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Gel-based and gel-free search for plasma membrane proteins in chickpea (Cicer arietinum L.) augments the comprehensive data sets of membrane protein repertoire

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Title Gel-based and gel-free search for plasma membrane proteins in chickpea (Cicer arietinum L.) augments the comprehensive data sets of membrane protein repertoire
 
Creator Barua, Pragya
Subba, Pratigya
Lande, Nilesh Vikram
Mangalaparthi, Kiran K.
Prasad, T.S. Keshava
Chakraborty, Subhra
Chakraborty, Niranjan
 
Subject Food legume
Hydropathy indices
LC-MS/MS analysis
Plasma membrane proteome
Posttranslational modifications
Trans-membrane domain
 
Description Accepted date: 18 April 2016
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.
This work was supported by a grant [BT/AGR/CG-Phase-II] from the Department of
Biotechnology (DBT), Govt. of India. The authors thank DBT and Council of Scientific and Industrial Research (CSIR) for providing research fellowship to PB and NVL, respectively.
The authors gratefully acknowledge International Crops Research Institute for the Semi-Arid
Tropics (ICRISAT), Hyderabad, India for providing chickpea seeds. Mr. Jasbeer Singh is
thanked for manuscript layout and format, and the artwork.
 
Date 2016-05-03T07:07:29Z
2016-05-03T07:07:29Z
2016
 
Type Article
 
Identifier J. Proteomics, 143: 199-208
1874-3919
http://172.16.0.77:8080/jspui/handle/123456789/644
http://www.sciencedirect.com/science/article/pii/S1874391916301373
10.1016/j.jprot.2016.04.015
 
Language en_US
 
Publisher Elsevier B.V.