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Proteome Analysis of Chloroplasts from the Moss Physcomitrella patens (Hedw.) B.S.G.

N. B. Polyakov1*, D. K. Slizhikova1, M. Yu. Izmalkova1, N. I. Cherepanova1, V. S. Kazakov1, M. A. Rogova2, N. A. Zhukova2, D. G. Alexeev1, N. A. Bazaleev2, A. Yu. Skripnikov1,3, and V. M. Govorun1,2

1Shemyakin and Ovchinnikov Institute of Bioorganic Chemistry, Russian Academy of Sciences, ul. Miklukho-Maklaya 16/10, 117997 Moscow, Russia; fax: (495) 336-0777; E-mail: polyakovnb@gmail.com

2Scientific Research Institute of Physicochemical Medicine, ul. Malaya Pirogovskaya 1a, 119435 Moscow, Russia; fax: (495) 246-4401; E-mail: govorun@hotmail.ru

3Biological Faculty, Lomonosov Moscow State University, 119991 Moscow, Russia; fax: (495) 939-1268; E-mail: a.skripnikov@gmail.com

* To whom correspondence should be addressed.

Received April 22, 2010; Revision received June 17, 2010
Intact chloroplasts were prepared from protoplasts of the moss Physcomitrella patens according to an especially developed method. They were additionally separated into stroma and thylakoid fractions. The proteomes of intact plastids, stroma, and thylakoids were analyzed by 1D-electrophoresis under denaturing conditions followed by protein digestion and nano-LC-ESI-MS/MS of tryptic peptides from gel bands. A total of 624 unique proteins were identified, 434 of which were annotated as chloroplast resident proteins. The majority of proteins belonged to a photosynthetic group (21.3%) and to the group of proteins implicated in protein degradation, posttranslational modification, folding, and import (20.6%). Among proteins assigned to chloroplasts, the following groups are prominent combining proteins implicated in metabolism of: amino acids (6.9%), nucleotides (2.5%), lipids (2.2%), carbohydrates (2.4%), hormones (1.5%), isoprenoids (1.25%), vitamins and cofactors (1%), sulfur (1.25%), and nitrogen (1%); as well as proteins involved in the pentose-phosphate cycle (1.75%), tetrapyrrole synthesis (3.7%), and redox processes (3.6%). The data can be used in physiological and photobiological studies as well as in further studies of P. patens chloroplast proteome including structural and functional specifics of plant protein localization in organelles.
KEY WORDS: proteome, chloroplast, Physcomitrella patens, photosynthesis, subcellular localization

DOI: 10.1134/S0006297910120084

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