{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,3,29]],"date-time":"2026-03-29T10:10:04Z","timestamp":1774779004057,"version":"3.50.1"},"reference-count":0,"publisher":"Oxford University Press (OUP)","license":[{"start":{"date-parts":[[2025,10,10]],"date-time":"2025-10-10T00:00:00Z","timestamp":1760054400000},"content-version":"am","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/pages\/standard-publication-reuse-rights"}],"content-domain":{"domain":["www.atsjournals.org"],"crossmark-restriction":true},"short-container-title":[],"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:p>Lung injury caused by influenza is a leading cause of respiratory infection-related morbidity and mortality worldwide. In its severe form, influenza can cause acute respiratory distress syndrome (ARDS), which manifests as severe hypoxemic respiratory failure. Survivors of the acute stage of ARDS may develop lung fibrosis. The mechanisms underlying fibrotic responses in this context are unknown. In this study, we investigate fibroblast responses to influenza challenge using single cell gene expression (scGEX) and two-dimensional liquid chromatography coupled with tandem\/mass spectrometry (TMT-LC\/LC-MS\/MS) on lung tissue collected longitudinally in a murine model of influenza A virus (IAV) infection. By TMT-LC\/LC-MS\/MS, we identified profound changes in the composition of the lung matrisome, which were most evident 10 days after infection. In this context, we identified transcriptional heterogeneity amongst proximal\/adventitial fibroblasts expressing Pi16 and Col15a1 as well as a myofibroblast activation state characterized by expression of Tnc, Spp1, Grem1, and Cthrc1. This activation state was transcriptionally similar to those previously described in other contexts. Together, these data suggest compartmentalization and conservation of pulmonary fibroblast responses to lung injury of different primary etiologies.<\/jats:p>","DOI":"10.1165\/rcmb.2024-0405oc","type":"journal-article","created":{"date-parts":[[2025,10,10]],"date-time":"2025-10-10T21:25:22Z","timestamp":1760131522000},"update-policy":"https:\/\/doi.org\/10.1164\/crossmarkpolicies","source":"Crossref","is-referenced-by-count":1,"title":["Integrated Longitudinal Transcriptomic and Proteomic Analysis of the Murine Lung Response to Influenza A Virus"],"prefix":"10.1093","author":[{"given":"Tim","family":"Flerlage","sequence":"first","affiliation":[{"name":"University of Rochester Medical Center , Pediatrics, Rochester, New York, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"David F.","family":"Boyd","sequence":"additional","affiliation":[{"name":"University of California Santa Cruz , Molecular, Cell, and Developmental Biology, Santa Cruz, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Brandi","family":"Clark","sequence":"additional","affiliation":[{"name":"St Jude Children's Research Hospital , Immunology, Memphis, Tennessee, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Nikhil  G.","family":"Marudai","sequence":"additional","affiliation":[{"name":"University of California Santa Cruz , Molecular, Cell, and Developmental Biology, Santa Cruz, California, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Shally","family":"Saini","sequence":"additional","affiliation":[{"name":"University of California Santa Cruz , Molecular, Cell, and Developmental Biology, Santa Cruz, California, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Cliff","family":"Guy","sequence":"additional","affiliation":[{"name":"St Jude Children's Research Hospital , Immunology, Memphis, Tennessee, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Kristine","family":"Pobre-Piza","sequence":"additional","affiliation":[{"name":"St Jude Children's Research Hospital , Infectious Diseases , Memphis, Tennessee, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Jeremy Chase","family":"Crawford","sequence":"additional","affiliation":[{"name":"St. Jude Children's Research Hospital , Immunology, Memphis, Tennessee, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Suresh","family":"Poudel","sequence":"additional","affiliation":[{"name":"St Jude Children's Research Hospital , Immunology, Memphis, Tennessee, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Anthony A","family":"High","sequence":"additional","affiliation":[{"name":"St Jude Children's Research Hospital , Center for Proteomics and Metabolomics, Memphis, Tennessee, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Suiping","family":"Zhou","sequence":"additional","affiliation":[{"name":"St Jude Children's Research Hospital , Center for Proteomics and Metabolomics, Memphis, Tennessee, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xusheng","family":"Wang","sequence":"additional","affiliation":[{"name":"St Jude Children's Research Hospital , Center for Proteomics and Metabolomics, Memphis, Tennessee, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Sherri","family":"Surman","sequence":"additional","affiliation":[{"name":"St Jude Children's Research Hospital , Infectious Diseases, Memphis, Tennessee, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Bart","family":"Jones","sequence":"additional","affiliation":[{"name":"St Jude Children's Research Hospital , Infectious Diseases, Memphis, Tennessee, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Charles W.","family":"Frevert","sequence":"additional","affiliation":[{"name":"University of Washington at SLU , Comparative Medicine, Seattle, Washington, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Paul G","family":"Thomas","sequence":"additional","affiliation":[{"name":"St. Jude Children's Research Hospital , Immunology, Memphis, Tennessee, United States"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2025,10,10]]},"container-title":["American Journal of Respiratory Cell and Molecular Biology"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/ajrcmb\/advance-article-pdf\/doi\/10.1165\/rcmb.2024-0405OC\/66544721\/rcmb.2024-0405oc.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/ajrcmb\/advance-article-pdf\/doi\/10.1165\/rcmb.2024-0405OC\/66544721\/rcmb.2024-0405oc.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,1,23]],"date-time":"2026-01-23T09:08:54Z","timestamp":1769159334000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/ajrcmb\/advance-article\/doi\/10.1165\/rcmb.2024-0405OC\/8438660"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2025,10,10]]},"references-count":0,"URL":"https:\/\/doi.org\/10.1165\/rcmb.2024-0405oc","relation":{},"ISSN":["1535-4989"],"issn-type":[{"value":"1535-4989","type":"electronic"}],"subject":[],"published":{"date-parts":[[2025,10,10]]},"assertion":[{"value":"2024-08-22","order":0,"name":"received","label":"Received","group":{"name":"publication_history","label":"Publication 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