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A Metagenomics Approach to Enumerate Bacteriophages in a Food Niche

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Bacteriophages

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2738))

Abstract

Dairy fermentation relies on the activity of starter cultures composed primarily of lactic acid bacteria such as Lactococcus and Streptococcus thermophilus strains to produce consistent, high-quality products. Bacteriophages are a constant threat to the industry, often causing slowed or failed fermentation resulting in significant economic losses. To ensure the continuation of reliable fermentation practices, it is important to detect and monitor the phage populations impacting different starter cultures. This has traditionally been done primarily through culture-dependent methods but has since expanded into viral metagenomics. Here we outline a protocol for a targeted virome extraction from a dairy whey sample, followed by subsequent sequencing and phageome analysis of the sample.

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Author information

Authors and Affiliations

  1. School of Microbiology & APC Microbiome Ireland, University College Cork, Cork, Ireland

    Kelsey White, Jennifer Mahony & Douwe van Sinderen

  2. Sacco S.r.L, Cadorago, CO, Italy

    Giovanni Eraclio & Fabio Dal Bello

  3. Laboratory of Probiogenomics, Department of Chemistry, Life Sciences, and Environmental Sustainability, University of Parma, Parma, Italy

    Gabriele Andrea Lugli & Marco Ventura

Authors
  1. Kelsey White
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  2. Giovanni Eraclio
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  3. Gabriele Andrea Lugli
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  4. Marco Ventura
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  5. Jennifer Mahony
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  6. Fabio Dal Bello
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  7. Douwe van Sinderen
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Corresponding authors

Correspondence to Jennifer Mahony or Douwe van Sinderen .

Editor information

Editors and Affiliations

  1. School of Veterinary Medicine, Texas Tech University, Amarillo, TX, USA

    Ebenezer Tumban

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© 2024 The Author(s), under exclusive license to Springer Science+Business Media, LLC, part of Springer Nature

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White, K. et al. (2024). A Metagenomics Approach to Enumerate Bacteriophages in a Food Niche. In: Tumban, E. (eds) Bacteriophages. Methods in Molecular Biology, vol 2738. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-3549-0_12

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  • DOI: https://doi.org/10.1007/978-1-0716-3549-0_12

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-3548-3

  • Online ISBN: 978-1-0716-3549-0

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