MixviR: an R Package for Exploring Variation Associated with Genomic Sequence Data from Environmental SARS-CoV-2 and Other Mixed Microbial Samples-Reference-Cited by-同舟云学术

MixviR: an R Package for Exploring Variation Associated with Genomic Sequence Data from Environmental SARS-CoV-2 and Other Mixed Microbial Samples

Published:2022-11-22 Issue:22 Volume:88 Page:
ISSN:0099-2240
Container-title:Applied and Environmental Microbiology
language:en
Short-container-title:Appl Environ Microbiol

Author:

Sovic Michael G.¹^ORCID,Savona Francesca²,Bohrerova Zuzana³⁴,Faith Seth A.²⁵

Affiliation:

1. Center For Applied Plant Sciences, The Ohio State University, Columbus, Ohio, USA

2. Infectious Diseases Institute, The Ohio State University, Columbus, Ohio, USA

3. Department of Civil, Environmental and Geodetic Engineering, The Ohio State University, Columbus, Ohio, USA

4. Ohio Water Resources Center, The Ohio State University, Columbus, Ohio, USA

5. Center of Microbiome Science, The Ohio State University, Columbus, Ohio, USA

Abstract

High-throughput sequencing technologies hold great potential for contributing to genomic-based surveillance of microbial diversity from environmental samples. However, the size of the data sets, along with the potential for environmental samples to contain multiple evolutionary lineages of interest, present challenges around analyzing and effectively communicating inferences from these data sets.

Funder

Ohio Department of Health

Ohio Environmental Protection Agency

Publisher

American Society for Microbiology

Subject

Ecology,Applied Microbiology and Biotechnology,Food Science,Biotechnology

Link

https://journals.asm.org/doi/pdf/10.1128/aem.00874-22

Reference28 articles.

1. Survey on the Use of Whole-Genome Sequencing for Infectious Diseases Surveillance: Rapid Expansion of European National Capacities, 2015–2016

2. Pathogen Genomics in Public Health