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. 2017 Aug 8;165:11-20. doi: 10.1016/j.jprot.2017.06.005. Epub 2017 Jun 15.
Chloroplast, the energy organelle unique to plant cells, is a dynamic entity which integrates an array of metabolic pathways and serves as first level for energy conversion for the entire ecological hierarchy. Increasing amount of sequence data and evolution of mass spectrometric approaches has opened up new avenues for opportune exploration of the global proteome of this organelle. In our study, we aimed at generation of a comprehensive catalogue of chloroplast proteins in a grain legume, chickpea and provided a reference proteome map. To accurately assign the identified proteins, purity of chloroplast-enriched fraction was stringently monitored by multiple chemical and immunological indexes, besides pigment and enzyme analyses. The proteome analysis led to the identification of 2451 proteins, including 27 isoforms, which include predicted and novel chloroplast constituents. The identified proteins were validated through their sequence analysis. Extensive sequence based localization prediction revealed more than 50% proteins to be chloroplast resident by at least two different algorithms. Chromosomal distribution of identified proteins across nuclear and chloroplast genome unveiled the presence of 55 chloroplast encoded gene. In depth comparison of our dataset with the non-redundant set of chloroplast proteins identified so far across other species revealed novel as well as overlapping candidates.
Pulses add large amount of nitrogen to the soil and has very low water footprint and therefore, contributes to fortification of sustainable agriculture. Chickpea is one of the earliest cultivated legumes and serves as an energy and protein source for humans and animals. Chloroplasts are the unique organelles which conduct photosynthesis. Investigation on chloroplast proteome is of particular significance, especially to plant biologists, as it would allow a better understanding of chloroplast function in plants. Generation of a saturated proteome map would not only validate the proteome inventory from its genome sequencing, but also serve as a comprehensive catalogue for future studies. We identified 2451 proteins, encoded by both the nuclear as well as chloroplast genomes, presumably involved in multivariate metabolic processes. The chloroplast deduced proteome and putative chloroplast proteins identified in this study would provide a foundation for future investigation of the expression and function of the chloroplast proteins of chickpea in specific and other crops species in general.
叶绿体是植物细胞特有的能量细胞器，是一个动态实体，整合了一系列代谢途径，是整个生态层次能量转换的第一级。越来越多的序列数据和质谱方法的发展为适时探索该细胞器的全球蛋白质组学开辟了新的途径。在我们的研究中，我们旨在生成一种谷物豆类鹰嘴豆的叶绿体蛋白质综合目录，并提供一个参考蛋白质组图谱。为了准确地分配鉴定出的蛋白质，除了色素和酶分析外，还通过多种化学和免疫学指标严格监测富含叶绿体的级分的纯度。蛋白质组分析导致鉴定出 2451 种蛋白质，包括 27 种同工型，其中包括预测的和新的叶绿体成分。通过序列分析验证了鉴定出的蛋白质。广泛的基于序列的定位预测表明，超过 50%的蛋白质至少有两种不同的算法被认为是叶绿体驻留蛋白。鉴定出的蛋白质在核基因组和叶绿体基因组中的染色体分布揭示了 55 个叶绿体编码基因的存在。通过与迄今为止在其他物种中鉴定出的非冗余叶绿体蛋白质数据集进行深入比较，发现了新的和重叠的候选物。
豆类为土壤提供大量氮素，耗水量非常低，因此有助于加强可持续农业。鹰嘴豆是最早种植的豆类之一，是人类和动物的能量和蛋白质来源。叶绿体是进行光合作用的独特细胞器。对叶绿体蛋白质组的研究具有特别重要的意义，特别是对植物生物学家来说，因为它可以帮助更好地理解叶绿体在植物中的功能。生成一个饱和的蛋白质组图谱不仅可以从基因组测序中验证蛋白质组清单，还可以作为未来研究的综合目录。我们鉴定了 2451 种蛋白质，这些蛋白质由核基因组和叶绿体基因组编码，可能参与多种代谢过程。本研究中推断的叶绿体蛋白质组和推测的叶绿体蛋白质为未来研究鹰嘴豆和其他作物特定物种叶绿体蛋白质的表达和功能提供了基础。
