SWATH-MS-facilitated proteomic profiling of fruit skin between Fuji apple and a red skin bud sport mutant

Mo Xian Chen, Chao Sun, Kai Lu Zhang, Yu Chen Song, Yuan Tian, Xi Chen, Ying Gao Liu, Neng Hui Ye, Jianhua Zhang, Shenchun Qu*, Fu Yuan Zhu

*Corresponding author for this work

Research output: Contribution to journalJournal articlepeer-review

17 Citations (Scopus)


Background: Apple is one of the most popular fruit crops world-wide and its skin color is an important quality consideration essential for commercial value. However, the strategy on genetic breeding for red skin apple and the genetic basis of skin color differentiation is very limited and still largely unknown. Results: Here, we reported a bud sport mutant of Fuji apple with red skin color and enhanced anthocyanins accumulation. Quantitative SWATH-MS (sequential window acquisition of all theoretical spectra-mass spectrometry) proteomics investigations revealed proteome changes in the apple red skin bud mutation and a total of 451 differentially expressed proteins were identified in apple skin. The mutant showed significantly increased expression levels of photosynthesis-related proteins, stress-related proteins as well as anthocyanins biosynthesis pathway. On the other hand, substantial downregulation of mitogen-activated protein kinase 4 (MAPK4) and mevalonate kinase (MVK) were detected, indicating a promising role for the red skin color development in the mutant. Furthermore, we also hypothesize that a post-transcriptional regulation of the skin color formation occurs in the mutant through the advanced SWATH-MS analysis. Conclusion: Our work provides important information on the application of proteomic methods for analysing proteomes changes in Fuji apple and highlights a clade of regulatory proteins potentially contributing for the molecular breeding of fruit skin color.

Original languageEnglish
Article number445
JournalBMC Plant Biology
Issue number1
Publication statusPublished - 24 Oct 2019

Scopus Subject Areas

  • Plant Science

User-Defined Keywords

  • Bud sport
  • Post-transcriptional regulation
  • Skin color


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