{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,7,2]],"date-time":"2026-07-02T09:43:14Z","timestamp":1782985394277,"version":"3.54.5"},"reference-count":26,"publisher":"Elsevier BV","license":[{"start":{"date-parts":[[2021,11,1]],"date-time":"2021-11-01T00:00:00Z","timestamp":1635724800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/tdm\/userlicense\/1.0\/"},{"start":{"date-parts":[[2021,11,1]],"date-time":"2021-11-01T00:00:00Z","timestamp":1635724800000},"content-version":"tdm","delay-in-days":0,"URL":"https:\/\/www.elsevier.com\/legal\/tdmrep-license"},{"start":{"date-parts":[[2021,6,24]],"date-time":"2021-06-24T00:00:00Z","timestamp":1624492800000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by-nc-nd\/4.0\/"}],"content-domain":{"domain":["elsevier.com","sciencedirect.com"],"crossmark-restriction":true},"short-container-title":["Science of The Total Environment"],"published-print":{"date-parts":[[2021,11]]},"DOI":"10.1016\/j.scitotenv.2021.148494","type":"journal-article","created":{"date-parts":[[2021,6,24]],"date-time":"2021-06-24T06:15:45Z","timestamp":1624515345000},"page":"148494","update-policy":"https:\/\/doi.org\/10.1016\/elsevier_cm_policy","source":"Crossref","is-referenced-by-count":0,"special_numbering":"C","title":["Explorative assessment of coronavirus-like short sequences from host-associated and environmental metagenomes"],"prefix":"10.1016","volume":"793","author":[{"given":"Maximilian","family":"Mora","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Wisnu Adi","family":"Wicaksono","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Dilfuza","family":"Egamberdieva","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Robert","family":"Krause","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Jose Luis","family":"Martinez","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Tomislav","family":"Cernava","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Gabriele","family":"Berg","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"78","reference":[{"key":"10.1016\/j.scitotenv.2021.148494_bb0005","doi-asserted-by":"crossref","first-page":"450","DOI":"10.1038\/s41591-020-0820-9","article-title":"The proximal origin of SARS-CoV-2","volume":"26","author":"Andersen","year":"2020","journal-title":"Nat. Med."},{"key":"10.1016\/j.scitotenv.2021.148494_bb0010","doi-asserted-by":"crossref","first-page":"2499","DOI":"10.1056\/NEJMoa1401505","article-title":"Evidence for camel-to-human transmission of MERS coronavirus","volume":"370","author":"Azhar","year":"2014","journal-title":"N. Engl. J. Med."},{"key":"10.1016\/j.scitotenv.2021.148494_bb0015","doi-asserted-by":"crossref","first-page":"421","DOI":"10.1186\/1471-2105-10-421","article-title":"BLAST+: architecture and applications","volume":"10","author":"Camacho","year":"2009","journal-title":"BMC Bioinformatics"},{"key":"10.1016\/j.scitotenv.2021.148494_bb0020","doi-asserted-by":"crossref","first-page":"3268","DOI":"10.1128\/JCM.00850-11","article-title":"Evaluation of high-throughput sequencing for identifying known and unknown viruses in biological samples","volume":"49","author":"Cheval","year":"2011","journal-title":"J. Clin. Microbiol."},{"key":"10.1016\/j.scitotenv.2021.148494_bb0025","series-title":"Wildlife and Emerging Zoonotic Diseases: The Biology, Circumstances and Consequences of Cross-Species Transmission","author":"Childs","year":"2007"},{"key":"10.1016\/j.scitotenv.2021.148494_bb0030","doi-asserted-by":"crossref","DOI":"10.2807\/1560-7917.ES.2020.25.3.2000045","article-title":"Detection of 2019 novel coronavirus (2019-nCoV) by real-time RT-PCR","volume":"25","author":"Corman","year":"2020","journal-title":"Eurosurveillance"},{"key":"10.1016\/j.scitotenv.2021.148494_bb0035","doi-asserted-by":"crossref","first-page":"536","DOI":"10.1038\/s41564-020-0695-z","article-title":"The species severe acute respiratory syndrome-related coronavirus: classifying 2019-nCoV and naming it SARS-CoV-2","volume":"5","author":"Coronaviridae Study Group of the International Committee on Taxonomy of Viruses","year":"2020","journal-title":"Nat. Microbiol."},{"key":"10.1016\/j.scitotenv.2021.148494_bb0040","doi-asserted-by":"crossref","first-page":"1084","DOI":"10.1016\/j.cell.2019.04.045","article-title":"Drowning in viruses","volume":"177","author":"Handley","year":"2019","journal-title":"Cell"},{"key":"10.1016\/j.scitotenv.2021.148494_bb0045","doi-asserted-by":"crossref","first-page":"433","DOI":"10.1002\/jmv.25682","article-title":"Cross-species transmission of the newly identified coronavirus 2019-nCoV","volume":"92","author":"Ji","year":"2020","journal-title":"J. Med. Virol."},{"key":"10.1016\/j.scitotenv.2021.148494_bb0050","doi-asserted-by":"crossref","DOI":"10.1016\/j.scitotenv.2021.146967","article-title":"Detection of SARS-CoV-2 RNA in the Danube River in Serbia associated with the discharge of untreated wastewaters","volume":"783","author":"Kolarevi\u0107","year":"2021","journal-title":"Sci. Total Environ."},{"key":"10.1016\/j.scitotenv.2021.148494_bb0055","doi-asserted-by":"crossref","first-page":"1674","DOI":"10.1093\/bioinformatics\/btv033","article-title":"MEGAHIT: an ultra-fast single-node solution for large and complex metagenomics assembly via succinct de Bruijn graph","volume":"31","author":"Li","year":"2015","journal-title":"Bioinformatics"},{"key":"10.1016\/j.scitotenv.2021.148494_bb0060","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1038\/ncomms11257","article-title":"Fast and sensitive taxonomic classification for metagenomics with Kaiju","volume":"7","author":"Menzel","year":"2016","journal-title":"Nat. Commun."},{"key":"10.1016\/j.scitotenv.2021.148494_bb0070","doi-asserted-by":"crossref","first-page":"1","DOI":"10.1038\/s41598-020-69869-0","article-title":"Setting a baseline for global urban virome surveillance in sewage","volume":"10","author":"Nieuwenhuijse","year":"2020","journal-title":"Sci. Rep."},{"key":"10.1016\/j.scitotenv.2021.148494_bb0075","doi-asserted-by":"crossref","first-page":"1539","DOI":"10.3390\/microorganisms8101539","article-title":"Comparison of nucleic acid extraction methods for a viral metagenomics analysis of respiratory viruses","volume":"8","author":"Sabatier","year":"2020","journal-title":"Microorganisms"},{"key":"10.1016\/j.scitotenv.2021.148494_bb0080","doi-asserted-by":"crossref","first-page":"D9","DOI":"10.1093\/nar\/gkz899","article-title":"Database resources of the national center for biotechnology information","volume":"48","author":"Sayers","year":"2020","journal-title":"Nucleic Acids Res."},{"key":"10.1016\/j.scitotenv.2021.148494_bb0085","doi-asserted-by":"crossref","first-page":"1167","DOI":"10.1016\/S2213-2600(20)30453-7","article-title":"False-positive COVID-19 results: hidden problems and costs","volume":"8","author":"Surkova","year":"2020","journal-title":"Lancet Resp Med"},{"key":"10.1016\/j.scitotenv.2021.148494_bb0090","doi-asserted-by":"crossref","first-page":"12","DOI":"10.1186\/s40168-019-0626-5","article-title":"Choice of assembly software has a critical impact on virome characterisation","volume":"7","author":"Sutton","year":"2019","journal-title":"Microbiome"},{"key":"10.1016\/j.scitotenv.2021.148494_bb0095","doi-asserted-by":"crossref","first-page":"178","DOI":"10.1093\/bib\/bbs017","article-title":"Integrative genomics viewer (IGV): high-performance genomics data visualization and exploration","volume":"14","author":"Thorvaldsd\u00f3ttir","year":"2013","journal-title":"Brief. Bioinform."},{"key":"10.1016\/j.scitotenv.2021.148494_bb0100","doi-asserted-by":"crossref","first-page":"8","DOI":"10.1016\/j.coesh.2020.05.003","article-title":"Novel wastewater surveillance strategy for early detection of COVID\u201319 hotspots","volume":"17","author":"Venugopal","year":"2020","journal-title":"Curr. Opin. Environ. Sci. Health."},{"key":"10.1016\/j.scitotenv.2021.148494_bb0105","doi-asserted-by":"crossref","first-page":"1299","DOI":"10.1038\/s41564-020-0761-6","article-title":"Analytical sensitivity and efficiency comparisons of SARS-CoV-2 RT\u2013qPCR primer\u2013probe sets","volume":"5","author":"Vogels","year":"2020","journal-title":"Nat. Microbiol."},{"key":"10.1016\/j.scitotenv.2021.148494_bb0110","doi-asserted-by":"crossref","first-page":"257","DOI":"10.1186\/s13059-019-1891-0","article-title":"Improved metagenomic analysis with kraken 2","volume":"20","author":"Wood","year":"2019","journal-title":"Genome Biol."},{"key":"10.1016\/j.scitotenv.2021.148494_bb0115","series-title":"Molecular Assays to Diagnose COVID-19: Summary Table of Available Protocols","author":"World Health Organization","year":"2020"},{"key":"10.1016\/j.scitotenv.2021.148494_bb0120","doi-asserted-by":"crossref","DOI":"10.1371\/journal.pone.0027735","article-title":"Sequence analysis of the human virome in febrile and afebrile children","volume":"7","author":"Wylie","year":"2012","journal-title":"PLoS One"},{"key":"10.1016\/j.scitotenv.2021.148494_bb0125","doi-asserted-by":"crossref","first-page":"1346","DOI":"10.1016\/j.cub.2020.03.022","article-title":"Probable pangolin origin of SARS-CoV-2 associated with the COVID-19 outbreak","volume":"30","author":"Zhang","year":"2020","journal-title":"Curr. Biol."},{"key":"10.1016\/j.scitotenv.2021.148494_bb0130","first-page":"1","article-title":"Longitudinal dynamics of gut bacteriome, mycobiome and virome after fecal microbiota transplantation in graft-versus-host disease","volume":"12","author":"Zhang","year":"2021","journal-title":"Nat. Commun."},{"key":"10.1016\/j.scitotenv.2021.148494_bb0135","doi-asserted-by":"crossref","first-page":"270","DOI":"10.1038\/s41586-020-2012-7","article-title":"A pneumonia outbreak associated with a new coronavirus of probable bat origin","volume":"579","author":"Zhou","year":"2020","journal-title":"Nature"}],"container-title":["Science of The Total Environment"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S004896972103566X?httpAccept=text\/xml","content-type":"text\/xml","content-version":"vor","intended-application":"text-mining"},{"URL":"https:\/\/api.elsevier.com\/content\/article\/PII:S004896972103566X?httpAccept=text\/plain","content-type":"text\/plain","content-version":"vor","intended-application":"text-mining"}],"deposited":{"date-parts":[[2026,7,2]],"date-time":"2026-07-02T08:44:45Z","timestamp":1782981885000},"score":1,"resource":{"primary":{"URL":"https:\/\/linkinghub.elsevier.com\/retrieve\/pii\/S004896972103566X"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2021,11]]},"references-count":26,"alternative-id":["S004896972103566X"],"URL":"https:\/\/doi.org\/10.1016\/j.scitotenv.2021.148494","relation":{"has-preprint":[{"id-type":"doi","id":"10.21203\/rs.3.rs-44155\/v1","asserted-by":"object"}]},"ISSN":["0048-9697"],"issn-type":[{"value":"0048-9697","type":"print"}],"subject":[],"published":{"date-parts":[[2021,11]]},"assertion":[{"value":"Elsevier","name":"publisher","label":"This article is maintained by"},{"value":"Explorative assessment of coronavirus-like short sequences from host-associated and environmental metagenomes","name":"articletitle","label":"Article Title"},{"value":"Science of The Total Environment","name":"journaltitle","label":"Journal Title"},{"value":"https:\/\/doi.org\/10.1016\/j.scitotenv.2021.148494","name":"articlelink","label":"CrossRef DOI link to publisher maintained version"},{"value":"article","name":"content_type","label":"Content Type"},{"value":"\u00a9 2021 The Authors. Published by Elsevier B.V.","name":"copyright","label":"Copyright"}],"article-number":"148494"}}