{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,11,4]],"date-time":"2026-11-04T02:46:38Z","timestamp":1793760398198,"version":"4.6.1"},"reference-count":44,"publisher":"Elsevier BV","issue":"12","license":[{"start":{"date-parts":[[2022,12,1]],"date-time":"2022-12-01T00:00:00Z","timestamp":1669852800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2022,12,1]],"date-time":"2022-12-01T00:00:00Z","timestamp":1669852800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2022,10,29]],"date-time":"2022-10-29T00:00:00Z","timestamp":1667001600000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/501100000770","name":"University of Manchester","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100000770","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100004803","name":"California Department of Conservation","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100004803","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001537","name":"University of Auckland","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001537","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100008205","name":"Auckland University of Technology, New Zealand","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100008205","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100001554","name":"Massey University","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001554","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100008247","name":"University of Otago","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100008247","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100003524","name":"Ministry of Business, Innovation and Employment","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100003524","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/100009231","name":"Audrey and Theodor Geisel School of Medicine at Dartmouth","doi-asserted-by":"publisher","id":[{"id":"10.13039\/100009231","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100005247","name":"University of British Columbia","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100005247","id-type":"DOI","asserted-by":"publisher"}]},{"DOI":"10.13039\/501100000761","name":"Imperial College London","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100000761","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":["cell.com","elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["iScience"],"published-print":{"date-parts":[[2022,12]]},"DOI":"10.1016\/j.isci.2022.105470","type":"journal-article","created":{"date-parts":[[2022,11,1]],"date-time":"2022-11-01T22:02:22Z","timestamp":1667340142000},"page":"105470","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":22,"title":["A single fungal strain was the unexpected cause of a mass aspergillosis outbreak in the world\u2019s largest and only flightless parrot"],"prefix":"10.1016","volume":"25","author":[{"given":"David J.","family":"Winter","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Bevan S.","family":"Weir","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Travis","family":"Glare","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Johanna","family":"Rhodes","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"John","family":"Perrott","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Matthew C.","family":"Fisher","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jason E.","family":"Stajich","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Andrew","family":"Digby","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7790-9675","authenticated-orcid":false,"given":"Peter K.","family":"Dearden","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Murray P.","family":"Cox","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.isci.2022.105470_bib1","doi-asserted-by":"crossref","first-page":"593","DOI":"10.1093\/jhered\/esw065","article-title":"European colonization, not polynesianarrival, impacted population size and genetic diversity in the critically endangered New\u00a0Zealand k\u0101k\u0101p\u014d","volume":"107","author":"Bergner","year":"2016","journal-title":"J.\u00a0Hered."},{"key":"10.1016\/j.isci.2022.105470_bib2","doi-asserted-by":"crossref","first-page":"100002","DOI":"10.1016\/j.xgen.2021.100002","article-title":"Population genomics of the critically endangered k\u0101k\u0101p\u014d","author":"Dussex","year":"2021","journal-title":"Cell Genomics"},{"key":"10.1016\/j.isci.2022.105470_bib3","doi-asserted-by":"crossref","first-page":"220","DOI":"10.3390\/genes9040220","article-title":"Full mitogenomes in the critically endangered k\u0101k\u0101p\u014d reveal major post-glacial and anthropogenic effects on neutral genetic diversity","volume":"9","author":"Dussex","year":"2018","journal-title":"Genes"},{"key":"10.1016\/j.isci.2022.105470_bib4","doi-asserted-by":"crossref","first-page":"3","DOI":"10.63172\/605353vxtvye","article-title":"A parrot apart : the natural history of the kakapo (Strigops habroptilus), and the context of its conservation management","volume":"53","author":"Powlesland","year":"2006","journal-title":"Notornis"},{"key":"10.1016\/j.isci.2022.105470_bib5","series-title":"K\u0101k\u0101p\u014d: Rescued from\u00a0the Brink of Extinction","author":"Ballance","year":"2018"},{"key":"10.1016\/j.isci.2022.105470_bib6","doi-asserted-by":"crossref","first-page":"1","DOI":"10.63172\/592241dzpwro","article-title":"A celebration of kakapo: progress in the conservation of an enigmatic parrot","volume":"53","author":"Clout","year":"2006","journal-title":"Notornis"},{"key":"10.1016\/j.isci.2022.105470_bib7","doi-asserted-by":"crossref","first-page":"383","DOI":"10.1080\/03079450500268583","article-title":"Erysipelas in the critically endangered kakapo (Strigops habroptilus)","volume":"34","author":"Gartrell","year":"2005","journal-title":"Avian Pathol."},{"key":"10.1016\/j.isci.2022.105470_bib8","first-page":"304","article-title":"Veterinary care of kakapo","volume":"7","author":"Jakob-Hoff","year":"2011","journal-title":"Zoo Wild Anim. Med."},{"key":"10.1016\/j.isci.2022.105470_bib9","doi-asserted-by":"crossref","first-page":"167","DOI":"10.1080\/00480169.2014.960905","article-title":"Exudative cloacitis in the kakapo (Strigops habroptilus) potentially linked to Escherichia coli infection","volume":"63","author":"White","year":"2015","journal-title":"N.\u00a0Z. Vet. J."},{"key":"10.1016\/j.isci.2022.105470_bib10","first-page":"29","article-title":"Aflatoxicosis in a kakapo, Strygops habtroptilus","volume":"12","author":"Alley","year":"2005","journal-title":"Kokako"},{"key":"10.1016\/j.isci.2022.105470_bib11","first-page":"21","article-title":"Aspergillosis treatment in k\u0101k\u0101p\u014d (Strigops habroptilus) at Auckland Zoo, a nursing perspective","volume":"26","author":"Buchanan","year":"2020","journal-title":"N.\u00a0Z. Vet Nurse J."},{"key":"10.1016\/j.isci.2022.105470_bib12","doi-asserted-by":"crossref","first-page":"781","DOI":"10.1086\/513943","article-title":"Invasive aspergillosis","volume":"26","author":"Denning","year":"1998","journal-title":"Clin. Infect. Dis."},{"key":"10.1016\/j.isci.2022.105470_bib13","doi-asserted-by":"crossref","first-page":"310","DOI":"10.1128\/CMR.12.2.310","article-title":"Aspergillus fumigatus and aspergillosis","volume":"12","author":"Latg\u00e9","year":"1999","journal-title":"Clin. Microbiol. Rev."},{"key":"10.1016\/j.isci.2022.105470_bib14","doi-asserted-by":"crossref","first-page":"S71","DOI":"10.1080\/13693780400020089","article-title":"Aspergillosis in mammals and birds: impact on veterinary medicine","volume":"43","author":"Tell","year":"2005","journal-title":"Med. Mycol."},{"key":"10.1016\/j.isci.2022.105470_bib15","series-title":"Recent Developments in Fungal Diseases of Laboratory Animals Fungal Biology","first-page":"49","article-title":"Aspergillosis in birds and mammals: considerations for veterinary medicine","author":"Tell","year":"2019"},{"key":"10.1016\/j.isci.2022.105470_bib16","doi-asserted-by":"crossref","first-page":"325","DOI":"10.1080\/03079457.2010.506210","article-title":"Aspergillus infections in birds: a review","volume":"39","author":"Beernaert","year":"2010","journal-title":"Avian Pathol."},{"key":"10.1016\/j.isci.2022.105470_bib17","doi-asserted-by":"crossref","first-page":"481","DOI":"10.7589\/0090-3558-35.3.481","article-title":"Aspergillosis and other causesofmortalityin the stitchbird in New Zealand","volume":"35","author":"Cork","year":"1999","journal-title":"J.\u00a0Wildl. Dis."},{"key":"10.1016\/j.isci.2022.105470_bib18","doi-asserted-by":"crossref","first-page":"16","DOI":"10.1637\/10589-061013-Reg.1","article-title":"Isolation and identification of Aspergillus spp. from Brown kiwi (apteryx mantelli) nocturnal houses in New Zealand","volume":"58","author":"Glare","year":"2013","journal-title":"Avian Dis."},{"key":"10.1016\/j.isci.2022.105470_bib19","doi-asserted-by":"crossref","first-page":"290","DOI":"10.1007\/s10393-011-0716-8","article-title":"Aspergillus fumigatus densities in relation to forest succession and edge effects: implications for wildlife health in modified environments","volume":"8","author":"Perrott","year":"2011","journal-title":"EcoHealth"},{"key":"10.1016\/j.isci.2022.105470_bib20","doi-asserted-by":"crossref","DOI":"10.1128\/mBio.01941-17","article-title":"Phylogenetics of a fungal invasion: origins and widespread dispersal of white-nose syndrome","author":"Drees","year":"2017","journal-title":"mBio"},{"key":"10.1016\/j.isci.2022.105470_bib21","doi-asserted-by":"crossref","first-page":"621","DOI":"10.1126\/science.aar1965","article-title":"Recent Asian origin of chytrid fungi causing global amphibian declines","volume":"360","author":"O\u2019Hanlon","year":"2018","journal-title":"Science"},{"key":"10.1016\/j.isci.2022.105470_bib22","doi-asserted-by":"crossref","first-page":"277","DOI":"10.1111\/j.1474-919X.1984.tb00250.x","article-title":"Lek behaviour in a parrot: the kakapo Strigops habroptilus of New Zealand","volume":"126","author":"Merton","year":"2008","journal-title":"Ibis"},{"key":"10.1016\/j.isci.2022.105470_bib23","doi-asserted-by":"crossref","first-page":"663","DOI":"10.1038\/s41564-022-01091-2","article-title":"Population genomics confirms acquisition of drug-resistant Aspergillus fumigatus infection by humans from the environment","volume":"7","author":"Rhodes","year":"2022","journal-title":"Nat. Microbiol."},{"key":"10.1016\/j.isci.2022.105470_bib24","doi-asserted-by":"crossref","DOI":"10.1128\/mBio.01515-16","article-title":"Heterogeneity among isolates reveals that fitness in low oxygen correlates with Aspergillus fumigatus virulence","author":"Kowalski","year":"2016","journal-title":"mBio"},{"key":"10.1016\/j.isci.2022.105470_bib25","doi-asserted-by":"crossref","first-page":"186","DOI":"10.1099\/00222615-45-3-186","article-title":"Variation in virulence of Aspergillus fumigatus strains in a murine model of invasive pulmonary aspergillosis","volume":"45","author":"Mondon","year":"1996","journal-title":"J.\u00a0Med. Microbiol."},{"key":"10.1016\/j.isci.2022.105470_bib26","doi-asserted-by":"crossref","first-page":"331","DOI":"10.1016\/j.mib.2008.05.009","article-title":"Aspergillus fumigatus: virulence genes in a street-smart mold","volume":"11","author":"Askew","year":"2008","journal-title":"Curr.Opin.Microbiol."},{"key":"10.1016\/j.isci.2022.105470_bib27","doi-asserted-by":"crossref","first-page":"6402","DOI":"10.1021\/ja8095976","article-title":"Biosynthesis of steroidal antibiotic fusidanes: functional analysis of oxidosqualene cyclase and subsequent tailoring enzymes from Aspergillus fumigatus","volume":"131","author":"Mitsuguchi","year":"2009","journal-title":"J.\u00a0Am. Chem. Soc."},{"key":"10.1016\/j.isci.2022.105470_bib28","doi-asserted-by":"crossref","first-page":"jkac075","DOI":"10.1093\/g3journal\/jkac075","article-title":"Avian-associated Aspergillus fumigatus displays broad phylogenetic distribution, no evidence for host specificity, and multiple genotypes within epizootic events","volume":"12","author":"Lofgren","year":"2022","journal-title":"G3"},{"key":"10.1016\/j.isci.2022.105470_bib29","series-title":"Seminars in Avian and Exotic Pet Medicine","first-page":"52","article-title":"The diagnosis of aspergillosis in birds","author":"Jones","year":"2000"},{"key":"10.1016\/j.isci.2022.105470_bib30","doi-asserted-by":"crossref","first-page":"283","DOI":"10.1053\/j.jepm.2015.06.016","article-title":"Diagnostic procedures and available techniques for the diagnosis of aspergillosis in birds","volume":"24","author":"Fischer","year":"2015","journal-title":"J.\u00a0Exot. Pet Med."},{"key":"10.1016\/j.isci.2022.105470_bib31","first-page":"e00536","article-title":"Genomic context of azole resistance mutations in Aspergillus fumigatus determined using whole-genome sequencing","volume":"6","author":"Abdolrasouli","year":"2015","journal-title":"mBio"},{"key":"10.1016\/j.isci.2022.105470_bib32","doi-asserted-by":"crossref","first-page":"1151","DOI":"10.1038\/nature04332","article-title":"Genomic sequence of the pathogenic and allergenic filamentous fungus Aspergillus fumigatus","volume":"438","author":"Nierman","year":"2005","journal-title":"Nature"},{"key":"10.1016\/j.isci.2022.105470_bib33","article-title":"Aligning sequence reads, clone sequences and assembly contigs with BWA-MEM","author":"Li","year":"2013","journal-title":"ArXiv"},{"key":"10.1016\/j.isci.2022.105470_bib34","doi-asserted-by":"crossref","first-page":"1297","DOI":"10.1101\/gr.107524.110","article-title":"The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data","volume":"20","author":"McKenna","year":"2010","journal-title":"Genome Res."},{"key":"10.1016\/j.isci.2022.105470_bib35","doi-asserted-by":"crossref","first-page":"D996","DOI":"10.1093\/nar\/gkab1007","article-title":"Ensembl Genomes 2022: an expanding genome resource for non-vertebrates","volume":"50","author":"Yates","year":"2022","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.isci.2022.105470_bib36","doi-asserted-by":"crossref","first-page":"122","DOI":"10.1186\/s13059-016-0974-4","article-title":"The Ensembl variant effect predictor","volume":"17","author":"McLaren","year":"2016","journal-title":"Genome Biol."},{"key":"10.1016\/j.isci.2022.105470_bib37","doi-asserted-by":"crossref","first-page":"2156","DOI":"10.1093\/bioinformatics\/btr330","article-title":"The variant call format and VCFtools","volume":"27","author":"Danecek","year":"2011","journal-title":"Bioinformatics"},{"key":"10.1016\/j.isci.2022.105470_bib38","article-title":"R Core Team R: a language and environment for statistical computing","author":"Team","year":"2020","journal-title":"Found. Stat. Comput."},{"key":"10.1016\/j.isci.2022.105470_bib39","doi-asserted-by":"crossref","first-page":"44","DOI":"10.1111\/1755-0998.12549","article-title":"vcfr: a package to manipulate and visualize variant call format data in R","volume":"17","author":"Knaus","year":"2017","journal-title":"Mol. Ecol. Resour."},{"key":"10.1016\/j.isci.2022.105470_bib40","doi-asserted-by":"crossref","first-page":"1403","DOI":"10.1093\/bioinformatics\/btn129","article-title":"adegenet: a R package for the multivariate analysis of genetic markers","volume":"24","author":"Jombart","year":"2008","journal-title":"Bioinformatics"},{"key":"10.1016\/j.isci.2022.105470_bib41","doi-asserted-by":"crossref","first-page":"e281","DOI":"10.7717\/peerj.281","article-title":"Poppr: an R package for genetic analysis of populations with clonal, partially clonal, and\/or sexual reproduction","volume":"2","author":"Kamvar","year":"2014","journal-title":"PeerJ"},{"key":"10.1016\/j.isci.2022.105470_bib42","doi-asserted-by":"crossref","first-page":"455","DOI":"10.1089\/cmb.2012.0021","article-title":"SPAdes: a new genome assembly algorithm and its applications to single-cell sequencing","volume":"19","author":"Bankevich","year":"2012","journal-title":"J.\u00a0Comput. Biol."},{"key":"10.1016\/j.isci.2022.105470_bib43","doi-asserted-by":"crossref","first-page":"1072","DOI":"10.1093\/bioinformatics\/btt086","article-title":"QUAST: quality assessment tool for genome assemblies","volume":"29","author":"Gurevich","year":"2013","journal-title":"Bioinformatics"},{"key":"10.1016\/j.isci.2022.105470_bib44","doi-asserted-by":"crossref","first-page":"31","DOI":"10.1186\/1471-2105-6-31","article-title":"Automated generation of heuristics for biological sequence comparison","volume":"6","author":"Slater","year":"2005","journal-title":"BMC Bioinformatics"}],"container-title":["iScience"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S2589004222017424?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S2589004222017424?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2025,11,11]],"date-time":"2025-11-11T17:03:05Z","timestamp":1762880585000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S2589004222017424"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2022,12]]},"references-count":44,"journal-issue":{"issue":"12","published-print":{"date-parts":[[2022,12]]}},"alternative-id":["S2589004222017424"],"URL":"https:\/\/doi.org\/10.1016\/j.isci.2022.105470","relation":{},"ISSN":["2589-0042"],"issn-type":[{"value":"2589-0042","type":"print"}],"subject":[],"published":{"date-parts":[[2022,12]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"A single fungal strain was the unexpected cause of a mass aspergillosis outbreak in the world\u2019s largest and only flightless parrot","name":"articletitle","label":"Article Title"},{"value":"iScience","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.isci.2022.105470","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2022 The Author(s).","name":"copyright","label":"Copyright"}],"article-number":"105470"}}