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Integrated Analysis of Protein Abundance, Transcript Level, and Tissue Diversity To Reveal Developmental Regulation of Maize
Journal of Proteome Research ( IF 4.4 ) Pub Date : 2018-01-08 00:00:00 , DOI: 10.1021/acs.jproteome.7b00586
Haitao Jia 1 , Wei Sun 1 , Manfei Li 1 , Zuxin Zhang 1
Affiliation  

The differentiation and subsequent development of plant tissues or organs are tightly regulated at multiple levels, including the transcriptional, posttranscriptional, translational, and posttranslational levels. Transcriptomes define many of the tissue-specific gene expression patterns in maize, and some key genes and their regulatory networks have been established at the transcriptional level. In this study, the sequential window acquisition of all theoretical spectra–mass spectrometry technique was employed as a quantitative proteome assay of four representative maize tissues, and a set of high-confidence proteins was identified. Integrated analysis of the proteome and transcriptome revealed that protein abundance was positively correlated with mRNA level with weak to moderate correlation coefficients, but the abundance of key proteins for function or architecture in a given tissue was closely tempospatially regulated at the transcription level. A subset of differentially expressed proteins, specifically tissue-specific highly expressed proteins, was identified, for example, reproductive structure and flower development-related proteins in tassel and ear, lipid and fatty acid biosynthetic process-related proteins in immature embryo, and inorganic substance and oxidation reduction responsive proteins in root, potentially revealing the physiology, morphology, and function of each tissue. Furthermore, we found many new proteins in specific tissues that were highly correlated with their mRNA levels, in addition to known key factors. These proteome data provide new perspective for understanding many aspects of maize developmental biology. Raw proteomics data are available via ProteomeXchange with identifier PXD008464.

中文翻译:

蛋白质丰度,转录水平和组织多样性的综合分析,以揭示玉米的发育调控

植物组织或器官的分化和随后的发育在多个水平上受到严格调节,包括转录,转录后,翻译和翻译后水平。转录组定义了玉米中许多组织特异性基因的表达模式,一些关键基因及其调控网络已在转录水平上建立。在这项研究中,采用了所有理论光谱-质谱法的连续窗口采集技术作为四个代表性玉米组织的定量蛋白质组分析,并鉴定了一组高可信度蛋白质。蛋白质组和转录组的综合分析表明,蛋白质丰度与mRNA水平呈正相关,相关系数弱至中等,但是在给定组织中,功能或结构关键蛋白的丰富程度在转录水平上受到时空调节。鉴定出差异表达蛋白的一个子集,特别是组织特异性高表达蛋白,例如,流苏和耳朵中与生殖结构和花朵发育相关的蛋白,未成熟胚中与脂质和脂肪酸生物合成过程相关的蛋白以及无机物质根中的氧化还原反应蛋白,可能揭示每个组织的生理,形态和功能。此外,除了已知的关键因素外,我们还在特定组织中发现了许多与其mRNA水平高度相关的新蛋白质。这些蛋白质组数据为理解玉米发育生物学的许多方面提供了新的视角。
更新日期:2018-01-09
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