{"@context":{"@vocab":"https://cir.nii.ac.jp/schema/1.0/","rdfs":"http://www.w3.org/2000/01/rdf-schema#","dc":"http://purl.org/dc/elements/1.1/","dcterms":"http://purl.org/dc/terms/","foaf":"http://xmlns.com/foaf/0.1/","prism":"http://prismstandard.org/namespaces/basic/2.0/","cinii":"http://ci.nii.ac.jp/ns/1.0/","datacite":"https://schema.datacite.org/meta/kernel-4/","ndl":"http://ndl.go.jp/dcndl/terms/","jpcoar":"https://github.com/JPCOAR/schema/blob/master/2.0/"},"@id":"https://cir.nii.ac.jp/crid/1360848660728587136.json","@type":"Article","productIdentifier":[{"identifier":{"@type":"DOI","@value":"10.1111/mec.12298"}},{"identifier":{"@type":"URI","@value":"https://api.wiley.com/onlinelibrary/tdm/v1/articles/10.1111%2Fmec.12298"}},{"identifier":{"@type":"URI","@value":"https://onlinelibrary.wiley.com/doi/pdf/10.1111/mec.12298"}},{"identifier":{"@type":"PMID","@value":"23967453"}},{"identifier":{"@type":"HANDLE","@value":"11573/1443289"}},{"identifier":{"@type":"HANDLE","@value":"20.500.11937/7833"}}],"resourceType":"学術雑誌論文(journal article)","dc:title":[{"@value":"Molecular‐ and pollen‐based vegetation analysis in lake sediments from central <scp>S</scp>candinavia"}],"description":[{"type":"abstract","notation":[{"@value":"<jats:title>Abstract</jats:title><jats:p>Plant and animal biodiversity can be studied by obtaining <jats:styled-content style=\"fixed-case\">DNA</jats:styled-content> directly from the environment. This new approach in combination with the use of generic barcoding primers (metabarcoding) has been suggested as complementary or alternative to traditional biodiversity monitoring in ancient soil sediments. However, the extent to which metabarcoding truly reflects plant composition remains unclear, as does its power to identify species with no pollen or macrofossil evidence. Here, we compared pollen‐based and metabarcoding approaches to explore the <jats:styled-content style=\"fixed-case\">H</jats:styled-content>olocene plant composition around two lakes in central <jats:styled-content style=\"fixed-case\">S</jats:styled-content>candinavia. At one site, we also compared barcoding results with those obtained in earlier studies with species‐specific primers. The pollen analyses revealed a larger number of taxa (46), of which the majority (78%) was not identified by metabarcoding. The metabarcoding identified 14 taxa (<jats:styled-content style=\"fixed-case\">MTU</jats:styled-content>s), but allowed identification to a lower taxonomical level. The combined analyses identified 52 taxa. The barcoding primers may favour amplification of certain taxa, as they did not detect taxa previously identified with species‐specific primers. Taphonomy and selectiveness of the primers are likely the major factors influencing these results. We conclude that metabarcoding from lake sediments provides a complementary, but not an alternative, tool to pollen analysis for investigating past flora. In the absence of other fossil evidence, metabarcoding gives a local and important signal from the vegetation, but the resulting assemblages show limited capacity to detect all taxa, regardless of their abundance around the lake. We suggest that metabarcoding is followed by pollen analysis and the use of species‐specific primers to provide the most comprehensive signal from the environment.</jats:p>"}]}],"creator":[{"@id":"https://cir.nii.ac.jp/crid/1380848660728587266","@type":"Researcher","foaf:name":[{"@value":"Laura Parducci"}],"jpcoar:affiliationName":[{"@value":"Department of Ecology and Genetics Evolutionary Biology Centre Uppsala University Norbyvägen 18D 75236 Uppsala Sweden"},{"@value":"Centre for GeoGenetics Natural History Museum of Denmark University of Copenhagen ØsterVoldgade 5‐7 DK‐1350 Copenhagen Denmark"}]},{"@id":"https://cir.nii.ac.jp/crid/1380848660728587394","@type":"Researcher","foaf:name":[{"@value":"Irina Matetovici"}],"jpcoar:affiliationName":[{"@value":"Department of Ecology and Genetics Evolutionary Biology Centre Uppsala University Norbyvägen 18D 75236 Uppsala Sweden"},{"@value":"Molecular Biology Centre Interdisciplinary Research Institute on Bio‐Nano‐Sciences Babes‐Bolyai‐University ClujNapoca 42 TreboniuLaurian Street RO‐400271 Cluj‐Napoca Romania"}]},{"@id":"https://cir.nii.ac.jp/crid/1380848660728587284","@type":"Researcher","foaf:name":[{"@value":"Sonia L. Fontana"}],"jpcoar:affiliationName":[{"@value":"Department of Ecology and Genetics Evolutionary Biology Centre Uppsala University Norbyvägen 18D 75236 Uppsala Sweden"}]},{"@id":"https://cir.nii.ac.jp/crid/1380848660728587276","@type":"Researcher","foaf:name":[{"@value":"K. D. Bennett"}],"jpcoar:affiliationName":[{"@value":"School of Geography, Archaeology & Palaeoecology Queen's University Belfast Belfast BT7 1NN UK"},{"@value":"Department of Earth Sciences Uppsala University Villavägen 16 75236 Uppsala Sweden"}]},{"@id":"https://cir.nii.ac.jp/crid/1420845751141537664","@type":"Researcher","personIdentifier":[{"@type":"KAKEN_RESEARCHERS","@value":"60282315"},{"@type":"NRID","@value":"1000060282315"},{"@type":"ORCID","@value":"0000-0002-3136-5489"},{"@type":"NRID","@value":"9000356636173"},{"@type":"NRID","@value":"9000367412231"},{"@type":"NRID","@value":"9000237765383"},{"@type":"NRID","@value":"9000412547897"},{"@type":"NRID","@value":"9000238225717"},{"@type":"NRID","@value":"9000283256180"},{"@type":"NRID","@value":"9000399182602"},{"@type":"NRID","@value":"9000412212268"},{"@type":"NRID","@value":"9000396089492"},{"@type":"NRID","@value":"9000010032225"},{"@type":"NRID","@value":"9000392765788"},{"@type":"NRID","@value":"9000392764177"},{"@type":"NRID","@value":"9000404152042"},{"@type":"NRID","@value":"9000412337470"},{"@type":"NRID","@value":"9000383840229"},{"@type":"NRID","@value":"9000392028040"},{"@type":"NRID","@value":"9000414371050"},{"@type":"NRID","@value":"9000365525320"},{"@type":"NRID","@value":"9000000251342"},{"@type":"NRID","@value":"9000396149551"},{"@type":"NRID","@value":"9000001855199"},{"@type":"NRID","@value":"9000411001301"},{"@type":"NRID","@value":"9000410321846"},{"@type":"NRID","@value":"9000001309525"},{"@type":"NRID","@value":"9000023602477"},{"@type":"NRID","@value":"9000409186309"},{"@type":"NRID","@value":"9000000043082"},{"@type":"NRID","@value":"9000242103347"},{"@type":"NRID","@value":"9000392775314"},{"@type":"NRID","@value":"9000409762163"},{"@type":"NRID","@value":"9000331455933"},{"@type":"NRID","@value":"9000411767774"},{"@type":"NRID","@value":"9000000202642"},{"@type":"NRID","@value":"9000002025062"},{"@type":"NRID","@value":"9000331455925"},{"@type":"NRID","@value":"9000001212789"},{"@type":"NRID","@value":"9000331455923"},{"@type":"NRID","@value":"9000409602048"},{"@type":"NRID","@value":"9000001081012"},{"@type":"NRID","@value":"9000001680707"},{"@type":"NRID","@value":"9000331455930"},{"@type":"NRID","@value":"9000412212315"},{"@type":"NRID","@value":"9000409602065"},{"@type":"NRID","@value":"9000392764526"},{"@type":"NRID","@value":"9000405885802"},{"@type":"RESEARCHMAP","@value":"https://researchmap.jp/read0047486"}],"foaf:name":[{"@value":"Yoshihisa Suyama"}],"jpcoar:affiliationName":[{"@value":"Graduate School of Agricultural Science Tohoku University 232‐3 Yomogida Naruko‐onsen Osaki Miyagi 989‐6711 Japan"}]},{"@id":"https://cir.nii.ac.jp/crid/1380848660728587265","@type":"Researcher","foaf:name":[{"@value":"James Haile"}],"jpcoar:affiliationName":[{"@value":"Centre for GeoGenetics Natural History Museum of Denmark University of Copenhagen ØsterVoldgade 5‐7 DK‐1350 Copenhagen Denmark"}]},{"@id":"https://cir.nii.ac.jp/crid/1380861288002132352","@type":"Researcher","foaf:name":[{"@value":"Kurt H. Kjær"}],"jpcoar:affiliationName":[{"@value":"Centre for GeoGenetics Natural History Museum of Denmark University of Copenhagen ØsterVoldgade 5‐7 DK‐1350 Copenhagen Denmark"}]},{"@id":"https://cir.nii.ac.jp/crid/1380848660728587278","@type":"Researcher","foaf:name":[{"@value":"Nicolaj K. Larsen"}],"jpcoar:affiliationName":[{"@value":"Department of Geoscience Aarhus University Høegh Guldbergs Gade 2 DK‐8000 Aarhus Denmark"}]},{"@id":"https://cir.nii.ac.jp/crid/1380848660728587009","@type":"Researcher","foaf:name":[{"@value":"Andreas D. Drouzas"}],"jpcoar:affiliationName":[{"@value":"School of Biology Aristotle University of Thessaloniki P.O. Box: 104 GR‐54124 Thessaloniki Greece"}]},{"@id":"https://cir.nii.ac.jp/crid/1380848660728587142","@type":"Researcher","foaf:name":[{"@value":"Eske Willerslev"}],"jpcoar:affiliationName":[{"@value":"Centre for GeoGenetics Natural History Museum of Denmark University of Copenhagen ØsterVoldgade 5‐7 DK‐1350 Copenhagen Denmark"}]}],"publication":{"publicationIdentifier":[{"@type":"PISSN","@value":"09621083"},{"@type":"EISSN","@value":"1365294X"}],"prism:publicationName":[{"@value":"Molecular Ecology"}],"dc:publisher":[{"@value":"Wiley"}],"prism:publicationDate":"2013-04-15","prism:volume":"22","prism:number":"13","prism:startingPage":"3511","prism:endingPage":"3524"},"reviewed":"false","dc:rights":["http://onlinelibrary.wiley.com/termsAndConditions#vor","http://doi.wiley.com/10.1002/tdm_license_1.1"],"url":[{"@id":"https://api.wiley.com/onlinelibrary/tdm/v1/articles/10.1111%2Fmec.12298"},{"@id":"https://onlinelibrary.wiley.com/doi/pdf/10.1111/mec.12298"}],"createdAt":"2013-04-15","modifiedAt":"2023-10-01","foaf:topic":[{"@id":"https://cir.nii.ac.jp/all?q=Geologic%20Sediments","dc:title":"Geologic Sediments"},{"@id":"https://cir.nii.ac.jp/all?q=DNA,%20Plant","dc:title":"DNA, Plant"},{"@id":"https://cir.nii.ac.jp/all?q=Scandinavian%20and%20Nordic%20Countries","dc:title":"Scandinavian and Nordic Countries"},{"@id":"https://cir.nii.ac.jp/all?q=333","dc:title":"333"},{"@id":"https://cir.nii.ac.jp/all?q=Species%20Specificity","dc:title":"Species Specificity"},{"@id":"https://cir.nii.ac.jp/all?q=DNA%20Barcoding,%20Taxonomic","dc:title":"DNA Barcoding, Taxonomic"},{"@id":"https://cir.nii.ac.jp/all?q=Cloning,%20Molecular","dc:title":"Cloning, Molecular"},{"@id":"https://cir.nii.ac.jp/all?q=ancient%20DNA","dc:title":"ancient DNA"},{"@id":"https://cir.nii.ac.jp/all?q=ancient%20DNA;%20barcoding;%20environmental%20DNA;%20palaeoecology;%20pollen","dc:title":"ancient DNA; barcoding; environmental DNA; palaeoecology; pollen"},{"@id":"https://cir.nii.ac.jp/all?q=DNA%20Primers","dc:title":"DNA Primers"},{"@id":"https://cir.nii.ac.jp/all?q=580","dc:title":"580"},{"@id":"https://cir.nii.ac.jp/all?q=Fossils","dc:title":"Fossils"},{"@id":"https://cir.nii.ac.jp/all?q=Biodiversity","dc:title":"Biodiversity"},{"@id":"https://cir.nii.ac.jp/all?q=palaeoecology","dc:title":"palaeoecology"},{"@id":"https://cir.nii.ac.jp/all?q=Plants","dc:title":"Plants"},{"@id":"https://cir.nii.ac.jp/all?q=environmental%20DNA","dc:title":"environmental DNA"},{"@id":"https://cir.nii.ac.jp/all?q=barcoding","dc:title":"barcoding"},{"@id":"https://cir.nii.ac.jp/all?q=Lakes","dc:title":"Lakes"},{"@id":"https://cir.nii.ac.jp/all?q=pollen","dc:title":"pollen"},{"@id":"https://cir.nii.ac.jp/all?q=Pollen","dc:title":"Pollen"},{"@id":"https://cir.nii.ac.jp/all?q=Sequence%20Alignment","dc:title":"Sequence Alignment"}],"project":[{"@id":"https://cir.nii.ac.jp/crid/1040282257170841088","@type":"Project","projectIdentifier":[{"@type":"KAKEN","@value":"24248025"},{"@type":"JGN","@value":"JP24248025"},{"@type":"URI","@value":"https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-24248025/"}],"notation":[{"@language":"ja","@value":"山岳氷河の掘削試料から得られた樹木花粉のＤＮＡ分析による古森林遺伝学的研究"},{"@language":"en","@value":"Development of forest paleogenetic approaches using ancient pollen grains found in an ice core from mountain glacier"}]}],"relatedProduct":[{"@id":"https://cir.nii.ac.jp/crid/1360011142940225024","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"IntCal09 and Marine09 Radiocarbon Age Calibration Curves, 0–50,000 Years cal BP"}]},{"@id":"https://cir.nii.ac.jp/crid/1360011144108708352","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Assessing the Fidelity of Ancient DNA Sequences Amplified From Nuclear Genes"}]},{"@id":"https://cir.nii.ac.jp/crid/1360011144406539264","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Diverse Plant and Animal Genetic Records from Holocene and Pleistocene Sediments"}]},{"@id":"https://cir.nii.ac.jp/crid/1360011145812029568","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"The Lateglacial and early Holocene vegetation and environment in the Dovre mountains, central Norway, as signalled in two Lateglacial nunatak lakes"}]},{"@id":"https://cir.nii.ac.jp/crid/1360011146468877952","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Fast phylogenetic DNA barcoding"}]},{"@id":"https://cir.nii.ac.jp/crid/1360011146511747072","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Scattered late-glacial and early Holocene tree populations as dispersal nuclei for forest development in north-eastern European Russia"}]},{"@id":"https://cir.nii.ac.jp/crid/1360283693415203072","@type":"Article","resourceType":"学術雑誌論文(journal article)","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Glacial Survival of Boreal Trees in Northern Scandinavia"}]},{"@id":"https://cir.nii.ac.jp/crid/1360292619744088064","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"The Mk II sampler: a device to collect sediment cores for analysis of uncontaminated DNA"}]},{"@id":"https://cir.nii.ac.jp/crid/1360292619861130240","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"A comparative study of ancient sedimentary DNA, pollen and macrofossils from permafrost sediments of northern Siberia reveals long‐term vegetational stability"}]},{"@id":"https://cir.nii.ac.jp/crid/1360292621397044480","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Future uses of pollen analysis must include plant macrofossils"}]},{"@id":"https://cir.nii.ac.jp/crid/1360574093561996672","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Power and limitations of the chloroplast trnL (UAA) intron for plant DNA barcoding"}]},{"@id":"https://cir.nii.ac.jp/crid/1360574093875746432","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Holocene forest development in the central Scandes Mountains, Sweden"}]},{"@id":"https://cir.nii.ac.jp/crid/1360574094450047360","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Statistical Assignment of DNA Sequences Using Bayesian Phylogenetics"}]},{"@id":"https://cir.nii.ac.jp/crid/1360574094662765696","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Ancient DNA from pollen: a genetic record of population history in Scots pine"}]},{"@id":"https://cir.nii.ac.jp/crid/1360574094867117312","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Ancient DNA Chronology within Sediment Deposits: Are Paleobiological Reconstructions Possible and Is DNA Leaching a Factor?"}]},{"@id":"https://cir.nii.ac.jp/crid/1360574096124684800","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Boreal tree taxa in the central Scandes during the Late‐Glacial: implications for Late‐Quaternary forest history"}]},{"@id":"https://cir.nii.ac.jp/crid/1360574096331200128","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Identification of a Universally Primed-PCR-Derived Sequence-Characterized Amplified Region Marker for an Antagonistic Strain of\n            <i>Clonostachys rosea</i>\n            and Development of a Strain-Specific PCR Detection Assay"}]},{"@id":"https://cir.nii.ac.jp/crid/1360846642707948032","@type":"Article","resourceType":"学術雑誌論文(journal article)","relationType":["isReferencedBy"],"jpcoar:relatedTitle":[{"@value":"Proxy comparison in ancient peat sediments: pollen, macrofossil and plant DNA"}]},{"@id":"https://cir.nii.ac.jp/crid/1360855569672321280","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Detection of a Diverse Marine Fish Fauna Using Environmental DNA from Seawater Samples"}]},{"@id":"https://cir.nii.ac.jp/crid/1360855570616570496","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Beringian Paleoecology Inferred from Permafrost-Preserved Fungal DNA"}]},{"@id":"https://cir.nii.ac.jp/crid/1361137046316774528","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"The distribution of late-Quaternary woody taxa in northern Eurasia: evidence from a new macrofossil database"}]},{"@id":"https://cir.nii.ac.jp/crid/1361418519648859904","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Barcoding animal life: cytochrome\n            <i>c</i>\n            oxidase subunit 1 divergences among closely related species"}]},{"@id":"https://cir.nii.ac.jp/crid/1361418520211665792","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Using next‐generation sequencing for molecular reconstruction of past Arctic vegetation and 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permafrost"}]},{"@id":"https://cir.nii.ac.jp/crid/1361699995472524416","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"The blossoming of plant archaeogenetics"}]},{"@id":"https://cir.nii.ac.jp/crid/1361699995819448960","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Fewer genes than organelles: extremely low and variable gene copy numbers in mitochondria of somatic plant cells"}]},{"@id":"https://cir.nii.ac.jp/crid/1361981468643378688","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Statistical tests of selective neutrality in the age of genomics"}]},{"@id":"https://cir.nii.ac.jp/crid/1361981468648811264","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Deposition models for chronological records"}]},{"@id":"https://cir.nii.ac.jp/crid/1361981468924866560","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"A molecular analysis of ground sloth diet through the last glaciation"}]},{"@id":"https://cir.nii.ac.jp/crid/1361981468945905408","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Characteristics of 454 pyrosequencing data—enabling realistic simulation with flowsim"}]},{"@id":"https://cir.nii.ac.jp/crid/1361981470968112512","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Instability and decay of the primary structure of DNA"}]},{"@id":"https://cir.nii.ac.jp/crid/1361981471183658752","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Statistical Evidence for Miscoding Lesions in Ancient DNA Templates"}]},{"@id":"https://cir.nii.ac.jp/crid/1362262943856248832","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"A DNA barcode for land plants"}]},{"@id":"https://cir.nii.ac.jp/crid/1362262944296789248","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Characterization of Nucleotide Misincorporation Patterns in the Iceman's Mitochondrial DNA"}]},{"@id":"https://cir.nii.ac.jp/crid/1362544419353347968","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"DNA-Based Faecal Dietary Analysis: A Comparison of qPCR and High Throughput Sequencing Approaches"}]},{"@id":"https://cir.nii.ac.jp/crid/1362544420754535168","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Meta‐barcoding of ‘dirt’ DNA from soil reflects vertebrate biodiversity"}]},{"@id":"https://cir.nii.ac.jp/crid/1362825894495991040","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Ancient plant DNA: review and prospects"}]},{"@id":"https://cir.nii.ac.jp/crid/1362825895076563200","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Modern and Holocene Pollen Assemblages from Some Small Arctic Lakes on Somerset Island, NWT, Canada"}]},{"@id":"https://cir.nii.ac.jp/crid/1362825896227437056","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Ancient DNA from lake sediments: Bridging the gap between paleoecology and genetics"}]},{"@id":"https://cir.nii.ac.jp/crid/1363107368630261632","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Temporal Patterns of Nucleotide Misincorporations and DNA Fragmentation in Ancient DNA"}]},{"@id":"https://cir.nii.ac.jp/crid/1363107370344652672","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"Piston Corers for Peat and Lake Sediments"}]},{"@id":"https://cir.nii.ac.jp/crid/1363388843244839424","@type":"Article","relationType":["references"],"jpcoar:relatedTitle":[{"@value":"The Holocene spread of <i>Picea abies</i> (L.) 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