PXD030754-1

PXD030754 is an original dataset announced via ProteomeXchange.

Title	Histidine Kinase Inhibitors Impair Shoot Regeneration in Arabidopsis thaliana via Cytokinin Signalling and SAM Patterning Determinants
Description	Reversible protein phosphorylation is a post-translational modification involved in virtually all plant processes, as it mediates protein activity and signal transduction. Here, we probe dynamic protein phosphorylation during de novo shoot organogenesis in Arabidopsis thaliana. We find that application of three kinase inhibitors in various time intervals has different effects on root explants. We furthermore show that short exposures to the putative His kinase inhibitor TCSA during the initial days on shoot induction medium (SIM) are detrimental for regeneration in seven natural accessions. Investigation of ahk and ahp mutants, as well as reporter lines for shoot markers and hormone responses suggests that TCSA at least partially works by impeding cytokinin signal transduction via AHK3, AHK4, AHP2, AHP3, and AHP5. A mass spectrometry-based phosphoproteome analysis further reveals profound deregulation of Ser/Thr/Tyr phosphoproteins related to protein modification, transcriptional regulation, vesicle trafficking, organ morphogenesis, and cation transport. Among TCSA-responsive factors are prior candidates with a role in shoot apical meristem patterning, such as AGO1, BAM1, PLL5, FIP37, TOP1ALPHA, and RBR1, but also proteins involved in polar auxin transport (e.g., PIN1) and brassinosteroid signalling (e.g., BIN2). Potentially novel regeneration determinants regulated by TCSA include RD2, AT1G52780, PVA11, and AVT1C, while NAIP2, OPS, ARR1, QKY, and aquaporins exhibit differential phospholevels on control SIM.
HostingRepository	PRIDE
AnnounceDate	2022-09-28
AnnouncementXML	Submission_2022-09-28_03:54:39.091.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Xiangyu Xu
SpeciesList	scientific name: Arabidopsis thaliana (Mouse-ear cress); NCBI TaxID: 3702;
ModificationList	phosphorylated residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2022-01-05 13:08:39	ID requested
⏵ 1	2022-09-28 03:54:39	announced
2	2023-11-14 08:54:11	announced	2023-11-14: Updated project metadata.

10.3389/FPLS.2022.894208;

submitter keyword: Phosphoproteomics, kinase inhibitors, cytokinin signalling, regeneration, organogenesis

Ive De Smet
contact affiliation	Ive De Smet - Group leader Functional Phosphoproteomics VIB-UGent Center for Plant Systems Biology Ghent University Technologiepark-Zwijnaarde 71 - 9052 Ghent - Belgium Tel. +32(0)9 331 39 30 www.psb.ugent.be
contact email	Ive.DeSmet@psb.ugent.be
lab head
Xiangyu Xu
contact affiliation	PSB-VIP
contact email	xiangyu.xu@psb.ugent.be
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD030754
     1. Label: PRIDE project
     2. Name: Histidine Kinase Inhibitors Impair Shoot Regeneration in Arabidopsis thaliana via Cytokinin Signalling and SAM Patterning Determinants