Metagenomics of meat and poultry

Margaret D. Weinroth, Noelle R. Noyes, Paul M. Morley, Keith E. Belk

Research output: Chapter in Book/Report/Conference proceedingChapter

1 Scopus citations


This chapter focuses on the understanding and application of metagenomics as it applies to meat and poultry research. Key concepts for understanding metagenomics include how to conduct a metagenomic study from experimental design to analysis, the difference between shotgun metagenomics and 16S rRNA amplicon studies, and data visualization. Special consideration is also given to discussions on rarefaction and normalizing data. Application of metagenomics in meat and poultry production from both a food safety and a food quality standpoint is discussed in relation to the current body of work published and possible future directions. Meat and poultry food safety is framed around reduction and detection of pathogens, while food quality includes shelf life and packaging differences. The conditions in which animals are reared and the processing environments they are harvested in are considered in the context of impact on end food quality and safety. Additionally, the public heath and regulatory implications of using shotgun metagenomics as a tool for pathogen detection and reduction are addressed.

Original languageEnglish (US)
Title of host publicationFood Microbiology
Subtitle of host publicationFundamentals and Frontiers
Number of pages24
ISBN (Electronic)9781683670476
ISBN (Print)9781555819965
StatePublished - Jan 1 2019

Bibliographical note

Publisher Copyright:
© 2019 ASM Press, Washington, DC.


  • Food quality
  • Food safety
  • Meat production
  • Metagenomics
  • Poultry production


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