Erratum for Crossette et al., “Metagenomic Quantification of Genes with Internal Standards”

ORIGINAL TEXT Incorporating internal standard spike-ins, as commonly used in analytical chemistry, can establish a ratio of metagenomic read abundance to gene copy concentration. Internal standard protocols were first applied to sequencing methods in transcriptomic experiments (RNA-seq) to quantify gene expression, identify protocol-dependent biases, and compare method sensitivity and reproducibility (17). Since then, protocols have been developed for 16S rRNA gene-amplicon (18) metagenome (19), and metatranscriptome (16) sequencing. Previous quantitative metagenomic spike-in studies have performed metagenome assemblies and then mapped short metagenomic reads to the assembled contigs (20). Such assembly-dependent methods are time-intensive and can fail to assemble genomes that harbor ARGs, particularly those of viruses (21) or plasmids and within genomic islands (22, 23), thus increasing false-negative detection rates. Additionally, assemblies can introduce bias toward highly abundant organisms, which are more likely to be assembled correctly (24).

• Publication year

  2021

• Venue

  mBio

• Publication date

  2021-06-01

• Fields of study

  Biology, Medicine, Chemistry

• Identifiers
  DOI 10.1128/mBio.01174-21PMID 34061600PMCID 8262908
• External record

  Open on Semantic Scholar

• Source metadata

  Semantic Scholar, PubMed

• No claims are published for this paper.

• No concepts are published for this paper.

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