Direct detection of canine picornavirus complete coding sequence in wastewater using long-range reverse-transcriptase polymerase chain reaction and long-read sequencing

Temitope O.C. Faleye; Erin M. Driver; Jillian M. Wright; Rolf U. Halden; Arvind Varsani; Matthew Scotch

doi:10.1016/j.meegid.2024.105550

Direct detection of canine picornavirus complete coding sequence in wastewater using long-range reverse-transcriptase polymerase chain reaction and long-read sequencing

Temitope O.C. Faleye, Erin M. Driver, Jillian M. Wright, Rolf U. Halden, Arvind Varsani, Matthew Scotch

Research output: Contribution to journal › Article › peer-review

Abstract

We describe four complete coding sequence (cCDS) of canine picornavirus from wastewater in Arizona, USA detected by coupling cCDS single-contig (∼7.5 kb) reverse-transcriptase polymerase chain reaction (RT-PCR) and low-cost long-read high-throughput sequencing. For viruses of medical/veterinary importance, this workflow expands possibilities of wastewater based genomic epidemiology for exploring virus evolutionary dynamics especially in low-resource settings.

Original language	English (US)
Article number	105550
Journal	Infection, Genetics and Evolution
Volume	118
DOIs	https://doi.org/10.1016/j.meegid.2024.105550
State	Published - Mar 2024

Keywords

Canine picornavirus
Long-range RT-PCR
Long-read sequencing
Picornaviridae
Wastewater-based epidemiology

ASJC Scopus subject areas

Microbiology
Ecology, Evolution, Behavior and Systematics
Molecular Biology
Genetics
Microbiology (medical)
Infectious Diseases

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10.1016/j.meegid.2024.105550

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Direct detection of canine picornavirus complete coding sequence in wastewater using long-range reverse-transcriptase polymerase chain reaction and long-read sequencing. / Faleye, Temitope O.C.; Driver, Erin M.; Wright, Jillian M. et al.
In: Infection, Genetics and Evolution, Vol. 118, 105550, 03.2024.

Research output: Contribution to journal › Article › peer-review

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title = "Direct detection of canine picornavirus complete coding sequence in wastewater using long-range reverse-transcriptase polymerase chain reaction and long-read sequencing",

abstract = "We describe four complete coding sequence (cCDS) of canine picornavirus from wastewater in Arizona, USA detected by coupling cCDS single-contig (∼7.5 kb) reverse-transcriptase polymerase chain reaction (RT-PCR) and low-cost long-read high-throughput sequencing. For viruses of medical/veterinary importance, this workflow expands possibilities of wastewater based genomic epidemiology for exploring virus evolutionary dynamics especially in low-resource settings.",

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AU - Wright, Jillian M.

AU - Halden, Rolf U.

AU - Varsani, Arvind

AU - Scotch, Matthew

PY - 2024/3

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N2 - We describe four complete coding sequence (cCDS) of canine picornavirus from wastewater in Arizona, USA detected by coupling cCDS single-contig (∼7.5 kb) reverse-transcriptase polymerase chain reaction (RT-PCR) and low-cost long-read high-throughput sequencing. For viruses of medical/veterinary importance, this workflow expands possibilities of wastewater based genomic epidemiology for exploring virus evolutionary dynamics especially in low-resource settings.

AB - We describe four complete coding sequence (cCDS) of canine picornavirus from wastewater in Arizona, USA detected by coupling cCDS single-contig (∼7.5 kb) reverse-transcriptase polymerase chain reaction (RT-PCR) and low-cost long-read high-throughput sequencing. For viruses of medical/veterinary importance, this workflow expands possibilities of wastewater based genomic epidemiology for exploring virus evolutionary dynamics especially in low-resource settings.

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KW - Long-range RT-PCR

KW - Long-read sequencing

KW - Picornaviridae

KW - Wastewater-based epidemiology

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Direct detection of canine picornavirus complete coding sequence in wastewater using long-range reverse-transcriptase polymerase chain reaction and long-read sequencing

Abstract

Keywords

ASJC Scopus subject areas

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