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Ecology and Evolution - 2021 - Shu - Environmental DNA metabarcoding primers for freshwater fish detection and.pdf 1,26MB
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1000 Titel
  • Environmental DNA metabarcoding primers for freshwater fish detection and quantification: In silico and in tanks
1000 Autor/in
  1. Shu, Lu |
  2. Ludwig, Arne |
  3. Peng, Zuogang |
1000 Erscheinungsjahr 2021
1000 LeibnizOpen
1000 Publikationstyp
  1. Artikel |
1000 Online veröffentlicht
  • 2021-05-16
1000 Erschienen in
1000 Quellenangabe
  • 11(12):8281-8294
1000 FRL-Sammlung
1000 Copyrightjahr
  • 2021
1000 Lizenz
1000 Verlagsversion
  • https://doi.org/10.1002/ece3.7658 |
  • https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8216916/ |
1000 Ergänzendes Material
  • https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Fece3.7658&file=ece37658-sup-0001-FigS1.jpg |
  • https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Fece3.7658&file=ece37658-sup-0002-FigS2.jpg |
  • https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Fece3.7658&file=ece37658-sup-0003-FigS3.jpg |
  • https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Fece3.7658&file=ece37658-sup-0004-FigS4.jpg |
  • https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Fece3.7658&file=ece37658-sup-0005-FigS5.jpg |
  • https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Fece3.7658&file=ece37658-sup-0006-FigS6.jpg |
  • https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Fece3.7658&file=ece37658-sup-0007-FigS7.jpg |
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  • https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Fece3.7658&file=ece37658-sup-0009-FigS9.jpg |
  • https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Fece3.7658&file=ece37658-sup-0010-FigS10.jpg |
  • https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Fece3.7658&file=ece37658-sup-0011-FigS11.jpg |
  • https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Fece3.7658&file=ece37658-sup-0012-FigS12.jpg |
  • https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Fece3.7658&file=ece37658-sup-0013-FigS13.jpg |
  • https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Fece3.7658&file=ece37658-sup-0014-FigS14.jpg |
  • https://onlinelibrary.wiley.com/action/downloadSupplement?doi=10.1002%2Fece3.7658&file=ece37658-sup-0015-TableS1-3.docx |
1000 Publikationsstatus
1000 Begutachtungsstatus
1000 Sprache der Publikation
1000 Abstract/Summary
  • Environmental DNA (eDNA) techniques refer to utilizing the organisms’ DNA extracted from environment samples to genetically identify target species without capturing actual organisms. eDNA metabarcoding via high-throughput sequencing can simultaneously detect multiple fish species from a single water sample, which is a powerful tool for the qualitative detection and quantitative estimates of multiple fish species. However, sequence counts obtained from eDNA metabarcoding may be influenced by many factors, of which primer bias is one of the foremost causes of methodological error. The performance of 18 primer pairs for COI, cytb, 12S rRNA, and 16S rRNA mitochondrial genes, which are all frequently used in fish eDNA metabarcoding, were evaluated in the current study. The ribosomal gene markers performed better than the protein-coding gene markers during in silico screening, resulting in higher taxonomic coverage and appropriate barcode lengths. Four primer pairs—AcMDB07, MiFish-U, Ve16S1, and Ve16S3—designed for various regions of the 12S and 16S rRNA genes were screened for tank metabarcoding in a case study targeting six freshwater fish species. The four primer pairs were able to accurately detect all six species in different tanks, while only MiFish-U, Ve16S1, and Ve16S3 revealed a significant positive relationship between species biomass and read count for the pooled tank data. The positive relationship could not be found in all species within the tanks. Additionally, primer efficiency differed depending on the species while primer preferential species varied in different fish assemblages. This case study supports the potential for eDNA metabarcoding to assess species diversity in natural ecosystems and provides an alternative strategy to evaluate the performance of candidate primers before application of eDNA metabarcoding in natural ecosystems.
1000 Sacherschließung
lokal environmental DNA
lokal in silico
lokal tank
lokal metabarcoding
lokal primer selection
1000 Fächerklassifikation (DDC)
1000 Liste der Beteiligten
  1. https://frl.publisso.de/adhoc/uri/U2h1LCBMdQ==|https://frl.publisso.de/adhoc/uri/THVkd2lnLCBBcm5l|https://orcid.org/0000-0001-8810-2025
1000 Label
1000 Förderer
  1. National Key Research and Development Program of China |
  2. National Natural Science Foundation of China |
1000 Fördernummer
  1. 2018YFD0900805
  2. 31872204
1000 Förderprogramm
  1. -
  2. -
1000 Dateien
  1. Environmental DNA metabarcoding primers for freshwater fish detection and quantification: In silico and in tanks
1000 Förderung
  1. 1000 joinedFunding-child
    1000 Förderer National Key Research and Development Program of China |
    1000 Förderprogramm -
    1000 Fördernummer 2018YFD0900805
  2. 1000 joinedFunding-child
    1000 Förderer National Natural Science Foundation of China |
    1000 Förderprogramm -
    1000 Fördernummer 31872204
1000 Objektart article
1000 Beschrieben durch
1000 @id frl:6434171.rdf
1000 Erstellt am 2022-07-17T13:30:12.594+0200
1000 Erstellt von 218
1000 beschreibt frl:6434171
1000 Bearbeitet von 317
1000 Zuletzt bearbeitet Fri Aug 05 11:42:41 CEST 2022
1000 Objekt bearb. Fri Aug 05 11:42:41 CEST 2022
1000 Vgl. frl:6434171
1000 Oai Id
  1. oai:frl.publisso.de:frl:6434171 |
1000 Sichtbarkeit Metadaten public
1000 Sichtbarkeit Daten public
1000 Gegenstand von

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