Comparative proteomic study on Brassica hexaploid and its parents provides new insights into the effects of polyploidization.
Comparative proteomic study on Brassica hexaploid and its parents provides new insights into the effects of polyploidization.
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DOI：
10.1016/j.jprot.2014.10.006
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发表时间：
2015
影响因子：
3.3
通讯作者：
Yanyue Shen;Yu Zhang;J. Zou;J. Meng;Jianbo Wang
中科院分区：
文献类型：
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作者：
Yanyue Shen;Yu Zhang;J. Zou;J. Meng;Jianbo Wang
多倍性通过基因组的合并和加倍在植物进化中起着重要的作用。虽然基因组和转录组的变化已被观察到在多倍体，蛋白质组分歧的多倍体化的影响知之甚少。在这项研究中，我们报告了定量分析的蛋白质组变化的拟南芥六倍体和它的父母使用同量异位素标签的相对和绝对定量（iTRAQ）结合质谱。通过至少两种独特的肽定量总共2044种可再现的蛋白质。结果表明，在拟南芥六倍体与其亲本间共检测到452个差异表达蛋白，其中100个蛋白在拟南芥六倍体中为非加性表达，表明在基因组合并和加倍后存在非加性蛋白调控的趋势。细胞组分生物发生、免疫系统过程和对刺激的反应的功能类别在非加性蛋白中显著富集，可能为异源多倍体的变异和适应提供了驱动力。特别地，在总共452个差异表达的蛋白质中，大多数显示一个亲本表达的表达水平优势，并且存在朝向四倍体祖细胞的表达水平优势偏倚。此外，与先前报道的差异基因相匹配的差异表达蛋白的百分比相对较低。生物学意义本研究旨在对多倍体化对蛋白质组分歧的影响有新的认识。利用iTRAQ LC-MS/MS技术，从异源多倍体及其亲本中鉴定出452个差异表达蛋白，涉及对刺激的应答、多生物过程和免疫系统过程，远多于以往利用双向电泳结合质谱技术的研究。因此，我们的手稿代表了最全面的蛋白质谱分析在异源多倍体及其父母，这将导致更好地了解异源多倍体基因组的新奇性和可塑性。
Polyploidy has played an important role in promoting plant evolution through genomic merging and doubling. Although genomic and transcriptomic changes have been observed in polyploids, the effects of polyploidization on proteomic divergence are poorly understood. In this study, we reported quantitative analysis of proteomic changes in leaves ofBrassicahexaploid and its parents using isobaric tags for relative and absolute quantitation (iTRAQ) coupled with mass spectrometry. A total of 2044 reproducible proteins were quantified by at least two unique peptides. We detected 452 proteins differentially expressed betweenBrassicahexaploid and its parents, and 100 proteins were non-additively expressed inBrassicahexaploid, which suggested a trend of non-additive protein regulation following genomic merger and doubling. Functional categories of cellular component biogenesis, immune system process, and response to stimulus, were significantly enriched in non-additive proteins, probably providing a driving force for variation and adaptation in allopolyploids. In particular, majority of the total 452 differentially expressed proteins showed expression level dominance of one parental expression, and there was an expression level dominance bias toward the tetraploid progenitor. In addition, the percentage of differentially expressed proteins that matched previously reported differentially genes were relatively low.Biological significanceThis study aimed to get new insights into the effects of polyploidization on proteomic divergence. Using iTRAQ LC–MS/MS technology, we identified 452 differentially expressed proteins between allopolyploid and its parents which involved in response to stimulus, multi-organism process, and immune system process, much more than previous studies using 2-DE coupled with mass spectrometry technology. Therefore, our manuscript represents the most comprehensive analysis of protein profiles in allopolyploid and its parents, which will lead to a better understanding of novelty and plasticity of the allopolyploid genomes.