PXD027109-1

PXD027109 is an original dataset announced via ProteomeXchange.

Title	Single cell RNA-seq analysis links respiratory dysfunction to an extracellular matrix-specific damage response
Description	Energy metabolism and extracellular matrix function are closely connected to orchestrate and maintain tissue organization, but the crosstalk is poorly understood. Here, we used scRNA-seq analysis to uncover the importance of respiration for extracellular matrix homeostasis in mature cartilage. Genetic inhibition of respiration in cartilage results in the expansion of a central area of 1-month-old mouse femur head cartilage showing disorganized chondrocytes and increased deposition of extracellular matrix material. scRNA-seq analysis identified a cluster-specific decrease in mitochondrial DNA-encoded respiratory chain genes and a unique regulation of extracellular matrix-related genes in nonarticular chondrocyte clusters. These changes were associated with alterations in extracellular matrix composition, a shift in the collagen/non-collagen protein content and an increase of collagen crosslinking and ECM stiffness. The results demonstrate, based on findings of the scRNA-seq analysis, that respiration is a key factor contributing to ECM integrity and mechanostability in cartilage and presumably also in many other tissues.
HostingRepository	PRIDE
AnnounceDate	2022-02-17
AnnouncementXML	Submission_2022-02-17_05:00:19.996.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Janica Wiederstein
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive Plus

Revision	Datetime	Status	ChangeLog Entry
0	2021-07-05 08:55:40	ID requested
⏵ 1	2022-02-17 05:00:20	announced

Bubb K, Holzer T, Nolte JL, Kr, ü, ger M, Wilson R, Schl, ö, tzer-Schrehardt U, Brinckmann J, Altm, ü, ller J, Aszodi A, Fleischhauer L, Clausen-Schaumann H, Probst K, Brachvogel B, Mitochondrial respiratory chain function promotes extracellular matrix integrity in cartilage. J Biol Chem, 297(4):101224(2021) [pubmed]

submitter keyword: ECM, cartilage, respiration

Bent Brachvogel
contact affiliation	Department of Pediatrics and Adolescent Medicine, Experimental Neonatology, Medical Faculty, University of Cologne, Cologne, Germany and Center for Biochemistry, Medical Faculty, University of Cologne, Cologne, Germany
contact email	bent.brachvogel@uni-koeln.de
lab head
Janica Wiederstein
contact affiliation	Institute for Genetics/CECAD (AG Krüger)
contact email	jwieders@uni-koeln.de
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/2022/02/PXD027109

PRIDE project URI

• PRIDE
  1. PXD027109
     1. Label: PRIDE project
     2. Name: Single cell RNA-seq analysis links respiratory dysfunction to an extracellular matrix-specific damage response