PXD061812-1

PXD061812 is an original dataset announced via ProteomeXchange.

Title	Global landscape of protein phosphorylation during plant regeneration initiation in cotton (Gossypium hirsutum L.)
Description	Phosphorylation is one of the most common post-translational modifications and is central to many cellular signaling events; however, little is currently known about the phosphorylation landscape during somatic embryogenesis (SE) for plant regeneration. Here, we systematically analyzed the phosphoproteomic profile of three typical developmentally staged cultures of SE, non-embryogenic calli (NEC), primary embryogenic calli (PEC), and globular embryos (GE), in cotton (Gossypium hirsutum L.), the pioneer crop for genetic biotechnology applications. Our data revealed a total of 6301 quantifiable phosphorylation sites in 2627 quantifiable phosphoproteins from 5548 modified peptides, of which 1105 phosphoproteins (2147 sites) were differentially phosphorylated. Functional enrichment analyses revealed that differentially regulated phosphoproteins (DRPPs) were significantly enriched in DNA mismatch repair and peroxisome during callus embryogenic differentiation (PEC vs. NEC) and somatic embryo initiation (GE vs. PEC), respectively. Notably, six dynamic trajectory patterns of DRPP enrichment were observed. In addition, preferentially activated DRPPs with specific phosphorylation patterns were identified at different developmental stages. These DRPPs were mainly involved in hormone-responsive and photosystem events during initiation of plant regeneration. Overall, this study identified a series of potential phosphoproteins responsible for SE trans-differentiation and plant regeneration, providing a valuable resource and molecular basis for understanding the regulatory pathways underlying cell totipotency at the post-translational modification level.
HostingRepository	PRIDE
AnnounceDate	2025-03-18
AnnouncementXML	Submission_2025-03-17_21:25:31.043.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Huihui Guo
SpeciesList	scientific name: Gossypium hirsutum; NCBI TaxID: 3635;
ModificationList	phosphorylated residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2025-03-13 20:08:03	ID requested
⏵ 1	2025-03-17 21:25:31	announced

Dataset with its publication pending

submitter keyword: Cotton (Gossypium hirsutum L.)

Phosphoproteomics

Embryogenic differentiation

Plant regeneration initiation

Huihui Guo
contact affiliation	Shandong Agricultural University
contact email	hhguo@sdau.edu.cn
lab head
Huihui Guo
contact affiliation	Shandong Agricultural University
contact email	hhguo@sdau.edu.cn
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD061812
     1. Label: PRIDE project
     2. Name: Global landscape of protein phosphorylation during plant regeneration initiation in cotton (Gossypium hirsutum L.)