Genetic diversity and phylogenetic analysis of Crimean-Congo Hemorrhagic Fever viruses circulating in Pakistan during 2019.

Being an endemic country for Crimean Congo hemorrhagic fever (CCHF), this study aimed to explore the genetic diversity of CCHF virus (CCHFV) detected in Pakistan during 2019. Serum samples from patients with clinical signs of hemorrhagic fever attending tertiary care hospitals in Pakistan were teste...

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Published in:PLOS Neglected Tropical Diseases
Main Authors: Massab Umair, Adnan Khurshid, Muhammad Masroor Alam, Ribqa Akhtar, Muhammad Salman, Aamer Ikram
Format: Article in Journal/Newspaper
Language:English
Published: Public Library of Science (PLoS) 2020
Subjects:
Online Access:https://doi.org/10.1371/journal.pntd.0008238
https://doaj.org/article/047766dfcb6f44e982c0afccb953647a
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spelling ftdoajarticles:oai:doaj.org/article:047766dfcb6f44e982c0afccb953647a 2023-05-15T15:08:52+02:00 Genetic diversity and phylogenetic analysis of Crimean-Congo Hemorrhagic Fever viruses circulating in Pakistan during 2019. Massab Umair Adnan Khurshid Muhammad Masroor Alam Ribqa Akhtar Muhammad Salman Aamer Ikram 2020-06-01T00:00:00Z https://doi.org/10.1371/journal.pntd.0008238 https://doaj.org/article/047766dfcb6f44e982c0afccb953647a EN eng Public Library of Science (PLoS) https://doi.org/10.1371/journal.pntd.0008238 https://doaj.org/toc/1935-2727 https://doaj.org/toc/1935-2735 1935-2727 1935-2735 doi:10.1371/journal.pntd.0008238 https://doaj.org/article/047766dfcb6f44e982c0afccb953647a PLoS Neglected Tropical Diseases, Vol 14, Iss 6, p e0008238 (2020) Arctic medicine. Tropical medicine RC955-962 Public aspects of medicine RA1-1270 article 2020 ftdoajarticles https://doi.org/10.1371/journal.pntd.0008238 2022-12-31T07:48:36Z Being an endemic country for Crimean Congo hemorrhagic fever (CCHF), this study aimed to explore the genetic diversity of CCHF virus (CCHFV) detected in Pakistan during 2019. Serum samples from patients with clinical signs of hemorrhagic fever attending tertiary care hospitals in Pakistan were tested for CCHFV RNA using real-time PCR at Department of Virology, National Institute of Health. The partial S-gene fragments were directly sequenced to determine the prevailing CCHFV genotypes and their molecular epidemiology in Pakistan. During January-December 2019, 280 samples from suspected CCHF patients were tested and 28 (10%) were found positive on real-time PCR. Positive cases were detected from 14 districts and across all four provinces of Pakistan with majority reported during August-September. The mean age of CCHFV positive patients was 37.25 years (range 5-65 years) with a high frequency in males (92.8%; n = 26) and a case fatality rate of 40.7% was observed. Phylogenetic analysis showed that S- segment of 2019 PAK CCHFV strains (n = 13) belonged to Asia-1 genotype and clustered with regional strains from Iran, Oman, and Afghanistan. We conclude that Asia-1 genotype of CCHF virus remains endemic in Pakistan. Our findings emphasize to establish a laboratory based surveillance program to monitor the disease burden and identify outbreak hotspots for effective control. Article in Journal/Newspaper Arctic Directory of Open Access Journals: DOAJ Articles Arctic PLOS Neglected Tropical Diseases 14 6 e0008238
institution Open Polar
collection Directory of Open Access Journals: DOAJ Articles
op_collection_id ftdoajarticles
language English
topic Arctic medicine. Tropical medicine
RC955-962
Public aspects of medicine
RA1-1270
spellingShingle Arctic medicine. Tropical medicine
RC955-962
Public aspects of medicine
RA1-1270
Massab Umair
Adnan Khurshid
Muhammad Masroor Alam
Ribqa Akhtar
Muhammad Salman
Aamer Ikram
Genetic diversity and phylogenetic analysis of Crimean-Congo Hemorrhagic Fever viruses circulating in Pakistan during 2019.
topic_facet Arctic medicine. Tropical medicine
RC955-962
Public aspects of medicine
RA1-1270
description Being an endemic country for Crimean Congo hemorrhagic fever (CCHF), this study aimed to explore the genetic diversity of CCHF virus (CCHFV) detected in Pakistan during 2019. Serum samples from patients with clinical signs of hemorrhagic fever attending tertiary care hospitals in Pakistan were tested for CCHFV RNA using real-time PCR at Department of Virology, National Institute of Health. The partial S-gene fragments were directly sequenced to determine the prevailing CCHFV genotypes and their molecular epidemiology in Pakistan. During January-December 2019, 280 samples from suspected CCHF patients were tested and 28 (10%) were found positive on real-time PCR. Positive cases were detected from 14 districts and across all four provinces of Pakistan with majority reported during August-September. The mean age of CCHFV positive patients was 37.25 years (range 5-65 years) with a high frequency in males (92.8%; n = 26) and a case fatality rate of 40.7% was observed. Phylogenetic analysis showed that S- segment of 2019 PAK CCHFV strains (n = 13) belonged to Asia-1 genotype and clustered with regional strains from Iran, Oman, and Afghanistan. We conclude that Asia-1 genotype of CCHF virus remains endemic in Pakistan. Our findings emphasize to establish a laboratory based surveillance program to monitor the disease burden and identify outbreak hotspots for effective control.
format Article in Journal/Newspaper
author Massab Umair
Adnan Khurshid
Muhammad Masroor Alam
Ribqa Akhtar
Muhammad Salman
Aamer Ikram
author_facet Massab Umair
Adnan Khurshid
Muhammad Masroor Alam
Ribqa Akhtar
Muhammad Salman
Aamer Ikram
author_sort Massab Umair
title Genetic diversity and phylogenetic analysis of Crimean-Congo Hemorrhagic Fever viruses circulating in Pakistan during 2019.
title_short Genetic diversity and phylogenetic analysis of Crimean-Congo Hemorrhagic Fever viruses circulating in Pakistan during 2019.
title_full Genetic diversity and phylogenetic analysis of Crimean-Congo Hemorrhagic Fever viruses circulating in Pakistan during 2019.
title_fullStr Genetic diversity and phylogenetic analysis of Crimean-Congo Hemorrhagic Fever viruses circulating in Pakistan during 2019.
title_full_unstemmed Genetic diversity and phylogenetic analysis of Crimean-Congo Hemorrhagic Fever viruses circulating in Pakistan during 2019.
title_sort genetic diversity and phylogenetic analysis of crimean-congo hemorrhagic fever viruses circulating in pakistan during 2019.
publisher Public Library of Science (PLoS)
publishDate 2020
url https://doi.org/10.1371/journal.pntd.0008238
https://doaj.org/article/047766dfcb6f44e982c0afccb953647a
geographic Arctic
geographic_facet Arctic
genre Arctic
genre_facet Arctic
op_source PLoS Neglected Tropical Diseases, Vol 14, Iss 6, p e0008238 (2020)
op_relation https://doi.org/10.1371/journal.pntd.0008238
https://doaj.org/toc/1935-2727
https://doaj.org/toc/1935-2735
1935-2727
1935-2735
doi:10.1371/journal.pntd.0008238
https://doaj.org/article/047766dfcb6f44e982c0afccb953647a
op_doi https://doi.org/10.1371/journal.pntd.0008238
container_title PLOS Neglected Tropical Diseases
container_volume 14
container_issue 6
container_start_page e0008238
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