Document of bibliographic reference 348123
BibliographicReference record
- Type
- Bibliographic resource
- Type of document
- Journal article
- BibLvlCode
- AS
- Title
- The role of taxonomic expertise in interpretation of metabarcoding studies
- Abstract
- The performance of DNA metabarcoding approaches for characterizing biodiversity can be influenced by multiple factors. Here, we used morphological assessment of taxa in zooplankton samples to develop a large barcode database and to assess the congruence of taxonomic identification with metabarcoding under different conditions. We analysed taxonomic assignment of metabarcoded samples using two genetic markers (COI, 18S V1–2), two types of clustering into molecular operational taxonomic units (OTUs, ZOTUs), and three methods for taxonomic assignment (RDP Classifier, BLASTn to GenBank, BLASTn to a local barcode database). The local database includes 1042 COI and 1108 18S (SSU) barcode sequences, and we added new high-quality sequences to GenBank for both markers, including 109 contributions at the species level. The number of phyla detected and the number of taxa identified to phylum varied between a genetic marker and among the three methods used for taxonomic assignments. Blasting the metabarcodes to the local database generated multiple unique contributions to identify OTUs and ZOTUs. We argue that a multi-marker approach combined with taxonomic expertise to develop a curated, vouchered, local barcode database increases taxon detection with metabarcoding, and its potential as a tool for zooplankton biodiversity surveys.
- WebOfScience code
- https://www.webofscience.com/wos/woscc/full-record/WOS:000743803900027
- Bibliographic citation
- Pappalardo, P.; Collins, A.G.; Pagenkopp Lohan, K.M.; Hanson, K.M.; Truskey, S.B.; Jaeckle, W.; Ames, C.L.; Goodheart, J.A.; Bush, S.L.; Biancani, L.M.; Strong, E.E.; Vecchione, M.; Harasewych, M.G.; Reeds, K.; Lin, C.; Hartil, E.C.; Whelpley, J.; Blumberg, J.; Matterson, K.; Redmond, N.E.; Becker, A.; Boyle, M.J.; Osborn, K.J. (2021). The role of taxonomic expertise in interpretation of metabarcoding studies. ICES J. Mar. Sci./J. Cons. int. Explor. Mer 78(9): 3397-3410. https://dx.doi.org/10.1093/icesjms/fsab082
- Is peer reviewed
- true
- Access rights
- open access
- Is accessible for free
- true
Authors
- author
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- Name
- Paula Pappalardo
- author
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- Name
- Allen Collins
- author
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- Name
- Katrina Pagenkopp Lohan
- author
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- Name
- Kate Hanson
- author
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- Name
- Sarit Truskey
- author
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- Name
- William Jaeckle
- author
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- Name
- Cheryl Ames
- author
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- Name
- Jessica Goodheart
- author
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- Name
- Stephanie Bush
- author
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- Name
- Leann Biancani
- author
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- Name
- Ellen Strong
- author
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- Name
- Michael Vecchione
- author
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- author
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- Name
- Karen Reeds
- author
-
- Name
- Chan Lin
- author
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- Name
- Elise Hartil
- author
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- Name
- Jessica Whelpley
- author
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- Name
- Jamie Blumberg
- author
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- Name
- Kenan Matterson
- author
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- Name
- Niamh Redmond
- author
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- Name
- Allison Becker
- author
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- Name
- Michael Boyle
- author
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- Name
- Karen Osborn