Sensitivity and breadth of detection of high-throughput sequencing for adventitious virus detection.

NPJ Vaccines
Robert L CharleboisSiemon H S Ng

Abstract

High-throughput sequencing (HTS) is capable of broad virus detection encompassing both known and unknown adventitious viruses in a variety of sample matrices. We describe the development of a general-purpose HTS-based method for the detection of adventitious viruses. Performance was evaluated using 16 viruses equivalent to well-characterized National Institutes of Health (NIH) virus stocks and another six viruses of interest. A viral vaccine crude harvest and a cell substrate matrix were spiked with 22 viruses. Specificity was demonstrated for all 22 viruses at the species level. Our method was capable of detecting and identifying adventitious viruses spiked at 104 genome copies per milliliter in a viral vaccine crude harvest and 0.01 viral genome copies spiked per cell in a cell substrate matrix. Moreover, 9 of the 11 NIH model viruses with published in vivo data were detected by HTS with an equivalent or better sensitivity (in a viral vaccine crude harvest). Our general-purpose HTS method is unbiased and highly sensitive for the detection of adventitious viruses, and has a large breadth of detection, which may obviate the need to perform in vivo testing.

References

Oct 30, 2004·American Journal of Public Health·Peter I FolbOmala Wimalaratne
Jan 3, 2006·Transplantation Proceedings·G MachnikJ Pacha
Mar 29, 2014·Journal of Virology·Hailun MaArifa S Khan
Aug 20, 2014·Biologicals : Journal of the International Association of Biological Standardization·John PetriccianiIvana Knezevic
Dec 6, 2014·PDA Journal of Pharmaceutical Science and Technology·Laurent Mallet, Lucy Gisonni-Lex
Dec 6, 2014·PDA Journal of Pharmaceutical Science and Technology·Siemon H S NgLucy Gisonni-Lex
Dec 6, 2014·PDA Journal of Pharmaceutical Science and Technology·Robert L CharleboisLaurent Mallet
Dec 6, 2014·PDA Journal of Pharmaceutical Science and Technology·Eric CabannesMarc Eloit
Sep 7, 2016·PDA Journal of Pharmaceutical Science and Technology·Arifa S KhanKathryn E King
Aug 11, 2018·Biologicals : Journal of the International Association of Biological Standardization·Arifa S KhanGuanhua Wang
Apr 18, 2019·Biologicals : Journal of the International Association of Biological Standardization·Audrey BrusselMarc Eloit
Apr 29, 2020·Nature Biotechnology·Paul W BaroneStacy L Springs

❮ Previous
Next ❯

Methods Mentioned

BETA
PCRs
nucleic acid extraction
nucleic
PCR

Software Mentioned

Illumina Bcl2Fastq2
PhyloID

Related Concepts

Trending Feeds

COVID-19

Coronaviruses encompass a large family of viruses that cause the common cold as well as more serious diseases, such as the ongoing outbreak of coronavirus disease 2019 (COVID-19; formally known as 2019-nCoV). Coronaviruses can spread from animals to humans; symptoms include fever, cough, shortness of breath, and breathing difficulties; in more severe cases, infection can lead to death. This feed covers recent research on COVID-19.

Blastomycosis

Blastomycosis fungal infections spread through inhaling Blastomyces dermatitidis spores. Discover the latest research on blastomycosis fungal infections here.

Nuclear Pore Complex in ALS/FTD

Alterations in nucleocytoplasmic transport, controlled by the nuclear pore complex, may be involved in the pathomechanism underlying multiple neurodegenerative diseases including Amyotrophic Lateral Sclerosis and Frontotemporal Dementia. Here is the latest research on the nuclear pore complex in ALS and FTD.

Applications of Molecular Barcoding

The concept of molecular barcoding is that each original DNA or RNA molecule is attached to a unique sequence barcode. Sequence reads having different barcodes represent different original molecules, while sequence reads having the same barcode are results of PCR duplication from one original molecule. Discover the latest research on molecular barcoding here.

Chronic Fatigue Syndrome

Chronic fatigue syndrome is a disease characterized by unexplained disabling fatigue; the pathology of which is incompletely understood. Discover the latest research on chronic fatigue syndrome here.

Evolution of Pluripotency

Pluripotency refers to the ability of a cell to develop into three primary germ cell layers of the embryo. This feed focuses on the mechanisms that underlie the evolution of pluripotency. Here is the latest research.

Position Effect Variegation

Position Effect Variagation occurs when a gene is inactivated due to its positioning near heterochromatic regions within a chromosome. Discover the latest research on Position Effect Variagation here.

STING Receptor Agonists

Stimulator of IFN genes (STING) are a group of transmembrane proteins that are involved in the induction of type I interferon that is important in the innate immune response. The stimulation of STING has been an active area of research in the treatment of cancer and infectious diseases. Here is the latest research on STING receptor agonists.

Microbicide

Microbicides are products that can be applied to vaginal or rectal mucosal surfaces with the goal of preventing, or at least significantly reducing, the transmission of sexually transmitted infections. Here is the latest research on microbicides.

Related Papers

Progress in Medical Virology. Fortschritte Der Medizinischen Virusforschung. Progrès En Virologie Médicale
K O Smith
Emerging Infectious Diseases
Claude Chastel
© 2021 Meta ULC. All rights reserved