PXD011132

PXD011132 is an original dataset announced via ProteomeXchange.

Title	Apple SWATH-MS - Apple is one of the most popular fruit crops world-wide and its skin color is an important quality consideration essential for commercial value
Description	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. 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 411 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, substanial downregulation of mitogen-activated protein kinase 4 (MAPK4) and mevalonate kinase (MVK) were detected. We also hypothesize that a post-transcriptional regulation of the skin color formation occurs in the mutant through the advanced SWATH-MS analysis. Overall, our work provide important information on the application of proteomic methods for analysing proteomes changes in Fuji apple and highlights a clade of regulatory proteins potentially contributed to the fruit skin color formation.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:15:01.972.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Chuan-Qi Zhong
SpeciesList	scientific name: Malus domestica; NCBI TaxID: 3750;
ModificationList	No PTMs are included in the dataset
Instrument	TripleTOF 5600

Revision	Datetime	Status	ChangeLog Entry
0	2018-09-18 06:18:08	ID requested
1	2019-06-18 09:03:36	announced
2	2020-03-12 03:46:07	announced	2020-03-12: Updated project metadata.
⏵ 3	2024-10-22 04:15:02	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

submitter keyword: Apple, SWATH-MS

Fuyuan Zhu
contact affiliation	Nanjing Forestry University
contact email	fyzhu@njfu.edu.cn
lab head
Chuan-Qi Zhong
contact affiliation	College of life Science
contact email	andyzcq@gmail.com
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2019/06/PXD011132

PRIDE project URI

• PRIDE
  1. PXD011132
     1. Label: PRIDE project
     2. Name: Apple SWATH-MS - Apple is one of the most popular fruit crops world-wide and its skin color is an important quality consideration essential for commercial value