PXD065934

PXD065934 is an original dataset announced via ProteomeXchange.

Title	The Deubiquitinase SlOTU9 Positively Regulates Tomato Fruit Softening by Modulating the Abundance of Cell Wall-Modifying Enzymes
Description	Fruit softening is a critical aspect of ripening that determines shelf life and quality but is mechanistically complex. While transcriptional regulation of cell wall-modifying enzymes (CWMEs) is well-studied, post-translational control remains poorly understood. Here, we identify and characterize SlOTU9, a tomato (Solanum lycopersicum) Ovarian Tumor (OTU) domain-containing deubiquitinase (DUB), as a key positive regulator of fruit softening. SlOTU9 gene expression is significantly upregulated during fruit ripening. Overexpression of SlOTU9 in tomato resulted in accelerated fruit softening and reduced shelf life, whereas its knockout via CRISPR-Cas9 led to firmer fruit. Quantitative proteomic analysis revealed that SlOTU9 overexpression significantly increased the abundance of several key CWMEs at the breaker+7 stage, including multiple pectate lyases (PLs), without a corresponding increase in their transcript levels. We further demonstrate that SlOTU9 physically interacts with a pectate lyase (SlPL16) and that both proteins co-localize at the cell wall and plasma membrane. Our findings reveal a novel post-translational regulatory layer where SlOTU9 enhances the protein abundance of CWMEs to promote cell wall disassembly. This work identifies SlOTU9 as a potential target for molecular breeding strategies aimed at precisely controlling fruit texture and improving postharvest longevity.
HostingRepository	iProX
AnnounceDate	2025-07-09
AnnouncementXML	Submission_2026-07-01_01:07:05.780.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Zhiping Deng
SpeciesList	scientific name: Solanum lycopersicum; NCBI TaxID: 4081;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2025-07-09 01:00:55	ID requested
⏵ 1	2026-07-01 01:07:06	announced

Dataset with its publication pending

submitter keyword: tomato, fruit ripening, Deubiquitinase, SlOTU9, pectate lyase, Cell Wall-Modifying Enzymes

Zhiping Deng
contact affiliation	Zhejiang Academy of Agricultural Sciences
contact email	zhipingdeng@126.com
lab head
Zhiping Deng
contact affiliation	Zhejiang Academy of Agricultural Sciences
contact email	zhipingdeng@126.com
dataset submitter

iProX dataset URI