Barua Pragya, Subba Pratigya, Lande Nilesh Vikram, Mangalaparthi Kiran K, Prasad T S Keshava, Chakraborty Subhra, Chakraborty Niranjan
National Institute of Plant Genome Research, Jawaharlal Nehru University Campus, Aruna Asaf Ali Marg, New Delhi 110067, India.
YU-IOB Center for Systems Biology and Molecular Medicine, Yenepoya University, Mangalore, 575 018, India.
J Proteomics. 2016 Jun 30;143:199-208. doi: 10.1016/j.jprot.2016.04.015. Epub 2016 Apr 22.
Plasma membrane (PM) encompasses total cellular contents, serving as semi-porous barrier to cell exterior. This living barrier regulates all cellular exchanges in a spatio-temporal fashion. Most of the essential tasks of PMs including molecular transport, cell-cell interaction and signal transduction are carried out by their proteinaceous components, which make the PM protein repertoire to be diverse and dynamic. Here, we report the systematic analysis of PM proteome of a food legume, chickpea and develop a PM proteome reference map. Proteins were extracted from highly enriched PM fraction of four-week-old seedlings using aqueous two-phase partitioning. To address a population of PM proteins that is as comprehensive as possible, both gel-based and gel-free approaches were employed, which led to the identification of a set of 2732 non-redundant proteins. These included both integral proteins having bilayer spanning domains as well as peripheral proteins associated with PMs through posttranslational modifications or protein-protein interactions. Further, the proteins were subjected to various in-silico analyses and functionally classified based on their gene ontology. Finally an inventory of the complete set of PM proteins, identified in several monocot and dicot species, was created for comparative study with the generated PM protein dataset of chickpea.
Chickpea, a rich source of dietary proteins, is the second most cultivated legume, which is grown over 10 million hectares of land worldwide. The annual global production of chickpea hovers around 8.5 million metric tons. Recent chickpea genome sequencing effort has provided a broad genetic basis for highlighting the important traits that may fortify other crop legumes. Improvement in chickpea varieties can further strengthen the world food security, which includes food availability, access and utilization. It is known that the phenotypic trait of a cultivar is the manifestation of the orchestrated functions of its proteins. Study of the PM proteome offers insights into the mechanism of communication between the cell and its environment by identification of receptors, signalling proteins and membrane transporters. Knowledge of the PM protein repertoire of a relatively dehydration tolerant chickpea variety, JG-62, can contribute in development of strategies for metabolic reprograming of crop species and breeding applications.
质膜（PM）包裹着细胞的全部内容物，作为细胞外部的半透性屏障。这个活性屏障以时空方式调节所有细胞间的交换。质膜的大多数基本任务，包括分子运输、细胞间相互作用和信号转导，都是由其蛋白质成分执行的，这使得质膜蛋白质组具有多样性和动态性。在此，我们报告了对一种食用豆类作物鹰嘴豆质膜蛋白质组的系统分析，并绘制了质膜蛋白质组参考图谱。使用双水相分配法从四周龄幼苗高度富集的质膜组分中提取蛋白质。为了尽可能全面地研究质膜蛋白质群体，我们采用了基于凝胶和非凝胶的方法，从而鉴定出一组2732个非冗余蛋白质。这些蛋白质包括具有跨膜结构域的整合蛋白以及通过翻译后修饰或蛋白质 - 蛋白质相互作用与质膜相关的外周蛋白。此外，对这些蛋白质进行了各种计算机分析，并根据其基因本体进行功能分类。最后，创建了在几种单子叶和双子叶物种中鉴定出的完整质膜蛋白质清单，以便与生成的鹰嘴豆质膜蛋白质数据集进行比较研究。
鹰嘴豆是膳食蛋白质的丰富来源，是种植面积第二大的豆类作物，在全球超过1000万公顷的土地上种植。鹰嘴豆的全球年产量约为850万吨。最近的鹰嘴豆基因组测序工作为突出可能强化其他豆类作物的重要性状提供了广泛的遗传基础。鹰嘴豆品种的改良可以进一步加强世界粮食安全，包括粮食供应、获取和利用。众所周知品种的表型特征是其蛋白质协调功能的体现。对质膜蛋白质组的研究通过鉴定受体、信号蛋白和膜转运蛋白，深入了解细胞与其环境之间的通讯机制。了解相对耐旱的鹰嘴豆品种JG - 62的质膜蛋白质组，有助于制定作物物种代谢重编程策略和育种应用。
