PXD010310-4

PXD010310 is an original dataset announced via ProteomeXchange.

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. To address the high complexity and dynamic range of plant proteomes and phosphoproteomes, we present a universal sample preparation procedure that facilitates plant phosphoproteomic profiling. 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, thereby creating the largest tomato phosphoproteomic resource to date. 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 in response to a 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	2018-09-20
AnnouncementXML	Submission_2022-09-18_03:47:44.818.xml
DigitalObjectIdentifier
ReviewLevel	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
Instrument	LTQ Orbitrap Velos

Revision	Datetime	Status	ChangeLog Entry
0	2018-07-04 11:48:51	ID requested
1	2018-09-20 11:14:45	announced
2	2018-09-20 11:17:15	announced	Updated PubMed.
3	2021-02-04 16:35:47	announced	2021-02-04: Updated FTP location.
⏵ 4	2022-09-18 03:47:45	announced	2022-09-18: Updated FTP location.

Hsu CC, Zhu Y, Arrington JV, Paez JS, Wang P, Zhu P, Chen IH, Zhu JK, Tao WA, Universal Plant Phosphoproteomics Workflow and Its Application to Tomato Signaling in Response to Cold Stress. Mol Cell Proteomics, 17(10):2068-2080(2018) [pubmed]

submitter keyword: Phosphorylation

tomato phosphoproteome

mass spectrometry

cold stress

signal transduction

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

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/JPST000447/