PXD011627

PXD011627 is an original dataset announced via ProteomeXchange.

Title	Proteomics analysis of extracellular matrix remodeling during zebrafish heart regeneration
Description	Adult zebrafish, in contrast to mammals, are able to regenerate their hearts in response to injury or experimental amputation. Our understanding of the cellular and molecular bases that underlie this process, although fragmentary, has increased significantly over the last years. However, the role of the extracellular matrix (ECM) during zebrafish heartregeneration has been comparatively rarely explored. Here, we set out to characterize theECM protein composition inadult zebrafish hearts, and whether it changed during the regenerative response. For this purpose, we first established a decellularization protocol of adult zebrafish ventricles that significantly enriched the yield of ECM proteins. We then performed proteomic analyses of decellularized control hearts and at different times of regeneration. Our results show a dynamic change in ECM protein composition, most evident at the earliest (7 dayspost-amputation) time-point analyzed. Regeneration associated withsharp increases inspecific ECM proteins, and with an overall decrease in collagens and cytoskeletal proteins. We finally tested by atomic force microscopythat the changes in ECM composition translatedto decreased ECM stiffness. Our cumulative results identify changes in the protein composition and mechanical properties of the zebrafish heart ECM during regeneration.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:51:37.063.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Joan Josep Bech-Serra
SpeciesList	scientific name: Danio rerio (Zebrafish) (Brachydanio rerio); NCBI TaxID: 7955;
ModificationList	monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-11-08 03:35:37	ID requested
1	2019-08-22 03:54:17	announced
2	2019-08-26 07:55:42	announced	Updated publication reference for PubMed record(s): 31221719.
⏵ 3	2024-10-22 04:51:44	announced	2024-10-22: Updated project metadata.

10.1074/mcp.ra118.001193;

Garcia-Puig A, Mosquera JL, Jim, é, nez-Delgado S, Garc, í, a-Pastor C, Jorba I, Navajas D, Canals F, Raya A, Proteomics Analysis of Extracellular Matrix Remodeling During Zebrafish Heart Regeneration. Mol Cell Proteomics, 18(9):1745-1755(2019) [pubmed]

submitter keyword: proteomic analysis, heart regeneration,extracellular matrix

Angel Raya
contact affiliation	Center of Regenerative Medicine in Barcelona (CMRB) 3rd Floor Hospital Duran i Reynals Avinguda de la Gran Via, 199-203 08908 Hospitalet de Llobregat (Barcelona), Spain
contact email	araya@cmrb.eu
lab head
Joan Josep Bech-Serra
contact affiliation	Posdoctoral Investigator -Proteomics Unit Institut d'Investigació Biomèdica de Bellvitge (IDIBELL) Hospital Duran i Reynals Avinguda de la Granvia, 199 (3th Floor) 08908 L'Hospitalet de Llobregat Barcelona - Spain
contact email	jbech@idibell.cat
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/2019/08/PXD011627

PRIDE project URI

• PRIDE
  1. PXD011627
     1. Label: PRIDE project
     2. Name: Proteomics analysis of extracellular matrix remodeling during zebrafish heart regeneration