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Emerging Microbes & Infections Volume 11, 2022 - Issue 1
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Research Article

Detection of human, porcine and canine picornaviruses in municipal sewage sludge using pan-enterovirus amplicon-based long-read Illumina sequencing

Temitope O. C. Faleyea Biodesign Center for Environmental Health Engineering, Biodesign Institute, Arizona State University, Tempe, AZ, USAORCID Iconhttps://orcid.org/0000-0001-7706-9493View further author information
ORCID Icon,
Erin M. Drivera Biodesign Center for Environmental Health Engineering, Biodesign Institute, Arizona State University, Tempe, AZ, USAView further author information
,
Devin A. Bowesa Biodesign Center for Environmental Health Engineering, Biodesign Institute, Arizona State University, Tempe, AZ, USAView further author information
,
Rochelle H. Holmb Christina Lee Brown Environment Institute, University of Louisville, Louisville, KY, USAORCID Iconhttps://orcid.org/0000-0001-8849-1390View further author information
ORCID Icon,
Daymond Talleyc Louisville/Jefferson County Metropolitan Sewer District, Morris Forman Water Quality Treatment Center, Louisville, KY, USAView further author information
,
Ray Yeagerb Christina Lee Brown Environment Institute, University of Louisville, Louisville, KY, USAView further author information
,
Aruni Bhatnagarb Christina Lee Brown Environment Institute, University of Louisville, Louisville, KY, USAView further author information
,
Ted Smithb Christina Lee Brown Environment Institute, University of Louisville, Louisville, KY, USAORCID Iconhttps://orcid.org/0000-0003-2804-4294View further author information
ORCID Icon,
Arvind Varsanid Biodesign Center for Fundamental and Applied Microbiomics, Center for Evolution and Medicine, School of Life Sciences, Arizona State University, Tempe, AZUSAView further author information
,
Rolf U. Haldena Biodesign Center for Environmental Health Engineering, Biodesign Institute, Arizona State University, Tempe, AZ, USAView further author information
&
Matthew Scotcha Biodesign Center for Environmental Health Engineering, Biodesign Institute, Arizona State University, Tempe, AZ, USA;e College of Health Solutions, Arizona State University, Phoenix, AZ, USACorrespondence[email protected]
ORCID Iconhttps://orcid.org/0000-0001-5100-9724View further author information
ORCID Icon show all
Pages 1339-1342 | Received 26 Nov 2021, Accepted 24 Apr 2022, Published online: 23 May 2022

Figures & data

Figure 1. (A) Virus types detected in this study. S1-S9 refer to Samples 1-9. Numbers in bracket refer to the number of variants per virus type. (B) Schematic representation of the workflow used in this study, (C) EV genomic region amplified by Assays 1, 2 and 3, respectively (D) and CanPV genomic region recovered by long-read Illumina sequencing of amplicon from assay 3 and amplified by assay 4.

Figure 1. (A) Virus types detected in this study. S1-S9 refer to Samples 1-9. Numbers in bracket refer to the number of variants per virus type. (B) Schematic representation of the workflow used in this study, (C) EV genomic region amplified by Assays 1, 2 and 3, respectively (D) and CanPV genomic region recovered by long-read Illumina sequencing of amplicon from assay 3 and amplified by assay 4.
Supplemental material

Supplemental Material

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Data availability statement

Sequences generated from this study are available in NCBI GenBank under accession numbers OK554433 – OK554505 and OM782676.

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