{"datasetrec":{"DasID":7802,"Acronym":null,"StandardTitle":"virome_antarctic_lakes_2010","OrigTitle":null,"OrigTitleLangID":null,"OrigTitleLangCode":null,"OrigTitleLang":null,"OrigTitleLangNL":null,"VersionName":"1.0","ContactEmail":null,"VersionDate":null,"VersionDay":17,"VersionMonth":6,"VersionYear":2021,"SizeReference":"0 records (metadata only)","EngAbstract":"Virome dataset based on shotgun 454 sequencing of virus-concentrated samples from lakes in the Antarctic Peninsula (2010).","EngDescr":"Samples were taken from several freshwater bodies in the Antarctic Peninsula during the Austral summer 2010 (Caleta Cierva, Avian Island, Green Island, Pourquoi Pas Island and Livingston Island (South Shetland Islands)).\r\n<br>\r\nWater samples were preserved at 4°C and viral particles purified within the first 24 h of sampling. From each water body, 60–90 l were first filtered through a 30 μm nylon mesh to remove large particles, and then by tangential flow filtration (TFF) using a peristaltic pump coupled to a Centramate holder (Pall) with two cassettes of 0.45 μm (2 × 0.019 m2, PES) to remove bacteria and smaller eukaryotes.\r\n<br>\r\nThe filtrated viral fraction was concentrated 100 times by TFF with two cassettes of 70 kDa exclusion size at pressures below 10 p.s.i., in order to maintain viral particle integrity. Viral stocks were preserved at −20°C for transportation, and finally stored at −80°C before subsequent processing. All material was acid-rinsed (0.1 N HCl) and extensively washed with Milli Q or 70 kDa-filtered lake water.\r\n<br>\r\nFrozen stocks were thawed at 4°C with gentle rocking, and then passed through a 25% sucrose cushion by centrifugation for 16 h at 60 000 g and 4°C. The resulting pellets were resuspended in TE buffer (10 mM Tris pH 8, 1 mM EDTA), and filtered using a sterile 0.45 μm syringe filter. Viral concentrates were then treated with DNAse I (500 U ml−1), Nuclease S7 (500 U ml−1), RNAse A (100 μg ml−1) and RNAse H (2 U per reaction) for 30 min at room temperature to remove free nucleic acids. Nuclease reactions were stopped with EDTA and EGTA (12 and 2 mM, respectively), and viral capsids and envelopes were then disrupted with SDS (0.5%) and proteinase K (200 μg ml−1) treatment.\r\n<br>\r\nViral DNA was extracted with phenol–chloroform, ethanol precipitated and randomly amplified using Phi29 polymerase and modified random hexamers (GenomiPhi HY, GE Healthcare) for 2.5 h, according to the manufacturer's instructions. The samples were subsequently shot-gun sequenced with a Roche 454 FLX sequencer (Parque Científico de Madrid).","OrigAbstract":null,"OrigDescr":null,"Comments":null,"ReleaseDate":null,"ReleaseDate0":null,"OrigDescrLang":null,"EmbargoDate":null,"OrigDescrLangNL":null,"OrigLangCode":null,"OrigLangCodeExtended":null,"OrigLangID":null,"DescrCompFlag":0,"DescrTransFlag":0,"Citation":"de Carcer D A, Lopez-Bueno A, Alonso-Lobo J, Quesada A, Alcami A (2021): virome_antarctic_lakes_2010. v1.0. SCAR - Microbial Antarctic Resource System. Dataset/Metadata. https://ipt.biodiversity.aq/resource?r=virome_antarctic_lakes_2010&v=1.0","AccessConstraints":"The publisher and rights holder of this work is SCAR - Microbial Antarctic Resource System. This work is licensed under a Creative Commons Attribution (CC-BY) 4.0 License.","UDate":"2021-07-06","CDate":"2021-07-06","CurrencyDate":null,"RevisionDate":null,"DateLastModified":{"date":"2026-05-30 01:37:59.451226","timezone_type":1,"timezone":"+02:00"},"CheckedFlag":0,"PublicFlag":1,"VlizCoreFlag":1,"MarineFlag":0,"FreshFlag":1,"BrackishFlag":0,"TerrestrialFlag":0,"StatusID":1,"DasType":"Metadata","DasTypeID":8,"DasOrigin":"Research: field survey","Progress":"Completed","AccessConstraint":"Attribution (CC BY)","AccConstrEN":"Attribution (CC BY)","AccConstrDisplay":"<a rel=\"license\" href=\"https://creativecommons.org/licenses/by/4.0/\" target=\"_blank\"><img alt=\"Creative Commons License\" style=\"border:0px;height:15px;width:80px;vertical-align:middle;\" src=\"https://www.marinespecies.org/aphia/images/cc/by.png\" /></a> This dataset is licensed under a <a rel=\"license\" href=\"https://creativecommons.org/licenses/by/4.0/\" target=\"_blank\">Creative Commons Attribution 4.0 International License</a>.","License":"https://creativecommons.org/licenses/by/4.0/","AccConstrDescription":"This license lets others distribute, remix, tweak, and build upon your work, even commercially, as long as they credit you for the original creation. This is the most accommodating of licenses offered. Recommended for maximum dissemination and use of licensed materials.","Lineage":null,"AccConID":21,"DOI":"10.15468/gcysrw","GBIF_UUID":"9c226382-bbf8-420c-bfcc-bb417be1f181"},"dois":null,"spcols":null,"keywords":[{"ThesaurusTerm":"Antarctica, Antarctic Peninsula","ThesTypID":34,"ThesType":"ASFA Geoterms","Code":null,"Description":null,"OrigThesTerm":"Antarctica, Antarctic Peninsula","DutchTerm":null,"URI":null,"DasKeywordDescr":null},{"ThesaurusTerm":"Dna sequencing","ThesTypID":4,"ThesType":"CAB Thesaurus","Code":"40176","Description":null,"OrigThesTerm":"Dna sequencing","DutchTerm":null,"URI":"https://id.cabi.org/cabt/40176","DasKeywordDescr":null},{"ThesaurusTerm":"Freshwater lakes","ThesTypID":4,"ThesType":"CAB Thesaurus","Code":"49598","Description":null,"OrigThesTerm":"Freshwater lakes","DutchTerm":null,"URI":"https://id.cabi.org/cabt/49598","DasKeywordDescr":null},{"ThesaurusTerm":"Metadata","ThesTypID":3,"ThesType":"Transportation Research Thesaurus","Code":"Xbkgdym","Description":null,"OrigThesTerm":"Metadata","DutchTerm":null,"URI":null,"DasKeywordDescr":null}],"parents":null,"children":null,"othrel":null,"othrelrev":[{"DasID":1543,"Acronym":"AntOBIS","StandardTitle":"Antarctic Ocean Biodiversity Information System","Relation":"Published dataset","RelationY":"Published in","RelID":13,"doi":null,"vlizDoi":null},{"DasID":5816,"Acronym":"RAS","StandardTitle":"Register of Antarctic Species","Relation":"Partial Source DataSet","RelationY":"Partly included in","RelID":8,"doi":null,"vlizDoi":null}],"ownerships":[{"OrderNr":1,"Surname":"Aguirre de Cárcer","Firstname":"Daniel","Initials":"D.","PerPublicFlag":1,"AdrID":null,"Email":null,"InsPublicFlag":1,"Acronym":null,"OrigNameLangCode":null,"OrigNameLangID":null,"FullOrigName":null,"InsOwnerCNT":2,"PersID":40361,"InsID":5895,"FullInstitute":"Universidad Autónoma de Madrid","RoleID":61,"Role":"Data creator","OrigName":null,"StandardName":"Universidad Autónoma de Madrid","FullAcronym":null,"ORC":"https://orcid.org/0000-0003-1104-9566","ROR":null},{"OrderNr":2,"Surname":"Alcamí","Firstname":"Antonio","Initials":"A.","PerPublicFlag":1,"AdrID":164127,"Email":"aalcami@cbm.csic.es","InsPublicFlag":1,"Acronym":null,"OrigNameLangCode":null,"OrigNameLangID":null,"FullOrigName":null,"InsOwnerCNT":2,"PersID":37545,"InsID":5895,"FullInstitute":"Universidad Autónoma de Madrid","RoleID":24,"Role":"Contact","OrigName":null,"StandardName":"Universidad Autónoma de Madrid","FullAcronym":null,"ORC":null,"ROR":null}],"taxterms":[{"DasTaxtTypID":1,"DasTaxtType":"Taxonomic coverage","TaxtID":39742,"TaxTerm":"Viruses","AphiaID":10,"DutchTerm":null}],"frameworks":null,"otherterms":null,"temporal":[{"DasDateID":5483,"StartYear":2010,"EndYear":2010,"StartDay":21,"EndDay":28,"StartDate":"2010-01-21","EndDate":"2010-01-28","DasDate":null,"Resolution":null,"ResolutionNL":null,"Notes":null,"StartMonth0":1,"StartMonth":"January","StartMonthNL":"Januari","EndMonth0":1,"EndMonth":"January","EndMonthNL":"Januari","Progress":"Completed","ProgressNL":"Afgelopen"}],"geographical":[{"GeoTerm":"Antarctic Peninsula","DasGeoID":11762,"DasGeoTerm":null,"DasID":7802,"GeotID":497,"X":null,"Y":null,"MaxX":null,"MaxY":null,"StationName":null,"Precision":null,"CoordSystID":null,"GeoDatumID":null,"OrigCoordMinX":null,"OrigCoordMinY":null,"OrigCoordMaxX":null,"OrigCoordMaxY":null,"OrderNr":null,"Projection":null,"GeoDatum":null,"GeoObjectID":9978,"OrigGeoTerm":"Antarctic Peninsula","DutchTerm":null}],"meastypes":[{"MethID":null,"DasMeasTypID":13937,"DasMeasType":"","Matrix":null,"MatrixNL":null,"Parameter":"DNA","ParameterNL":null,"Description":null,"Unit":null,"Methodology":null,"Protocol":null,"QualityControl":null,"Precision":null,"Detectionlimit":null,"Instrument":null,"InstrumentUrl":null,"MethFull":"","ParaCategoryTitle":null,"ParaCatCode":null}],"dasthemes":[{"DasThemeID":30,"DasTheme":"Biology > Ecology - biodiversity","DasTheme0":"Ecology - biodiversity","DutchTerm":"Ecologie - biodiversiteit"}],"projects":null,"refs":null,"urls":[{"URL":"https://doi.org/10.15468/gcysrw","externalID":"10.15468/gcysrw","URLTypeCode":"DOI","URLType":"DOI","URLTypID":13,"downloadURL":null,"FileName":null},{"URL":"https://www.gbif.org/dataset/9c226382-bbf8-420c-bfcc-bb417be1f181","externalID":"9c226382-bbf8-420c-bfcc-bb417be1f181","URLTypeCode":"GBIF_UUID","URLType":"GBIF dataset","URLTypID":43,"downloadURL":null,"FileName":null},{"URL":"https://ipt.biodiversity.aq/resource?r=virome_antarctic_lakes_2010","externalID":null,"URLTypeCode":null,"URLType":"IPT","URLTypID":33,"downloadURL":null,"FileName":null},{"URL":"https://obis.org/dataset/4388dba9-2feb-4d8d-8c9f-d0eeb3f2037d","externalID":"4388dba9-2feb-4d8d-8c9f-d0eeb3f2037d","URLTypeCode":null,"URLType":"Online dataset","URLTypID":19,"downloadURL":null,"FileName":null}],"pictures":null,"urlmaps":null,"spatreps":null,"fileformats":null,"resmessage":"","complete":1}