PXD048765

PXD048765 is an original dataset announced via ProteomeXchange.

Title	The quantitative biotinylproteomics studies reveals WInd-Related Kinase (WIRK1) functioning as a wind signaling component in Wind-induced Thigmomorphpgenesis and Gravitropism
Description	Wind is one of the most prevalent environmental forces entraining plants to develop various mechano-responses, collectively called thigmomorphogenesis. Largely unknown is how plants transduce the complex wind force signals downstream to nuclear events and the development of thigmomorphogenic phenotype or anemotropic response. To identify molecular components of the wind drag force signaling, two force-regulated phosphoproteins, identified from our previous phosphoproteomic study of Arabidopsis touch response, mitogen-activated protein kinase kinase 1 (MKK1) and 2 (MKK2), were selected for performing in planta TurboID (ID)-based proximity-labeling (PL) proteomics. This quantitative biotinylproteomics was separately performed on MKK1-ID and MKK2-ID transgenic plants, respectively, using the TurboID overexpression transgenics as a universal control. This quantitative biotinylproteomic work successfully identified 11 and 71 MKK1- and MKK2 - associated proteins, respectively. A WInd-Related Kinase 1 (WIRK1), previously known as Rapidly Accelerated Fibrosarcoma 36 protein (RAF36), was eventually found to be a common interactor for both MKK1 and MKK2 kinases. Further molecular biology studies of the Arabidopsis RAF36 kinase found that it plays a role in wind regulation of the expression of touch-responsive TCH3 and CML38 genes and the phosphorylation of a touch-regulated PATL3 phosphoprotein. Measurement of leaf morphology and shoot gravitropic response of wirk1-1 mutant revealed that the WIRK1 gene is involved in both wind response and gravitropism of Arabidopsis, suggesting that WIRK1 protein may serve as the crosstalk point among multiple signal transduction pathways of both gravitropic and wind responses. It is likely that gravity force signaling may be an integral part of the wind mechano-signaling network in various parts of plant organs.
HostingRepository	PRIDE
AnnounceDate	2024-06-22
AnnouncementXML	Submission_2024-06-22_09:02:00.121.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD048765
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Nan Yang
SpeciesList	scientific name: Arabidopsis thaliana (Mouse-ear cress); NCBI TaxID: 3702;
ModificationList	biotinylated residue; phosphorylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2024-01-22 06:30:30	ID requested
⏵ 1	2024-06-22 09:02:01	announced

10.6019/PXD048765;

10.1016/j.mcpro.2024.100738;

Yang N, Ren J, Dai S, Wang K, Leung M, Lu Y, An Y, Burlingame A, Xu S, Wang Z, Yu W, Li N, The Quantitative Biotinylproteomics Studies Reveal a WInd-Related Kinase 1 (Raf-Like Kinase 36) Functioning as an Early Signaling Component in Wind-Induced Thigmomorphogenesis and Gravitropism. Mol Cell Proteomics, 23(3):100738(2024) [pubmed]

submitter keyword: In planta proximity-labeling (IP-PL), Biotin occupancy ratio (BOR), WInd-Related Kinase 1 (WIRK 1), Wind force signaling, Gravity force signaling, 4C Quantitative biotinylproteomics

Ning Li
contact affiliation	The Hong Kong University of Science and Technology
contact email	boningli@ust.hk
lab head
Nan Yang
contact affiliation	Hong Kong University of Science and Technology
contact email	nyangaf@connect.ust.hk
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD048765
     1. Label: PRIDE project
     2. Name: The quantitative biotinylproteomics studies reveals WInd-Related Kinase (WIRK1) functioning as a wind signaling component in Wind-induced Thigmomorphpgenesis and Gravitropism