Estimating protistan diversity using high-throughput sequenc

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TitleEstimating protistan diversity using high-throughput sequencingAbstractSequencing hypervariable regions from the 18S rRNA gene is commonly employed to characterize protistan biodiversity, yet there are concerns that short reads do not provide the same taxonomic resolution as full-length sequences. A total of 7,432 full-length sequences were used to perform an in silico analysis of how sequences of various lengths and target regions impact downstream ecological interpretations. Sequences that were longer than 400 nucleotides and included the V4 hypervariable region generated results similar to those derived from full-length 18S rRNA gene sequences. Present high-throughput sequencing capabilities are approaching protistan diversity estimation comparable to whole gene sequences. Â© 2015 The Author(s) Journal of Eukaryotic Microbiology Â© 2015 International Society of Protistologists.

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1st AuthorHu, S. AuthorHu, S.Liu, Z.Lie, A.Countway, P.Kim, D.Jones, A.Gast, R.Cary, S.Sherr, E.Sherr, B.Caron, D.Year2015JournalJournal of Eukaryotic MicrobiologyVolume62Number5Pages688-693DOI10.1111/jeu.12217URLhttps://www.scopus.com/inward/recor.....2285cdab14412ff9b896fcce5PublisherBlackwell Publishing Inc.Keywordsbiodiversitybiogeographyeukaryotegenetic variationmicrobiologymolecular analysisprotistRNAspecies diversitytaxonomy, EukaryotaProtista, RNA 18S, DNA sequenceeukaryotegenetic variationgeneticshigh throughput sequencingmolecular geneticsphylogenyRNA gene, EukaryotaGenes, rRNAGenetic VariationHigh-Throughput Nucleotide SequencingMolecular Sequence DataPhylogenyRNA, Ribosomal, 18SSequence Analysis, DNAAuthor Keywords18S rRNA genebiogeographymicrobial eukaryotesprotistsV4 tag sequencingProgrammeK020 - Assessing and validating Biometrics for change: Eco forecasting for Terrestrial Antarctica

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CitationHu, S., Liu, Z., Lie, A., Countway, P., Kim, D., Jones, A., Gast, R., Cary, S., Sherr, E., Sherr, B. and Caron, D. (2015). Estimating protistan diversity using high-throughput sequencing. Journal of Eukaryotic Microbiology, 62(5):688-693

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Author

Cary, S.

Programme

K020 - Assessing and validating Biometrics for change: Eco forecasting for Terrestrial Antarctica