{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,10,13]],"date-time":"2026-10-13T22:00:45Z","timestamp":1791928845695,"version":"4.3.4"},"reference-count":51,"publisher":"Association for Research in Vision and Ophthalmology (ARVO)","issue":"3","license":[{"start":{"date-parts":[[2023,3,3]],"date-time":"2023-03-03T00:00:00Z","timestamp":1677801600000},"content-version":"unspecified","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0\/"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Invest. Ophthalmol. Vis. Sci."],"published-print":{"date-parts":[[2023,3,3]]},"DOI":"10.1167\/iovs.64.3.6","type":"journal-article","created":{"date-parts":[[2023,3,3]],"date-time":"2023-03-03T10:30:58Z","timestamp":1677839458000},"page":"6","source":"Crossref","is-referenced-by-count":28,"title":["Time-Course Transcriptomic Analysis Reveals the Crucial Roles of PANoptosis in Fungal Keratitis"],"prefix":"10.1167","volume":"64","author":[{"given":"Xizhan","family":"Xu","sequence":"first","affiliation":[{"name":"Beijing Institute of Ophthalmology, Beijing Tongren Eye Center, Beijing Tongren Hospital, Capital Medical University, Beijing, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yuan","family":"Wei","sequence":"additional","affiliation":[{"name":"Beijing Institute of Ophthalmology, Beijing Tongren Eye Center, Beijing Tongren Hospital, Capital Medical University, Beijing, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jinding","family":"Pang","sequence":"additional","affiliation":[{"name":"Beijing Institute of Ophthalmology, Beijing Tongren Eye Center, Beijing Tongren Hospital, Capital Medical University, Beijing, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhenyu","family":"Wei","sequence":"additional","affiliation":[{"name":"Beijing Institute of Ophthalmology, Beijing Tongren Eye Center, Beijing Tongren Hospital, Capital Medical University, Beijing, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Leying","family":"Wang","sequence":"additional","affiliation":[{"name":"Beijing Institute of Ophthalmology, Beijing Tongren Eye Center, Beijing Tongren Hospital, Capital Medical University, Beijing, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Qiankun","family":"Chen","sequence":"additional","affiliation":[{"name":"Beijing Institute of Ophthalmology, Beijing Tongren Eye Center, Beijing Tongren Hospital, Capital Medical University, Beijing, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zhiqun","family":"Wang","sequence":"additional","affiliation":[{"name":"Beijing Institute of Ophthalmology, Beijing Tongren Eye Center, Beijing Tongren Hospital, Capital Medical University, Beijing, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yang","family":"Zhang","sequence":"additional","affiliation":[{"name":"Beijing Institute of Ophthalmology, Beijing Tongren Eye Center, Beijing Tongren Hospital, Capital Medical University, Beijing, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Kexin","family":"Chen","sequence":"additional","affiliation":[{"name":"Beijing Institute of Ophthalmology, Beijing Tongren Eye Center, Beijing Tongren Hospital, Capital Medical University, Beijing, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yan","family":"Peng","sequence":"additional","affiliation":[{"name":"Beijing Institute of Ophthalmology, Beijing Tongren Eye Center, Beijing Tongren Hospital, Capital Medical University, Beijing, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zijun","family":"Zhang","sequence":"additional","affiliation":[{"name":"Beijing Institute of Ophthalmology, Beijing Tongren Eye Center, Beijing Tongren Hospital, Capital Medical University, Beijing, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jiamin","family":"Liu","sequence":"additional","affiliation":[{"name":"Beijing Institute of Ophthalmology, Beijing Tongren Eye Center, Beijing Tongren Hospital, Capital Medical University, Beijing, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Yuheng","family":"Zhang","sequence":"additional","affiliation":[{"name":"Beijing Institute of Ophthalmology, Beijing Tongren Eye Center, Beijing Tongren Hospital, Capital Medical University, Beijing, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Zi-Bing","family":"Jin","sequence":"additional","affiliation":[{"name":"Beijing Institute of Ophthalmology, Beijing Tongren Eye Center, Beijing Tongren Hospital, Capital Medical University, Beijing, China"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Qingfeng","family":"Liang","sequence":"additional","affiliation":[{"name":"Beijing Institute of Ophthalmology, Beijing Tongren Eye Center, Beijing Tongren Hospital, Capital Medical University, Beijing, China"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"27","reference":[{"key":"bib1","doi-asserted-by":"publisher","first-page":"e49","DOI":"10.1016\/S1473-3099(20)30448-5","article-title":"The global incidence and diagnosis of fungal keratitis","volume":"21","author":"Brown","year":"2021","journal-title":"Lancet Infect Dis"},{"key":"bib2","doi-asserted-by":"publisher","first-page":"1943","DOI":"10.1016\/j.ophtha.2006.05.035","article-title":"Spectrum of fungal keratitis in north China","volume":"113","author":"Xie","year":"2006","journal-title":"Ophthalmology"},{"key":"bib3","doi-asserted-by":"publisher","first-page":"195","DOI":"10.1016\/j.mib.2021.07.018","article-title":"Pathogenic Aspergillus and Fusarium as important causes of blinding corneal infections \u2013 the role of neutrophils in fungal killing, tissue damage and cytokine production","volume":"63","author":"Ratitong","year":"2021","journal-title":"Curr Opin Microbiol"},{"key":"bib4","doi-asserted-by":"publisher","first-page":"103802","DOI":"10.1016\/j.micpath.2019.103802","article-title":"Fungal keratitis: Pathogenesis, diagnosis and prevention","volume":"138","author":"Niu","year":"2020","journal-title":"Microb Pathog"},{"key":"bib5","doi-asserted-by":"publisher","first-page":"151","DOI":"10.1038\/nri.2016.147","article-title":"Programmed cell death as a defence against infection","volume":"17","author":"Jorgensen","year":"2017","journal-title":"Nat Rev Immunol"},{"key":"bib6","doi-asserted-by":"publisher","first-page":"316","DOI":"10.1038\/s41564-018-0298-0","article-title":"Fungal ligands released by innate immune effectors promote inflammasome activation during Aspergillus fumigatus infection","volume":"4","author":"Briard","year":"2019","journal-title":"Nat Microbiol"},{"key":"bib7","doi-asserted-by":"publisher","first-page":"660","DOI":"10.1038\/nature15514","article-title":"Cleavage of GSDMD by inflammatory caspases determines pyroptotic cell death","volume":"526","author":"Shi","year":"2015","journal-title":"Nature"},{"key":"bib8","doi-asserted-by":"publisher","first-page":"357","DOI":"10.1016\/j.chom.2015.01.006","article-title":"Concerted activation of the AIM2 and NLRP3 inflammasomes orchestrates host protection against Aspergillus infection","volume":"17","author":"Karki","year":"2015","journal-title":"Cell Host Microbe"},{"key":"bib9","doi-asserted-by":"publisher","first-page":"135","DOI":"10.1016\/j.mib.2016.06.002","article-title":"Alarmin(g) the innate immune system to invasive fungal infections","volume":"32","author":"Caffrey","year":"2016","journal-title":"Curr Opin Microbiol"},{"key":"bib10","doi-asserted-by":"publisher","first-page":"1352","DOI":"10.1016\/j.immuni.2019.05.020","article-title":"Caspases in cell death, inflammation, and disease","volume":"50","author":"Van Opdenbosch","year":"2019","journal-title":"Immunity"},{"key":"bib11","doi-asserted-by":"publisher","first-page":"1689","DOI":"10.1038\/s41467-019-09397-2","article-title":"Gasdermin pores permeabilize mitochondria to augment caspase-3 activation during apoptosis and inflammasome activation","volume":"10","author":"Rogers","year":"2019","journal-title":"Nat Commun"},{"key":"bib12","doi-asserted-by":"publisher","first-page":"127","DOI":"10.1038\/nrm.2016.149","article-title":"Necroptosis in development, inflammation and disease","volume":"18","author":"Weinlich","year":"2017","journal-title":"Nat Rev Mol Cell Biol"},{"key":"bib13","doi-asserted-by":"publisher","first-page":"aag2045","DOI":"10.1126\/sciimmunol.aag2045","article-title":"ZBP1\/DAI is an innate sensor of influenza virus triggering the NLRP3 inflammasome and programmed cell death pathways","volume":"1","author":"Kuriakose","year":"2016","journal-title":"Sci Immunol"},{"key":"bib14","doi-asserted-by":"publisher","first-page":"237","DOI":"10.3389\/fcimb.2020.00237","article-title":"Identification of the PANoptosome: A molecular platform triggering pyroptosis, apoptosis, and necroptosis (PANoptosis)","volume":"10","author":"Christgen","year":"2020","journal-title":"Front Cell Infect Microbiol"},{"key":"bib15","doi-asserted-by":"publisher","first-page":"210","DOI":"10.1167\/iovs.02-0446","article-title":"Experimental keratomycosis in a mouse model","volume":"44","author":"Wu","year":"2003","journal-title":"Invest Ophthalmol Vis Sci"},{"key":"bib16","doi-asserted-by":"publisher","first-page":"2114","DOI":"10.1093\/bioinformatics\/btu170","article-title":"Trimmomatic: A flexible trimmer for Illumina sequence data","volume":"30","author":"Bolger","year":"2014","journal-title":"Bioinformatics"},{"key":"bib17","doi-asserted-by":"publisher","first-page":"357","DOI":"10.1038\/nmeth.3317","article-title":"HISAT: A fast spliced aligner with low memory requirements","volume":"12","author":"Kim","year":"2015","journal-title":"Nat Methods"},{"key":"bib18","doi-asserted-by":"publisher","first-page":"166","DOI":"10.1093\/bioinformatics\/btu638","article-title":"HTSeq-a Python framework to work with high-throughput sequencing data","volume":"31","author":"Anders","year":"2015","journal-title":"Bioinformatics"},{"key":"bib19","doi-asserted-by":"publisher","first-page":"550","DOI":"10.1186\/s13059-014-0550-8","article-title":"Moderated estimation of fold change and dispersion for RNA-seq data with DESeq2","volume":"15","author":"Love","year":"2014","journal-title":"Genome Biol"},{"key":"bib20","doi-asserted-by":"publisher","first-page":"2938","DOI":"10.1093\/bioinformatics\/btx364","article-title":"UpSetR: An R package for the visualization of intersecting sets and their properties","volume":"33","author":"Conway","year":"2017","journal-title":"Bioinformatics"},{"key":"bib21","doi-asserted-by":"publisher","first-page":"721","DOI":"10.1016\/j.gpb.2019.09.007","article-title":"Antidiabetic effects of Gegen Qinlian Decoction via the gut microbiota are attributable to its key ingredient berberine","volume":"18","author":"Xu","year":"2020","journal-title":"Genomics Proteomics Bioinformatics"},{"key":"bib22","doi-asserted-by":"publisher","first-page":"785","DOI":"10.1093\/bioinformatics\/btab711","article-title":"ImmuCellAI-mouse: A tool for comprehensive prediction of mouse immune cell abundance and immune microenvironment depiction","volume":"38","author":"Miao","year":"2021","journal-title":"Bioinformatics"},{"key":"bib23","doi-asserted-by":"publisher","first-page":"108372","DOI":"10.1016\/j.exer.2020.108372","article-title":"The role of fungi in fungal keratitis","volume":"202","author":"Mills","year":"2021","journal-title":"Exp Eye Res"},{"key":"bib24","doi-asserted-by":"publisher","first-page":"97","DOI":"10.1016\/j.micpath.2016.12.013","article-title":"Pathogenesis of microbial keratitis","volume":"104","author":"Lakhundi","year":"2017","journal-title":"Microb Pathog"},{"key":"bib25","doi-asserted-by":"publisher","first-page":"193","DOI":"10.3389\/fcimb.2017.00193","article-title":"Persistence of innate immune pathways in late stage human bacterial and fungal keratitis: Results from a comparative transcriptome analysis","volume":"7","author":"Chidambaram","year":"2017","journal-title":"Front Cell Infect Microbiol"},{"key":"bib26","doi-asserted-by":"publisher","first-page":"32","DOI":"10.1167\/iovs.61.6.32","article-title":"Transcriptome analysis of the gene expression profiles associated with fungal keratitis in mice based on RNA-seq","volume":"61","author":"Zhang","year":"2020","journal-title":"Invest Ophthalmol Vis Sci"},{"key":"bib27","doi-asserted-by":"publisher","first-page":"133","DOI":"10.1080\/09273940490912362","article-title":"Role of innate and adaptive immunity in the pathogenesis of keratitis","volume":"13","author":"Hazlett","year":"2005","journal-title":"Ocul Immunol Inflamm"},{"key":"bib28","doi-asserted-by":"publisher","first-page":"2653","DOI":"10.1167\/iovs.08-3104","article-title":"Role of adaptive immunity in the pathogenesis of Candida albicans keratitis","volume":"50","author":"Zhang","year":"2009","journal-title":"Invest Ophthalmol Vis Sci"},{"key":"bib29","doi-asserted-by":"publisher","first-page":"57","DOI":"10.1016\/j.exer.2014.10.014","article-title":"Role of activated macrophages in experimental Fusarium solani keratitis","volume":"129","author":"Hu","year":"2014","journal-title":"Exp Eye Res"},{"key":"bib30","doi-asserted-by":"publisher","first-page":"1","DOI":"10.1146\/immunol.2011.29.issue-1","article-title":"Innate antifungal immunity: The key role of phagocytes","volume":"29","author":"Brown","year":"2011","journal-title":"Annu Rev Immunol"},{"key":"bib31","doi-asserted-by":"publisher","first-page":"817","DOI":"10.1038\/ni.2369","article-title":"C-type lectin receptors orchestrate antifungal immunity","volume":"13","author":"Hardison","year":"2012","journal-title":"Nat Immunol"},{"key":"bib32","doi-asserted-by":"publisher","first-page":"106649","DOI":"10.1016\/j.intimp.2020.106649","article-title":"Therapeutic effects of an anti-IL-6 antibody in fungal keratitis: Macrophage inhibition and T cell subset regulation","volume":"85","author":"Peng","year":"2020","journal-title":"Int Immunopharmacol"},{"key":"bib33","doi-asserted-by":"publisher","first-page":"421","DOI":"10.1146\/immunol.2008.26.issue-1","article-title":"Monocyte-mediated defense against microbial pathogens","volume":"26","author":"Serbina","year":"2008","journal-title":"Annu Rev Immunol"},{"key":"bib34","doi-asserted-by":"publisher","first-page":"942","DOI":"10.1093\/infdis\/jir426","article-title":"Expression of innate and adaptive immune mediators in human corneal tissue infected with Aspergillus or Fusarium","volume":"204","author":"Karthikeyan","year":"2011","journal-title":"J Infect Dis"},{"key":"bib35","doi-asserted-by":"publisher","first-page":"3","DOI":"10.1111\/imm.2018.154.issue-1","article-title":"Human dendritic cell subsets: An update","volume":"154","author":"Collin","year":"2018","journal-title":"Immunology"},{"key":"bib36","doi-asserted-by":"publisher","first-page":"37","DOI":"10.1016\/j.immuni.2018.12.027","article-title":"Plasmacytoid dendritic cells: Development, regulation, and function","volume":"50","author":"Reizis","year":"2019","journal-title":"Immunity"},{"key":"bib37","doi-asserted-by":"publisher","first-page":"108099","DOI":"10.1016\/j.celrep.2020.108099","article-title":"Characterization of resident corneal plasmacytoid dendritic cells and their pivotal role in herpes simplex keratitis","volume":"32","author":"Jamali","year":"2020","journal-title":"Cell Rep"},{"key":"bib38","doi-asserted-by":"publisher","first-page":"1652","DOI":"10.1016\/j.immuni.2021.07.015","article-title":"The unique biology of germinal center B cells","volume":"54","author":"Young","year":"2021","journal-title":"Immunity"},{"key":"bib39","doi-asserted-by":"publisher","first-page":"1625","DOI":"10.4049\/jimmunol.2200508","article-title":"PANoptosis: A unique innate immune inflammatory cell death modality","volume":"209","author":"Pandian","year":"2022","journal-title":"J Immunol"},{"key":"bib40","doi-asserted-by":"publisher","first-page":"e1009358","DOI":"10.1371\/journal.ppat.1009358","article-title":"Role of inflammasomes\/pyroptosis and PANoptosis during fungal infection","volume":"17","author":"Briard","year":"2021","journal-title":"PLoS Pathog"},{"key":"bib41","doi-asserted-by":"publisher","first-page":"42","DOI":"10.1016\/j.mib.2020.07.012","article-title":"PANoptosis in microbial infection","volume":"59","author":"Place","year":"2021","journal-title":"Curr Opin Microbiol"},{"key":"bib42","doi-asserted-by":"publisher","first-page":"415","DOI":"10.1038\/s41586-021-03875-8","article-title":"AIM2 forms a complex with pyrin and ZBP1 to drive PANoptosis and host defence","volume":"597","author":"Lee","year":"2021","journal-title":"Nature"},{"key":"bib43","doi-asserted-by":"publisher","first-page":"18276","DOI":"10.1074\/jbc.RA120.015924","article-title":"ZBP1 promotes fungi-induced inflammasome activation and pyroptosis, apoptosis, and necroptosis (PANoptosis)","volume":"295","author":"Banoth","year":"2020","journal-title":"J Biol Chem"},{"key":"bib44","doi-asserted-by":"publisher","first-page":"e20191644","DOI":"10.1084\/jem.20191644","article-title":"Innate immune priming in the absence of TAK1 drives RIPK1 kinase activity-independent pyroptosis, apoptosis, necroptosis, and inflammatory disease","volume":"217","author":"Malireddi","year":"2020","journal-title":"J Exp Med"},{"key":"bib45","doi-asserted-by":"publisher","first-page":"109858","DOI":"10.1016\/j.celrep.2021.109858","article-title":"ADAR1 restricts ZBP1-mediated immune response and PANoptosis to promote tumorigenesis","volume":"37","author":"Karki","year":"2021","journal-title":"Cell Rep"},{"key":"bib46","doi-asserted-by":"publisher","first-page":"1106","DOI":"10.1038\/s41423-020-00630-3","article-title":"Necroptosis, pyroptosis and apoptosis: An intricate game of cell death","volume":"18","author":"Bertheloot","year":"2021","journal-title":"Cell Mol Immunol"},{"key":"bib47","doi-asserted-by":"publisher","first-page":"245","DOI":"10.1016\/j.tibs.2016.10.004","article-title":"Pyroptosis: Gasdermin-mediated programmed necrotic cell death","volume":"42","author":"Shi","year":"2017","journal-title":"Trends Biochem Sci"},{"key":"bib48","doi-asserted-by":"publisher","first-page":"87","DOI":"10.1038\/nri3787","article-title":"Type I interferons in infectious disease","volume":"15","author":"McNab","year":"2015","journal-title":"Nat Rev Immunol"},{"key":"bib49","first-page":"199","article-title":"Mechanisms of type I interferon action and its role in infections and diseases transmission in mammals","volume":"64","author":"Niedzwiedzka-Rystwej","year":"2017","journal-title":"Acta Biochim Pol"},{"key":"bib50","doi-asserted-by":"publisher","first-page":"33","DOI":"10.1086\/jid.2006.194.issue-s1","article-title":"Interferon-gamma as an antifungal","volume":"194","author":"Stevens","year":"2006","journal-title":"J Infect Dis"},{"key":"bib51","doi-asserted-by":"publisher","first-page":"166","DOI":"10.1186\/1471-2334-14-166","article-title":"Interferon-gamma as adjunctive immunotherapy for invasive fungal infections: A case series","volume":"14","author":"Delsing","year":"2014","journal-title":"BMC Infect Dis"}],"container-title":["Investigative Opthalmology & Visual Science"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/iovs.arvojournals.org\/article.aspx?articleid=2785416","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,10,13]],"date-time":"2026-10-13T21:31:45Z","timestamp":1791927105000},"score":1,"resource":{"primary":{"URL":"https:\/\/iovs.arvojournals.org\/article.aspx?articleid=2785416"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2023,3,3]]},"references-count":51,"journal-issue":{"issue":"3","published-print":{"date-parts":[[2023,3,1]]}},"URL":"https:\/\/doi.org\/10.1167\/iovs.64.3.6","relation":{},"ISSN":["1552-5783"],"issn-type":[{"value":"1552-5783","type":"print"}],"subject":[],"published":{"date-parts":[[2023,3,3]]}}}