{"refrec":{"BRefID":328088,"RR":"<b>Kitchen, S.A.; Von Kuster, G.; Kuntz, K.L.V.; Reich, H.G.; Miller, W.; Griffin, S.; Fogarty, N.D.; Baums, I.B.</b> (2020). STAGdb: a 30K SNP genotyping array and Science Gateway for <i>Acropora</i> corals and their dinoflagellate symbionts. <i>NPG Scientific Reports 10(1)</i>: 17 pp. <a href=\"https://dx.doi.org/10.1038/s41598-020-69101-z\" target=\"_blank\">https://dx.doi.org/10.1038/s41598-020-69101-z</a>","BEntID":321565,"PublicFlag":1,"CheckedFlag":0,"wosflag":1,"vabbflag":1,"RefStringPartII":". <i>NPG Scientific Reports 10(1)</i>: 17 pp. <a href=\"https://dx.doi.org/10.1038/s41598-020-69101-z\" target=\"_blank\">https://dx.doi.org/10.1038/s41598-020-69101-z</a>","DocTypID":8,"DocType":"Journal article","MarineFlag":0,"FreshFlag":0,"BrackishFlag":0,"TerrestrialFlag":0,"Authorstring":"Kitchen, S.A.; Von Kuster, G.; Kuntz, K.L.V.; Reich, H.G.; Miller, W.; Griffin, S.; Fogarty, N.D.; Baums, I.B.","OrigTitleTranslFlag":0,"Authorstringtrunc":"Kitchen, S.A. <i>et al.</i>","Englishabstract":"Standardized identification of genotypes is necessary in animals that reproduce asexually and form large clonal populations such as coral. We developed a high-resolution hybridization-based genotype array coupled with an analysis workflow and database for the most speciose genus of coral, <i>Acropora</i>, and their symbionts. We designed the array to co-analyze host and symbionts based on bi-allelic single nucleotide polymorphisms (SNP) markers identified from genomic data of the two Caribbean <i>Acropora</i> species as well as their dominant dinoflagellate symbiont, <i>Symbiodinium ‘fitti’.</i> SNPs were selected to resolve multi-locus genotypes of host (called genets) and symbionts (called strains), distinguish host populations and determine ancestry of coral hybrids between Caribbean acroporids. Pacific acroporids can also be genotyped using a subset of the SNP loci and additional markers enable the detection of symbionts belonging to the genera <i>Breviolum, Cladocopium</i>, and <i>Durusdinium</i>. Analytic tools to produce multi-locus genotypes of hosts based on these SNP markers were combined in a workflow called the <u>S</u>tandard <u>T</u>ools for <u>A</u>croporid <u>G</u>enotyping (STAG). The STAG workflow and database are contained within a customized Galaxy environment (<a href=\"https://coralsnp.science.psu.edu/galaxy/\">https://coralsnp.science.psu.edu/galaxy/</a>), which allows for consistent identification of host genet and symbiont strains and serves as a template for the development of arrays for additional coral genera. STAG data can be used to track temporal and spatial changes of sampled genets necessary for restoration planning and can be applied to downstream genomic analyses. Using STAG, we uncover bi-directional hybridization between and population structure within Caribbean acroporids and detect a cryptic Acroporid species in the Pacific.","AbstractOtherLang":null,"BibLvlCode":"AS","StandardTitle":"STAGdb: a 30K SNP genotyping array and Science Gateway for <i>Acropora</i> corals and their dinoflagellate symbionts","OrigTitleLangCode":"en","OrigTitleLangCodeExtended":"eng","OrigTitleLangID":15,"DateLastModified":{"date":"2026-06-13 01:31:44.433781","timezone_type":1,"timezone":"+02:00"},"UserAccessRight":null,"UserAccID":null,"AuthorKeywords":null,"OtherDescriptors":null,"Notes":null,"AnaPub":2020,"MonPub":null,"DateUpdate":"2020-08-18","DateCreate":"2020-08-18","SecASFANote":null,"ConfID":null,"PeerRev":1,"VlizCoreFlag":1,"WoScode":"WOS:000556872700021","VABBcode":null,"OpenAcc":1,"DOI":"10.1038/s41598-020-69101-z"},"refs":null,"anarec":{"AnaID":328088,"PubliDate":2020,"Pagination":"17 pp","XtraPublOfAnaID":null,"ISBN":null,"Volume":"10","Issue":"1","BRefMon":null,"BRefMonRR":null,"BRefXtra":null,"BRefXtraRR":null,"SerBRefID":208093,"SerRR":"Scientific Reports (Nature Publishing Group). Nature Publishing Group: London.  ISSN 2045-2322; e-ISSN 2045-2322","StandardTitleSer":"Scientific Reports (Nature Publishing Group)","ISSN":"2045-2322","AbbrevSer":"NPG Scientific Reports","StandardTitleMon":null,"StartPage":null,"Pages":null,"ToPubliDate":null,"BRefBibLvlCode":"S","SerNotes":null},"monrec":null,"serrec":null,"relations":null,"relationsRev":null,"addrec":null,"othpubs":null,"ownerships":null,"authors":[{"AutName":"Kitchen","Firstname":null,"Initials":"S.A.","Affiliation":null,"Discriminator":null,"CorporateFlag":0,"BEntID":321565,"AutID":422081,"OrderNr":1,"DegrID":null,"EditorFlag":0,"CorrespFlag":0,"IllustratorFlag":0,"ReviserFlag":0,"TranslatorFlag":0,"InsAcronym":null,"InsFSN":null,"ORCID":null,"PersID":null,"InsID":null},{"AutName":"Von Kuster","Firstname":null,"Initials":"G.","Affiliation":null,"Discriminator":null,"CorporateFlag":0,"BEntID":321565,"AutID":422082,"OrderNr":2,"DegrID":null,"EditorFlag":0,"CorrespFlag":0,"IllustratorFlag":0,"ReviserFlag":0,"TranslatorFlag":0,"InsAcronym":null,"InsFSN":null,"ORCID":null,"PersID":null,"InsID":null},{"AutName":"Kuntz","Firstname":"Vasquez","Initials":"K.L.V.","Affiliation":null,"Discriminator":null,"CorporateFlag":0,"BEntID":321565,"AutID":422083,"OrderNr":3,"DegrID":null,"EditorFlag":0,"CorrespFlag":0,"IllustratorFlag":0,"ReviserFlag":0,"TranslatorFlag":0,"InsAcronym":null,"InsFSN":null,"ORCID":null,"PersID":null,"InsID":null},{"AutName":"Reich","Firstname":null,"Initials":"H.G.","Affiliation":null,"Discriminator":null,"CorporateFlag":0,"BEntID":321565,"AutID":422084,"OrderNr":4,"DegrID":null,"EditorFlag":0,"CorrespFlag":0,"IllustratorFlag":0,"ReviserFlag":0,"TranslatorFlag":0,"InsAcronym":null,"InsFSN":null,"ORCID":null,"PersID":null,"InsID":null},{"AutName":"Miller","Firstname":null,"Initials":"W.","Affiliation":null,"Discriminator":null,"CorporateFlag":0,"BEntID":321565,"AutID":61755,"OrderNr":5,"DegrID":null,"EditorFlag":0,"CorrespFlag":0,"IllustratorFlag":0,"ReviserFlag":0,"TranslatorFlag":0,"InsAcronym":null,"InsFSN":null,"ORCID":null,"PersID":null,"InsID":null},{"AutName":"Griffin","Firstname":null,"Initials":"S.","Affiliation":null,"Discriminator":null,"CorporateFlag":0,"BEntID":321565,"AutID":422086,"OrderNr":6,"DegrID":null,"EditorFlag":0,"CorrespFlag":0,"IllustratorFlag":0,"ReviserFlag":0,"TranslatorFlag":0,"InsAcronym":null,"InsFSN":null,"ORCID":null,"PersID":null,"InsID":null},{"AutName":"Fogarty","Firstname":"Nicole","Initials":"N.D.","Affiliation":null,"Discriminator":null,"CorporateFlag":1,"BEntID":321565,"AutID":90857,"OrderNr":7,"DegrID":null,"EditorFlag":0,"CorrespFlag":0,"IllustratorFlag":0,"ReviserFlag":0,"TranslatorFlag":0,"InsAcronym":null,"InsFSN":null,"ORCID":null,"PersID":null,"InsID":null},{"AutName":"Baums","Firstname":"Iliana","Initials":"I.B.","Affiliation":"Penn State Univ, Dept Biol, University Pk, PA 16802 USA.","Discriminator":null,"CorporateFlag":0,"BEntID":321565,"AutID":299666,"OrderNr":8,"DegrID":null,"EditorFlag":0,"CorrespFlag":0,"IllustratorFlag":0,"ReviserFlag":0,"TranslatorFlag":0,"InsAcronym":null,"InsFSN":null,"ORCID":null,"PersID":null,"InsID":null}],"mapdetails":null,"datasets":null,"monographs":null,"monparts":null,"serparts":null,"BEntOpen":null,"BEntPrivate":null,"availability":[{"BInstID":350063,"LibID":36,"BRefID":328088,"EmbargoDate":null,"FullEmbargoDate":null,"PhysMedID":16,"hasOCRd":1,"ShelfLocCode":"350063","RFID":null,"PaidValue":null,"Medium":"Server","Description":"VLIZ Open Access","Acronym":"VLIZ","Library":"Vlaams Instituut voor de Zee","DutchTerm":"Open access","URL":null,"ClassifID":53,"Classification":"Open access","ReqLink":null,"ClassifTypID":1,"URLLocation":"https://www.vliz.be/imisdocs/publications/","SubDir":null,"InternalReq":0,"LoggedInReq":0,"Disclaimer":null,"DutchDisclaimer":null,"FileFormat":".pdf","FileDescr":"pdf","InsPub":1,"InsID":36,"FileFormID":6,"LendableFlag":1,"PublicFlag":1,"orderLib":"A","Notes":null,"AccConID":null,"AccessConstraint":null,"LicURL":null}],"litstyles":null,"thespers":null,"arch2discl":null,"SERpubls":[{"PublName":"Nature Publishing Group","City":"London"}],"MONpubls":null,"pictures":[],"thestermsPath":null,"thestermsASFA":null,"taxtermsASFA":null,"geotermsASFA":null,"collections":null,"conf":null,"proj":null,"Physdatasets":null,"spcols":null,"doi":null,"publs":null,"serparttypes":null,"monauthors":null,"MParts":null,"SParts":null,"hLibs":null,"langs":[{"BEntID":321565,"AbstractFlag":0,"LangID":15,"LangCode":"en","Lang":"English","DutchTerm":"Engels","LangCodeExtended":"eng"},{"BEntID":321565,"AbstractFlag":1,"LangID":15,"LangCode":"en","Lang":"English","DutchTerm":"Engels","LangCodeExtended":"eng"}],"urls":[{"URL":"https://dx.doi.org/10.1038/s41598-020-69101-z","externalID":"10.1038/s41598-020-69101-z","URLTypeCode":"DOI","URLID":85091,"URLTypID":13,"URLType":"DOI","URLPrefix":"http://dx.doi.org/"}],"thesterms":null,"taxterms":null,"geoterms":null,"othterms":null,"asfacodes":null,"asfa2codes":null,"thestermsFRIS":null,"taxtermsFRIS":null,"geotermsFRIS":null,"othtermsFRIS":null,"resmessage":"","complete":1,"sessions":{"newSesName":"Chisala, Chilekwa, C.","newSesDate":{"date":"2020-08-18 13:08:07.490000","timezone_type":3,"timezone":"Europe/Brussels"},"updSesName":"Chisala, Chilekwa, C.","updSesDate":{"date":"2020-08-18 13:08:07.490000","timezone_type":3,"timezone":"Europe/Brussels"}}}