Characterization of Proteins Involved in Chloroplast Targeting Disturbed by Rice Stripe Virus by Novel Protoplast⁻Chloroplast Proteomics

• Published in: International journal of molecular sciences Vol. 20; no. 2; p. 253
• Main Authors: Zhao, Jinping, Xu, Jingjing, Chen, Binghua, Cui, Weijun, Zhou, Zhongjing, Song, Xijiao, Chen, Zhuo, Zheng, Hongying, Lin, Lin, Peng, Jiejun, Lu, Yuwen, Deng, Zhiping, Chen, Jianping, Yan, Fei
• Format: Journal Article
• Language: English
• Published: Switzerland MDPI AG 10.01.2019; MDPI
• Subjects: Barley; chloroplast proteomics; chloroplast targeting; Chloroplasts; Chloroplasts - metabolism; Chromatography, Liquid; Computational Biology - methods; Flowers & plants; Gene Ontology; Genes; Infections; Leaves; Localization; Mass spectrometry; Mesophyll; Metabolism; nuclear/nucleus-encoded chloroplast-related protein; Oryza - metabolism; Oryza - virology; Pathogens; Phenotype; Plant Diseases - virology; Plant Proteins - metabolism; Plant viruses; plant–virus interaction; Propagation; Proteins; Proteome; Proteomics; Proteomics - methods; Protoplasts; Protoplasts - metabolism; rice stripe virus; Scientific imaging; Tandem Mass Spectrometry; Tobacco; Viral infections; Viruses; plant–virus interaction; chloroplast proteomics; chloroplast targeting; nuclear/nucleus-encoded chloroplast-related protein; rice stripe virus
• ISSN: 1422-0067; 1661-6596; 1422-0067
• DOI: 10.3390/ijms20020253

Rice stripe virus (RSV) is one of the most devastating viral pathogens in rice and can also cause the general chlorosis symptom in plants. The chloroplast changes associated with chlorosis symptom suggest that RSV interrupts normal chloroplast functions. Although the change of proteins of the whole cell or inside the chloroplast in response to RSV infection have been revealed by proteomics, the mechanisms resulted in chloroplast-related symptoms and the crucial factors remain to be elucidated. RSV infection caused the malformation of chloroplast structure and a global reduction of chloroplast membrane protein complexes in plants. Here, both the protoplast proteome and the chloroplast proteome were acquired simultaneously upon RSV infection, and the proteins in each fraction were analyzed. In the protoplasts, 1128 proteins were identified, among which 494 proteins presented significant changes during RSV; meanwhile, 659 proteins were identified from the chloroplasts, and 279 of these chloroplast proteins presented significant change. According to the label-free LC⁻MS/MS data, 66 nucleus-encoded chloroplast-related proteins (ChRPs), which only reduced in chloroplast but not in the whole protoplast, were identified, indicating that these nuclear-encoded ChRPswere not transported to chloroplasts during RSV infection. Gene ontology (GO) enrichment analysis confirmed that RSV infection changed the biological process of protein targeting to chloroplast, where 3 crucial ChRPs (K4CSN4, K4CR23, and K4BXN9) were involved in the regulation of protein targeting into chloroplast. In addition to these 3 proteins, 41 among the 63 candidate proteins were characterized to have chloroplast transit peptides. These results indicated that RSV infection changed the biological process of protein targeting into chloroplast and the location of ChRPs through crucial protein factors, which illuminated a new layer of RSV⁻host interaction that might contribute to the symptom development.