DNA Extraction and Host Depletion Methods Significantly Impact and Potentially Bias Bacterial Detection in a Biological Fluid-Reference-Cited by-同舟云学术

DNA Extraction and Host Depletion Methods Significantly Impact and Potentially Bias Bacterial Detection in a Biological Fluid

Published:2021-06-29 Issue:3 Volume:6 Page:
ISSN:2379-5077
Container-title:mSystems
language:en
Short-container-title:mSystems

Author:

Ganda Erika¹²^ORCID,Beck Kristen L.²³^ORCID,Haiminen Niina²⁴^ORCID,Silverman Justin D.⁵⁶⁷^ORCID,Kawas Ban²³,Cronk Brittany D.⁸^ORCID,Anderson Renee R.⁸,Goodman Laura B.⁸^ORCID,Wiedmann Martin¹²^ORCID

Affiliation:

1. Department of Food Science, Cornell University, Ithaca, New York, USA

2. Consortium for Sequencing the Food Supply Chain, San Jose, California, USA

3. IBM Almaden Research Center, San Jose, California, USA

4. IBM T.J. Watson Research Center, Yorktown Heights, New York, USA

5. College of Information Sciences and Technology, Penn State University, University Park, Pennsylvania, USA

6. Department of Statistics, Penn State University, University Park, Pennsylvania, USA

7. Department of Medicine, Penn State College of Medicine, Hershey, Pennsylvania, USA

8. Department of Population Medicine and Diagnostic Sciences, College of Veterinary Medicine, Cornell University, Ithaca, New York, USA

Abstract

Tracking the bacterial communities present in our food has the potential to inform food safety and product origin. To do so, the entire genetic material present in a sample is extracted using chemical methods or commercially available kits and sequenced using next-generation platforms to provide a snapshot of the microbial composition.

Funder

New York State Dairy Promotion Advisory Board

Publisher

American Society for Microbiology

Subject

Computer Science Applications,Genetics,Molecular Biology,Modeling and Simulation,Ecology, Evolution, Behavior and Systematics,Biochemistry,Physiology,Microbiology

Link

https://journals.asm.org/doi/pdf/10.1128/mSystems.00619-21

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