Affordable Access

deepdyve-link
Publisher Website

Global Involvement of Lysine Crotonylation in Protein Modification and Transcription Regulation in Rice

Authors
  • Liu, Shuai
  • Xue, Chao
  • Fang, Yuan
  • Chen, Gang
  • Peng, Xiaojun
  • Zhou, Yong
  • Chen, Chen
  • Liu, Guanqing
  • Gu, Minghong
  • Wang, Kai
  • Zhang, Wenli
  • Wu, Yufeng
  • Gong, Zhiyun
Type
Published Article
Journal
Molecular & Cellular Proteomics
Publisher
American Society for Biochemistry and Molecular Biology
Publication Date
Jul 18, 2018
Volume
17
Issue
10
Pages
1922–1936
Identifiers
DOI: 10.1074/mcp.RA118.000640
PMID: 30021883
PMCID: PMC6166680
Source
PubMed Central
Keywords
License
Unknown

Abstract

Lysine crotonylation (Kcr) is a newly discovered posttranslational modification (PTM) existing in mammals. A global crotonylome analysis was undertaken in rice ( Oryza sativa L. japonica ) using high accuracy nano-LC-MS/MS in combination with crotonylated peptide enrichment. A total of 1,265 lysine crotonylation sites were identified on 690 proteins in rice seedlings. Subcellular localization analysis revealed that 51% of the crotonylated proteins identified were localized in chloroplasts. The photosynthesis-associated proteins were also mostly enriched in total crotonylated proteins. In addition, a genomic localization analysis of histone Kcr by ChIP-seq was performed to assess the relevance between histone Kcr and the genome. Of the 10,923 identified peak regions, the majority (86.7%) of the enriched peaks were located in gene body, especially exons. Furthermore, the degree of histone Kcr modification was positively correlated with gene expression in genic regions. Compared with other published histone modification data, the Kcr was co-located with the active histone modifications. Interestingly, histone Kcr-facilitated expression of genes with existing active histone modifications. In addition, 77% of histone Kcr modifications overlapped with DNase hypersensitive sites (DHSs) in intergenic regions of the rice genome and might mark other cis-regulatory DNA elements that are different from IPA1, a transcription activator in rice seedlings. Overall, our results provide a comprehensive understanding of the biological functions of the crotonylome and new active histone modification in transcriptional regulation in plants.

Report this publication

Statistics

Seen <100 times