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MAUI-seq: Metabarcoding using amplicons with unique molecular identifiers to improve error correction

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MAUI-seq: Metabarcoding using amplicons with unique molecular identifiers to improve error correction. / Fields, Bryden; Moeskjaer, Sara; Friman, Ville-Petri; Andersen, Stig U; Young, J Peter W.

I: Molecular Ecology Resources, Bind 21, Nr. 3, 04.2021, s. 703-720.

Publikation: Bidrag til tidsskrift/Konferencebidrag i tidsskrift /Bidrag til avisTidsskriftartikelForskningpeer review

Harvard

Fields, B, Moeskjaer, S, Friman, V-P, Andersen, SU & Young, JPW 2021, 'MAUI-seq: Metabarcoding using amplicons with unique molecular identifiers to improve error correction', Molecular Ecology Resources, bind 21, nr. 3, s. 703-720. https://doi.org/10.1111/1755-0998.13294

APA

Fields, B., Moeskjaer, S., Friman, V-P., Andersen, S. U., & Young, J. P. W. (2021). MAUI-seq: Metabarcoding using amplicons with unique molecular identifiers to improve error correction. Molecular Ecology Resources, 21(3), 703-720. https://doi.org/10.1111/1755-0998.13294

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MLA

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Author

Fields, Bryden ; Moeskjaer, Sara ; Friman, Ville-Petri ; Andersen, Stig U ; Young, J Peter W. / MAUI-seq: Metabarcoding using amplicons with unique molecular identifiers to improve error correction. I: Molecular Ecology Resources. 2021 ; Bind 21, Nr. 3. s. 703-720.

Bibtex

@article{618ddcefb0db4fc08d57626713500673,
title = "MAUI-seq: Metabarcoding using amplicons with unique molecular identifiers to improve error correction",
abstract = "BACKGROUND: Sequencing and PCR errors are a major challenge when characterising genetic diversity using high-throughput amplicon sequencing (HTAS).RESULTS: We have developed a multiplexed HTAS method, MAUI-seq, which uses unique molecular identifiers (UMIs) to improve error correction by exploiting variation among sequences associated with a single UMI. Erroneous sequences are recognised because, across the data set, they are overrepresented among the minor sequences associated with UMIs. We show that two main advantages of this approach are efficient elimination of chimeric and other erroneous reads, outperforming DADA2 and UNOISE3, and the ability to confidently recognise genuine alleles that are present at low abundance or resemble chimeras.CONCLUSIONS: The method provides sensitive and flexible profiling of diversity and is readily adaptable to most HTAS applications, including microbial 16S rRNA profiling and metabarcoding of environmental DNA.",
keywords = "amplicon sequence variant, chimeric amplicons, error correction, high-throughput amplicon sequencing, metabarcoding",
author = "Bryden Fields and Sara Moeskjaer and Ville-Petri Friman and Andersen, {Stig U} and Young, {J Peter W}",
note = "This article is protected by copyright. All rights reserved.",
year = "2021",
month = apr,
doi = "10.1111/1755-0998.13294",
language = "English",
volume = "21",
pages = "703--720",
journal = "Molecular Ecology Resources",
issn = "1755-098X",
publisher = "Wiley-Blackwell Publishing Ltd.",
number = "3",

}

RIS

TY - JOUR

T1 - MAUI-seq: Metabarcoding using amplicons with unique molecular identifiers to improve error correction

AU - Fields, Bryden

AU - Moeskjaer, Sara

AU - Friman, Ville-Petri

AU - Andersen, Stig U

AU - Young, J Peter W

N1 - This article is protected by copyright. All rights reserved.

PY - 2021/4

Y1 - 2021/4

N2 - BACKGROUND: Sequencing and PCR errors are a major challenge when characterising genetic diversity using high-throughput amplicon sequencing (HTAS).RESULTS: We have developed a multiplexed HTAS method, MAUI-seq, which uses unique molecular identifiers (UMIs) to improve error correction by exploiting variation among sequences associated with a single UMI. Erroneous sequences are recognised because, across the data set, they are overrepresented among the minor sequences associated with UMIs. We show that two main advantages of this approach are efficient elimination of chimeric and other erroneous reads, outperforming DADA2 and UNOISE3, and the ability to confidently recognise genuine alleles that are present at low abundance or resemble chimeras.CONCLUSIONS: The method provides sensitive and flexible profiling of diversity and is readily adaptable to most HTAS applications, including microbial 16S rRNA profiling and metabarcoding of environmental DNA.

AB - BACKGROUND: Sequencing and PCR errors are a major challenge when characterising genetic diversity using high-throughput amplicon sequencing (HTAS).RESULTS: We have developed a multiplexed HTAS method, MAUI-seq, which uses unique molecular identifiers (UMIs) to improve error correction by exploiting variation among sequences associated with a single UMI. Erroneous sequences are recognised because, across the data set, they are overrepresented among the minor sequences associated with UMIs. We show that two main advantages of this approach are efficient elimination of chimeric and other erroneous reads, outperforming DADA2 and UNOISE3, and the ability to confidently recognise genuine alleles that are present at low abundance or resemble chimeras.CONCLUSIONS: The method provides sensitive and flexible profiling of diversity and is readily adaptable to most HTAS applications, including microbial 16S rRNA profiling and metabarcoding of environmental DNA.

KW - amplicon sequence variant

KW - chimeric amplicons

KW - error correction

KW - high-throughput amplicon sequencing

KW - metabarcoding

UR - http://www.scopus.com/inward/record.url?scp=85096861494&partnerID=8YFLogxK

U2 - 10.1111/1755-0998.13294

DO - 10.1111/1755-0998.13294

M3 - Journal article

C2 - 33171018

VL - 21

SP - 703

EP - 720

JO - Molecular Ecology Resources

JF - Molecular Ecology Resources

SN - 1755-098X

IS - 3

ER -