Snapshot study of canine distemper virus in Bangladesh with on-site PCR detection and nanopore sequencing

Canine distemper virus (CDV) is a highly contagious virus that affects domestic and wild animals, causing severe illness with high mortality rates. Rapid monitoring and sequencing can provide valuable information about circulating CDV strains, which may foster effective vaccination strategies and th...

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Published in:Scientific reports Vol. 14; no. 1; pp. 9250 - 7
Main Authors: Lanszki, Zsófia, Islam, Md. Shafeul, Shikder, Md. Foisal, Sarder, Md. Jalal Uddin, Khan, Shahneaz Ali, Chowdhury, Sharmin, Islam, Md. Nurul, Tauber, Zsófia, Tóth, Gábor Endre, Jakab, Ferenc, Kemenesi, Gábor, Akter, Sazeda
Format: Journal Article
Language:English
Published: London Nature Publishing Group UK 22.04.2024
Nature Publishing Group
Nature Portfolio
Subjects:
631/326/596
692/699
692/699/255/2514
Animals
Bangladesh - epidemiology
Canine distemper
Distemper - epidemiology
Distemper - virology
Distemper Virus, Canine - classification
Distemper Virus, Canine - genetics
Distemper Virus, Canine - isolation & purification
Dogs
Domestic animals
Genetic diversity
Genome, Viral
Genomics
Genotype
Genotypes
Humanities and Social Sciences
multidisciplinary
Nanopore Sequencing - methods
Phylogenetics
Phylogeny
Polymerase chain reaction
Real-Time Polymerase Chain Reaction - methods
Risk assessment
RNA, Viral - genetics
Science
Science (multidisciplinary)
Strains (organisms)
Surveillance
Vaccination
Viruses
Bangladesh
India
ISSN:2045-2322, 2045-2322
Online Access:Get full text
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Summary:Canine distemper virus (CDV) is a highly contagious virus that affects domestic and wild animals, causing severe illness with high mortality rates. Rapid monitoring and sequencing can provide valuable information about circulating CDV strains, which may foster effective vaccination strategies and the successful integration of these into conservation programs. During two site visits in Bangladesh in 2023, we tested a mobile, deployable genomic surveillance setup to explore the genetic diversity and phylogenetic patterns of locally circulating CDV strains. We collected and analysed 355 oral swab samples from stray dogs in Rajshahi and Chattogram cities, Bangladesh. CDV-specific real-time RT-PCR was performed to screen the samples. Out of the 355 samples, 7.4% (10/135) from Rajshahi city and 0.9% (2/220) from Chattogram city tested positive for CDV. We applied a real-time RT-PCR assay and a pan-genotype CDV-specific amplicon-based Nanopore sequencing technology to obtain the near-completes. Five near-complete genome sequences were generated, with phylogenetic relation to the India-1/Asia-5 lineage previously identified in India. This is the first study to provide genomic data on CDV in Bangladesh and the first demonstration of a mobile laboratory setup as a powerful tool in rapid genomic surveillance and risk assessment for CDV in low resource regions.
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ISSN:2045-2322
2045-2322
DOI:10.1038/s41598-024-59343-6