PXD009130

PXD009130 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Universal plant phosphoproteomics workflow and its application to tomato signaling in response to cold stress
Description	Phosphorylation-mediated signaling transduction plays a crucial role in the regulation of plant defense mechanisms against environmental stresses. In order to address the high complexity and dynamic range of plant proteomes and phosphoproteomes, we present a universal sample preparation procedure to facilitate profiling plant phosphoproteomes. This advanced workflow significantly improves phosphopeptide identifications, enabling deep insight into plant phosphoproteomes. We then applied the workflow to study the phosphorylation events involved in tomato cold tolerance mechanisms. Phosphoproteomic changes of two tomato species (N135 Green Gage and Atacames) with distinct cold tolerance phenotypes were profiled under cold stress. In total, we identified more than 30,000 unique phosphopeptides from tomato leaves, representing about 5,500 phosphoproteins, as the largest tomato phosphoproteomic resource. The data, along with the validation through in vitro kinase reactions, allowed us to identify kinases involved in cold tolerant signaling and discover distinctive kinase-substrate events in two tomato species under cold environment. In particular, the activation of SnRK2s and their direct substrates may assist N135 Green Gage tomatoes in surviving long-term cold stress. Taken together, the streamlined approach and the resulting deep phosphoproteomic analyses revealed a global view of tomato cold-induced signaling mechanisms.
HostingRepository	jPOST
AnnounceDate	2019-03-08
AnnouncementXML	Submission_2022-09-18_03:55:22.273.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Chuan-Chih Hsu
SpeciesList	scientific name: Solanum lycopersicum; NCBI TaxID: 4081; scientific name: Solanum pimpinellifolium; NCBI TaxID: 4084;
ModificationList	S-carboxamidomethyl-L-cysteine; L-methionine sulfoxide; O-phospho-L-serine; O-phospho-L-threonine; O4'-phospho-L-tyrosine; alpha-amino acetylated residue; unknown modification; unknown modification; unknown modification
Instrument	LTQ Orbitrap Velos

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2018-03-07 10:07:33	ID requested
1	2019-03-07 07:00:06	announced
2	2021-02-04 16:38:27	announced	2021-02-04: Updated FTP location.
⏵ 3	2022-09-18 03:55:22	announced	2022-09-18: Updated FTP location.

Publication List

Dataset with its publication pending

Dataset with its publication pending

Keyword List

submitter keyword: Phosphorylation
tomato phosphoproteome
mass spectrometry
cold stress
signal transduction

submitter keyword: Phosphorylation

tomato phosphoproteome

mass spectrometry

cold stress

signal transduction

Contact List

Dr. W. Andy Tao
lab head
Chuan-Chih Hsu
contact affiliation	Purdue University
dataset submitter

Full Dataset Link List

jPOST dataset URI
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.jpostdb.org/JPST000399/

jPOST dataset URI

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.jpostdb.org/JPST000399/