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Monitoring the microbiome for food safety and quality using deep shotgun sequencing

Food Science and Technology

Monitoring the microbiome for food safety and quality using deep shotgun sequencing

K. L. Beck, N. Haiminen, et al.

Discover how shifts in the food microbiome can reveal unexpected contaminants and environmental changes. This groundbreaking research by Kristen L. Beck and colleagues analyzed 31 high-protein powder samples, uncovering key microbial genera and their relationship with ingredient composition. Dive into how RNA sequencing can redefine our understanding of microbial communities.

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Playback language: English
Abstract
This work hypothesized that shifts in the food microbiome can indicate unexpected contaminants or environmental changes. Total RNA from 31 high-protein powder (HPP) samples was sequenced. A microbiome analysis pipeline with a eukaryotic matrix filtering step improved microbe detection specificity. The pipeline identified an average of 119 microbial genera per sample, with 65 genera present in all. *Bacteroides*, *Clostridium*, *Lactococcus*, *Aeromonas*, and *Citrobacter* were most abundant. Microbial community shifts corresponded to ingredient composition differences. *Salmonella* growth did not correlate with multiple sequence analyses, suggesting RNA sequencing characterizes microbial communities but further work is needed to predict species viability.
Publisher
npj Science of Food
Published On
Feb 08, 2021
Authors
Kristen L. Beck, Niina Haiminen, David Chambliss, Stefan Edlund, Mark Kunitomi, B. Carol Huang, Nguyet Kong, Balasubramanian Ganesan, Robert Baker, Peter Markwell, Ban Kawas, Matthew Davis, Robert J. Prill, Harsha Krishnareddy, Ed Seabolt, Carl H. Marlowe, Sophie Pierre, André Quintanar, Laxmi Parida, Geraud Dubois, James Kaufman, Bart C. Weimer
Tags
food microbiome
microbial analysis
high-protein powder
environmental changes
RNA sequencing
microbial genera
contaminants

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