PXD017896

PXD017896 is an original dataset announced via ProteomeXchange.

Title	Zebrafish early embryos isolated nuclei and whole blastomeres LC-MSMS
Description	Nuclear pore complex (NPC) structure and maturity changed during early development before MBT in zebrafish embryos. Aiming to further confirm the difference of NPCs among different stages during MZT, we first isolated nuclei from 32-cell and 512-cell stage embryos as most zygotic genes have not been transcribed at these two stages yet. The lysates from identical number (about 12,500 nuclei per stage) isolated nuclei were then trypsin-digested and fractionated, followed by high-resolution LC-MS/MS analysis on the Q-Exactive HF-X mass spectrometers using a label-free assay. Whole blastomeres from 32-cell and 512-cell were also prepared with yolk removal to serve as total protein profile control, and the same amount lysates were analyzed by high-resolution LC-MS/MS with TMT labelled. Each sample for MS analysis had two repeats. Correlation analysis revealed that the abundance ratio from isolated Nuclei and whole deyolking balstomeres did not correlate well, but samples in Nuclei or Whole blastomeres were well correlated. This result indicates the convincible sample preparation as well as the variability in nuclei composition in early developmental period before MBT.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:01:46.682.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Weimin Shen
SpeciesList	scientific name: Danio rerio (Zebrafish) (Brachydanio rerio); NCBI TaxID: 7955;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2020-03-05 03:28:18	ID requested
1	2023-08-25 00:27:18	announced
2	2023-11-14 07:14:29	announced	2023-11-14: Updated project metadata.
⏵ 3	2024-10-22 06:01:47	announced	2024-10-22: Updated project metadata.

10.1016/J.CELL.2022.11.011;

submitter keyword: whole blastomeres, LC-MSMS, isolated nuclei,Zebrafish

Anming Meng
contact affiliation	School of life science, Tsinghua university, China
contact email	mengam@mail.tsinghua.edu.cn
lab head
Weimin Shen
contact affiliation	Tsinghua University
contact email	swm924@126.com
dataset submitter

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.pride.ebi.ac.uk/pride/data/archive/2023/08/PXD017896

PRIDE project URI

• PRIDE
  1. PXD017896
     1. Label: PRIDE project
     2. Name: Zebrafish early embryos isolated nuclei and whole blastomeres LC-MSMS