Quality-filtering Vastly Improves Diversity Estimates from Illumina Amplicon Sequencing

Overview

Journal Nat Methods

Specialties Biomedical Engineering
Pathology

Date 2012 Dec 4

PMID 23202435

Citations 1620

Authors

Nicholas A Bokulich

Sathish Subramanian

Jeremiah J Faith

Dirk Gevers

Jeffrey I Gordon

Rob Knight

David A Mills

J Gregory Caporaso

Affiliations

Soon will be listed here.

Abstract

High-throughput sequencing has revolutionized microbial ecology, but read quality remains a considerable barrier to accurate taxonomy assignment and α-diversity assessment for microbial communities. We demonstrate that high-quality read length and abundance are the primary factors differentiating correct from erroneous reads produced by Illumina GAIIx, HiSeq and MiSeq instruments. We present guidelines for user-defined quality-filtering strategies, enabling efficient extraction of high-quality data and facilitating interpretation of Illumina sequencing results.

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