title: Construction of a chloroplast protein interaction network and functional mining of photosynthetic proteins in Arabidopsis thaliana.
abstract: Chloroplast is a typical plant cell organelle where photosynthesis takes place. In this study, a total of 1,808 chloroplast core proteins in Arabidopsis thaliana were reliably identified by combining the results of previously published studies and our own predictions. We then constructed a chloroplast protein interaction network primarily based on these core protein interactions. The network had 22,925 protein interaction pairs which involved 2,214 proteins. A total of 160 previously uncharacterized proteins were annotated in this network. The subunits of the photosynthetic complexes were modularized, and the functional relationships among photosystem I (PSI), photosystem II (PSII), light harvesting complex of photosystem I (LHC I) and light harvesting complex of photosystem I (LHC II) could be deduced from the predicted protein interactions in this network. We further confirmed an interaction between an unknown protein AT1G52220 and a photosynthetic subunit PSI-D2 by yeast two-hybrid analysis. Our chloroplast protein interaction network should be useful for functional mining of photosynthetic proteins and investigation of chloroplast-related functions at the systems biology level in Arabidopsis.
authors.affiliation: College of Life and Environmental Sciences, Shanghai Normal University, Shanghai 200234, China.
authors.forename: Qing-Bo
authors.initials: QB
authors.lastname: Yu
authors.forename: Guang
authors.initials: G
authors.lastname: Li
authors.forename: Guan
authors.initials: G
authors.lastname: Wang
authors.forename: Jing-Chun
authors.initials: JC
authors.lastname: Sun
authors.forename: Peng-Cheng
authors.initials: PC
authors.lastname: Wang
authors.forename: Chen
authors.initials: C
authors.lastname: Wang
authors.forename: Hua-Ling
authors.initials: HL
authors.lastname: Mi
authors.forename: Wei-Min
authors.initials: WM
authors.lastname: Ma
authors.forename: Jian
authors.initials: J
authors.lastname: Cui
authors.forename: Yong-Lan
authors.initials: YL
authors.lastname: Cui
authors.forename: Kang
authors.initials: K
authors.lastname: Chong
authors.forename: Yi-Xue
authors.initials: YX
authors.lastname: Li
authors.forename: Yu-Hua
authors.initials: YH
authors.lastname: Li
authors.forename: Zhongming
authors.initials: Z
authors.lastname: Zhao
authors.forename: Tie-Liu
authors.initials: TL
authors.lastname: Shi
authors.forename: Zhong-Nan
authors.initials: ZN
authors.lastname: Yang
mesh_terms: D017360:Arabidopsis / Q000235:genetics* / Q000378:metabolism; D029681:Arabidopsis Proteins / Q000235:genetics* / Q000378:metabolism; D002736:Chloroplasts / Q000235:genetics* / Q000378:metabolism; D049452:Green Fluorescent Proteins / Q000032:analysis / Q000096:biosynthesis; D010788:Photosynthesis; D045322:Photosynthetic Reaction Center Complex Proteins / Q000235:genetics* / Q000378:metabolism; D045331:Photosystem I Protein Complex / Q000235:genetics / Q000378:metabolism; D045332:Photosystem II Protein Complex / Q000235:genetics / Q000378:metabolism; D020798:Two-Hybrid System Techniques
chemical_list: D029681:Arabidopsis Proteins; D045322:Photosynthetic Reaction Center Complex Proteins; D045331:Photosystem I Protein Complex; D045332:Photosystem II Protein Complex; D049452:Green Fluorescent Proteins