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Related Concept Videos

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Related Experiment Video

Updated: Dec 30, 2025

Quantitative Polymerase Chain Reaction-based Analyses of Murine Intestinal Microbiota After Oral Antibiotic Treatment
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Quantitative PCR provides a simple and accessible method for quantitative microbiota profiling.

Ching Jian1, Panu Luukkonen2,3, Hannele Yki-Järvinen2,3

  • 1Human Microbiome Research Program, Faculty of Medicine, University of Helsinki, Helsinki, Finland.

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|January 16, 2020
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Summary
This summary is machine-generated.

Next-generation sequencing (NGS) data can misinterpret microbial communities. Quantitative PCR (qPCR) with NGS provides accurate absolute abundances, solving compositionality issues in microbiome research.

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Area of Science:

  • Microbiology
  • Bioinformatics
  • Genomics

Background:

  • Microbial community structure analysis using relative abundance data from next-generation sequencing (NGS) is prone to misinterpretation due to the inherent compositionality of such data.
  • While methods exist to address the compositionality problem and absolute bacterial abundances are biologically relevant, human microbiome research has been slow to adopt them, often citing feasibility concerns.

Purpose of the Study:

  • To present a feasible method for obtaining absolute microbial taxon abundances from NGS data.
  • To address the compositionality issue in high-throughput microbiome analyses.

Main Methods:

  • Quantitative PCR (qPCR) was performed in parallel with NGS library preparation.
  • NGS data was analyzed using qPCR results to estimate absolute taxon abundances.

Main Results:

  • The combined qPCR and NGS approach provides accurate estimations of absolute taxon abundances.
  • This method offers a practical solution to the compositionality problem in microbiome studies.

Conclusions:

  • Quantitative PCR (qPCR) combined with next-generation sequencing (NGS) offers an attainable solution for accurate absolute microbial abundance estimation.
  • This approach enhances the reliability of high-throughput microbiome analyses by overcoming data compositionality challenges.