PXD047626

PXD047626 is an original dataset announced via ProteomeXchange.

Title	ECM-Focused Proteomic Analysis of Ear Punch Regeneration in Acomys cahirinus
Description	In mammals, significant injury is generally followed by the formation of a fibrotic scar which provides structural integrity but fails to functionally restore damaged tissue. Spiny mice of the genus Acomys represent the first example of full skin autotomy in mammals. Acomys cahirinus has evolved extremely weak skin as a strategy to avoid predation and is able to repeatedly regenerate healthy tissue without scar after severe skin injury or full-thickness ear punches. Extracellular matrix (ECM) composition is a critical regulator of wound repair and scar formation and previous studies have suggested that alterations in its expression may be responsible for the differences in regenerative capacity observed between Mus musculus and A. cahirinus, yet analysis of this critical tissue component has been limited in previous studies by its insolubility and resistance to extraction. Here, we utilize a 2-step ECM-optimized extraction to perform proteomic analysis of tissue composition during wound repair after full-thickness ear punches in A. cahirinus and M. musculus from weeks 1 to 4 post-injury. We observe changes in a wide range of ECM proteins which have been previously implicated in wound regeneration and scar formation, including collagens, provisional matrix and coagulation proteins, and matricryptic signaling peptides. We additionally report differences in crosslinking enzyme activity and ECM protein solubility between Mus and Acomys. Furthermore, we observed rapid and sustained increases in CD206, a marker of pro-regenerative M2 macrophages, in Acomys, whereas little or no increase in CD206 was detected in Mus. Together, these findings contribute to a comprehensive understanding of tissue cues which drive the regenerative capacity of Acomys and identify a number of potential targets for future pro-regenerative therapies.
HostingRepository	PRIDE
AnnounceDate	2025-11-01
AnnouncementXML	Submission_2025-10-31_17:24:06.072.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Maxwell McCabe
SpeciesList	scientific name: Acomys cahirinus; NCBI TaxID: NEWT:10068; scientific name: Mus musculus (Mouse); NCBI TaxID: NEWT:10090;
ModificationList	2-pyrrolidone-5-carboxylic acid (Gln); acetylated residue; monohydroxylated residue; deamidated residue; iodoacetamide derivatized residue
Instrument	timsTOF Pro

Revision	Datetime	Status	ChangeLog Entry
0	2023-12-07 13:54:43	ID requested
⏵ 1	2025-10-31 17:24:07	announced

McCabe MC, Okamura DM, Erickson CB, Perry BW, Brewer CM, Nguyen ED, Saviola AJ, Majesky MW, Hansen KC, . J Proteome Res, 24(7):3202-3220(2025) [pubmed]

10.1021/acs.jproteome.4c00810;

submitter keyword: proteomics, regeneration, tandem mass spectrometry, wound healing, matrisome, scar-free, fibrosis, Acomys cahirinus, spiny mouse,extracellular matrix

Kirk Hansen
contact affiliation	Department of Biochemistry and Molecular Genetics, School of Medicine, University of Colorado, Aurora, CO, USA
contact email	kirk.hansen@cuanschutz.edu
lab head
Maxwell McCabe
contact affiliation	University of Colorado
contact email	maxwell.mccabe@cuanschutz.edu
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD047626
     1. Label: PRIDE project
     2. Name: ECM-Focused Proteomic Analysis of Ear Punch Regeneration in Acomys cahirinus