{"refrec":{"BRefID":362751,"RR":"<b>Meng, L.; Endo, H.; Blanc-Mathieu, R.; Chaffron, S.; Hernández-Velázquez, R.; Kaneko, H.; Ogata, H.</b> (2021). Quantitative assessment of nucleocytoplasmic large DNA virus and host interactions predicted by co-occurrence analyses. <i>mSphere 6(2)</i>: e01298-20. <a href=\"https://dx.doi.org/10.1128/mSphere.01298-20\" target=\"_blank\">https://dx.doi.org/10.1128/mSphere.01298-20</a>","BEntID":360469,"PublicFlag":1,"CheckedFlag":1,"wosflag":1,"vabbflag":0,"RefStringPartII":". <i>mSphere 6(2)</i>: e01298-20. <a href=\"https://dx.doi.org/10.1128/mSphere.01298-20\" target=\"_blank\">https://dx.doi.org/10.1128/mSphere.01298-20</a>","DocTypID":8,"DocType":"Journal article","MarineFlag":1,"FreshFlag":0,"BrackishFlag":0,"TerrestrialFlag":0,"Authorstring":"Meng, L.; Endo, H.; Blanc-Mathieu, R.; Chaffron, S.; Hernández-Velázquez, R.; Kaneko, H.; Ogata, H.","OrigTitleTranslFlag":0,"Authorstringtrunc":"Meng, L. <i>et al.</i>","Englishabstract":"Nucleocytoplasmic large DNA viruses (NCLDVs) are highly diverse and abundant in marine environments. However, the knowledge of their hosts is limited because only a few NCLDVs have been isolated so far. Taking advantage of the recent large-scale marine metagenomics census, in silico host prediction approaches are expected to fill the gap and further expand our knowledge of virus-host relationships for unknown NCLDVs. In this study, we built co-occurrence networks of NCLDVs and eukaryotic taxa to predict virus-host interactions using Tara Oceans sequencing data. Using the positive likelihood ratio to assess the performance of host prediction for NCLDVs, we benchmarked several co-occurrence approaches and demonstrated an increase in the odds ratio of predicting true positive relationships 4-fold compared to random host predictions. To further refine host predictions from high-dimensional co-occurrence networks, we developed a phylogeny-informed filtering method, Taxon Interaction Mapper, and showed it further improved the prediction performance by 12-fold. Finally, we inferred virophage-NCLDV networks to corroborate that co-occurrence approaches are effective for predicting interacting partners of NCLDVs in marine environments.","AbstractOtherLang":null,"BibLvlCode":"AS","StandardTitle":"Quantitative assessment of nucleocytoplasmic large DNA virus and host interactions predicted by co-occurrence analyses","OrigTitleLangCode":"en","OrigTitleLangCodeExtended":"eng","OrigTitleLangID":15,"DateLastModified":{"date":"2024-12-10 01:33:17.368041","timezone_type":1,"timezone":"+01:00"},"UserAccessRight":null,"UserAccID":null,"AuthorKeywords":"NCLDV; Tara Oceans; assessment; co-occurrence; host prediction","OtherDescriptors":null,"Notes":null,"AnaPub":2021,"MonPub":null,"DateUpdate":"2023-03-28","DateCreate":"2023-03-27","SecASFANote":null,"ConfID":null,"PeerRev":1,"VlizCoreFlag":1,"WoScode":"WOS:000663823400006","VABBcode":null,"OpenAcc":1,"DOI":"10.1128/mSphere.01298-20"},"refs":null,"anarec":{"AnaID":362751,"PubliDate":2021,"Pagination":"e01298-20","XtraPublOfAnaID":null,"ISBN":null,"Volume":"6","Issue":"2","BRefMon":null,"BRefMonRR":null,"BRefXtra":null,"BRefXtraRR":null,"SerBRefID":348872,"SerRR":"mSphere. 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