot.2018.04.011
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发表时间：
2018-06-15
影响因子：
3.3
通讯作者：
Jones AR
中科院分区：
文献类型：
--
作者：
Al-Momani S;Qi D;Ren Z;Jones AR
磷酸化是最普遍的翻译后修饰之一，在调节细胞过程中起着关键作用。我们对已有的磷酸化蛋白质组学数据进行了生物信息学分析，分析了两个代表开花植物中最大亚类的模式物种双子叶植物拟南芥和单子叶植物水稻，以了解磷酸化信号传导和功能在进化趋异植物中的保守程度。我们从拟南芥的3189个磷蛋白中鉴定出6537个磷酸肽，从水稻的1613个磷蛋白中鉴定出2307个磷酸肽。我们鉴定了磷酸化基序，发现水稻和拟南芥中共有19个pS基序和2个pT基序。大多数共享的含基序的蛋白质被映射到相同的生物过程中，具有相似的折叠富集模式，表明高功能的保守性。我们还鉴定了具有富集基序pSXpS、pSXXpS和pSXXXpS的磷酸丝氨酸之间的共有串扰模式，其中X是任何氨基酸。最后，我们的研究结果确定了几对基序，这些基序在拟南芥蛋白质中显著富集，表明不同位点之间存在串扰，但在水稻中没有观察到。我们的研究结果表明，有进化保守的磷酸化介导的信号转导机制在植物中，通过高通量磷酸化蛋白质组学数据分析的关键单子叶植物和双子叶植物：水稻和拟南芥。结果还表明，在A.与水稻相比。这些结果对于我们全面理解植物细胞信号传导以及利用A。thaliana作为植物生物学的一般模式。探索了植物中磷酸化信号的进化保守性。在水稻和拟南芥中共鉴定出19个pS基序和2个pT基序。含有共享基序的蛋白质在相同的途径中类似地富集。鉴定了双位点共享基序pSXpS、pSXXpS和pSXXXpS。在拟南芥中，pSites之间存在更大的共现串扰。
Phosphorylation is one of the most prevalent post-translational modifications and plays a key role in regulating cellular processes. We carried out a bioinformatics analysis of pre-existing phosphoproteomics data, to profile two model species representing the largest subclasses in flowering plants the dicot Arabidopsis thaliana and the monocot Oryza sativa, to understand the extent to which phosphorylation signaling and function is conserved across evolutionary divergent plants. We identified 6537 phosphopeptides from 3189 phosphoproteins in Arabidopsis and 2307 phosphopeptides from 1613 phosphoproteins in rice. We identified phosphorylation motifs, finding nineteen pS motifs and two pT motifs shared in rice and Arabidopsis. The majority of shared motif-containing proteins were mapped to the same biological processes with similar patterns of fold enrichment, indicating high functional conservation. We also identified shared patterns of crosstalk between phosphoserines with enrichment for motifs pSXpS, pSXXpS and pSXXXpS, where X is any amino acid. Lastly, our results identified several pairs of motifs that are significantly enriched to co-occur in Arabidopsis proteins, indicating cross-talk between different sites, but this was not observed in rice. Our results demonstrate that there are evolutionary conserved mechanisms of phosphorylation-mediated signaling in plants, via analysis of high-throughput phosphorylation proteomics data from key monocot and dicot species: rice and Arabidposis thaliana. The results also suggest that there is increased crosstalk between phosphorylation sites in A. thaliana compared with rice. The results are important for our general understanding of cell signaling in plants, and the ability to use A. thaliana as a general model for plant biology. The evolutionary conservation of phosphorylation signalling in plants was explored. Nineteen pS motifs and two pT motifs shared in rice and Arabidopsis were identified. Shared motif-containing proteins are similarly enriched in the same pathways. Dual site, shared motifs pSXpS, pSXXpS and pSXXXpS were identified. There is greater co-occurrence of crosstalk between pSites in Arabidopsis.
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影响因子：
5.6
作者：
Nishi, Hafumi;Demir, Emek;Panchenko, Anna R.
通讯作者：
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影响因子：
20.5
作者：
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Sato H;Todaka D;Kudo M;Mizoi J;Kidokoro S;Zhao Y;Shinozaki K;Yamaguchi-Shinozaki K
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DOI：
10.1098/rstb.2012.0003
发表时间：
2012-09-19
影响因子：
6.3
作者：
Lehti-Shiu, Melissa D.;Shiu, Shin-Han
通讯作者：
Shiu, Shin-Han
影响因子：
14.9
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Mi H;Poudel S;Muruganujan A;Casagrande JT;Thomas PD
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