PXD022789

PXD022789 is an original dataset announced via ProteomeXchange.

Title	Transcriptomic and proteomic landscape of SARS-CoV-2 liver tropism
Description	Extrapulmonary manifestations of COVID-19 have gained attention, not only due to their links to clinical outcomes, but also due to their potential long-term sequelae1. Recent evidence has shown multi-organ tropism of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), including heart, kidney and liver2. Previous studies have shown that close to 20% of hospitalized patients with COVID-19 develop liver injury, showing an association to disease severity3. Here, we identified a high frequency of liver enzyme alterations at admission in COVID-19 patients who required hospitalization. Then, we characterized SARS-CoV-2 liver tropism in autopsy samples, based on the expression of cell-entry facilitators in parenchymal cells, clinical polymerase chain reaction (PCR) positivity, subgenomic SARS-CoV-2 identification using RNA sequencing, and viral RNA detection by in situ hybridization. Next, we unraveled the transcriptomic and proteomic landscape of SARS-CoV-2 liver tropism, revealing significant increases in interferon alpha and gamma signaling and compensatory liver-specific metabolic regulation. While these results reflect changes in tissues from patients with severe SARS-CoV-2 infection, these profound molecular alterations raise questions about the potential long-term consequences of COVID-19 infection.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:51:55.509.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Pietro Scaturro
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; iodoacetamide derivatized residue
Instrument	timsTOF Pro

Revision	Datetime	Status	ChangeLog Entry
0	2020-11-27 06:11:38	ID requested
1	2022-04-02 08:15:38	announced
2	2022-04-06 09:11:14	announced	2022-04-06: Updated publication reference for PubMed record(s): 35347318. 2022-04-06: Updated publication reference for DOI(s): 10.1038/S42255-022-00552-6.
⏵ 3	2023-11-14 08:51:56	announced	2023-11-14: Updated project metadata.

Wanner N, Andrieux G, Badia-I-Mompel P, Edler C, Pfefferle S, Lindenmeyer MT, Schmidt-Lauber C, Czogalla J, Wong MN, Okabayashi Y, Braun F, L, ü, tgehetmann M, Meister E, Lu S, Noriega MLM, G, ü, nther T, Grundhoff A, Fischer N, Br, ä, uninger H, Lindner D, Westermann D, Haas F, Roedl K, Kluge S, Addo MM, Huber S, Lohse AW, Reiser J, Ondruschka B, Sperhake JP, Saez-Rodriguez J, Boerries M, Hayek SS, Aepfelbacher M, Scaturro P, Puelles VG, Huber TB, Molecular consequences of SARS-CoV-2 liver tropism. Nat Metab, 4(3):310-319(2022) [pubmed]

ProteomeXchange project tag: Sars-cov-2, Covid-19

submitter keyword: SARS-CoV-2,Liver tropism, hepatic

Pietro Scaturro
contact affiliation	Systems Arbovirology - Leibniz Institute for Experimental Virology
contact email	pietro.scaturro@leibniz-hpi.de
lab head
Pietro Scaturro
contact affiliation	Systems Arbovirology, Leibniz Institute of Virology
contact email	pietro.scaturro@tum.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/2022/04/PXD022789

PRIDE project URI

• PRIDE
  1. PXD022789
     1. Label: PRIDE project
     2. Name: Transcriptomic and proteomic landscape of SARS-CoV-2 liver tropism