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Characterization of Proteome Variation During Modern Maize Breeding *

Authors
  • Jiang, Lu-Guang
  • Li, Bo
  • Liu, Sheng-Xue
  • Wang, Hong-Wei
  • Li, Cui-Ping
  • Song, Shu-Hui
  • Beatty, Mary
  • Zastrow-Hayes, Gina
  • Yang, Xiao-Hong
  • Qin, Feng
  • He, Yan
Type
Published Article
Journal
Molecular & Cellular Proteomics
Publisher
American Society for Biochemistry and Molecular Biology
Publication Date
Nov 08, 2018
Volume
18
Issue
2
Pages
263–276
Identifiers
DOI: 10.1074/mcp.RA118.001021
PMID: 30409858
PMCID: PMC6356080
Source
PubMed Central
Keywords
License
Green

Abstract

The success of modern maize breeding has been demonstrated by remarkable increases in productivity with tremendous modification of agricultural phenotypes over the last century. Although the underlying genetic changes of the maize adaptation from tropical to temperate regions have been extensively studied, our knowledge is limited regarding the accordance of protein and mRNA expression levels accompanying such adaptation. Here we conducted an integrative analysis of proteomic and transcriptomic changes in a maize association panel. The minimum extent of correlation between protein and RNA levels suggests that variation in mRNA expression is often not indicative of protein expression at a population scale. This is corroborated by the observation that mRNA- and protein-based coexpression networks are relatively independent of each other, and many pQTLs arise without the presence of corresponding eQTLs. Importantly, compared with transcriptome, the subtypes categorized by the proteome show a markedly high accuracy to resemble the genomic subpopulation. These findings suggest that proteome evolved under a greater evolutionary constraint than transcriptome during maize adaptation from tropical to temperate regions. Overall, the integrated multi-omics analysis provides a functional context to interpret gene expression variation during modern maize breeding.

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