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Identification and Molecular Characterization of Shamonda Virus in an Aborted Goat Fetus in South Africa

Viruses in the Orthobunyavirus genus, Peribunyaviridae family, are associated with encephalitis, birth defects and fatalities in animals, and some are zoonotic. Molecular diagnostic investigations of animals with neurological signs previously identified Shuni virus (SHUV) as the most significant ort...

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Autores principales: van der Walt, Miné, Rakaki, Matshepo E., MacIntyre, Caitlin, Mendes, Adriano, Junglen, Sandra, Theron, Cherise, Anthony, Tasneem, O’Dell, Nicolize, Venter, Marietjie
Formato: Online Artículo Texto
Lenguaje:English
Publicado: MDPI 2023
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10536486/
https://www.ncbi.nlm.nih.gov/pubmed/37764908
http://dx.doi.org/10.3390/pathogens12091100
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author van der Walt, Miné
Rakaki, Matshepo E.
MacIntyre, Caitlin
Mendes, Adriano
Junglen, Sandra
Theron, Cherise
Anthony, Tasneem
O’Dell, Nicolize
Venter, Marietjie
author_facet van der Walt, Miné
Rakaki, Matshepo E.
MacIntyre, Caitlin
Mendes, Adriano
Junglen, Sandra
Theron, Cherise
Anthony, Tasneem
O’Dell, Nicolize
Venter, Marietjie
author_sort van der Walt, Miné
collection PubMed
description Viruses in the Orthobunyavirus genus, Peribunyaviridae family, are associated with encephalitis, birth defects and fatalities in animals, and some are zoonotic. Molecular diagnostic investigations of animals with neurological signs previously identified Shuni virus (SHUV) as the most significant orthobunyavirus in South Africa (SA). To determine if other orthobunyaviruses occur in SA, we screened clinical specimens from animals with neurological signs, abortions, and acute deaths from across SA in 2021 using a small (S) segment Simbu serogroup specific TaqMan real-time reverse transcription polymerase chain reaction (RT-PCR). Positive cases were subjected to Sanger sequencing and phylogenetic analysis to identify specific viruses involved, followed by next-generation sequencing (NGS) and additional PCR assays targeting the medium (M) segment and the large (L) segment. In total, 3/172 (1.7%) animals were PCR positive for Simbu serogroup viruses, including two horses with neurological signs and one aborted goat fetus in 2021. Phylogenetic analyses confirmed that the two horses were infected with SHUV strains with nucleotide pairwise (p-) distances of 98.1% and 97.6% to previously identified strains, while the aborted goat fetus was infected with a virus closely related to Shamonda virus (SHAV) with nucleotide p-distances between 94.7% and 91.8%. Virus isolation was unsuccessful, likely due to low levels of infectious particles. However, phylogenetic analyses of a larger fragment of the S segment obtained through NGS and partial sequences of the M and L segments obtained through RT-PCR and Sanger sequencing confirmed that the virus is likely SHAV with nucleotide p-distances between 96.6% and 97.8%. This is the first detection of SHAV in an aborted animal in SA and suggests that SHAV should be considered in differential diagnosis for abortion in animals in Southern Africa.
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spelling pubmed-105364862023-09-29 Identification and Molecular Characterization of Shamonda Virus in an Aborted Goat Fetus in South Africa van der Walt, Miné Rakaki, Matshepo E. MacIntyre, Caitlin Mendes, Adriano Junglen, Sandra Theron, Cherise Anthony, Tasneem O’Dell, Nicolize Venter, Marietjie Pathogens Article Viruses in the Orthobunyavirus genus, Peribunyaviridae family, are associated with encephalitis, birth defects and fatalities in animals, and some are zoonotic. Molecular diagnostic investigations of animals with neurological signs previously identified Shuni virus (SHUV) as the most significant orthobunyavirus in South Africa (SA). To determine if other orthobunyaviruses occur in SA, we screened clinical specimens from animals with neurological signs, abortions, and acute deaths from across SA in 2021 using a small (S) segment Simbu serogroup specific TaqMan real-time reverse transcription polymerase chain reaction (RT-PCR). Positive cases were subjected to Sanger sequencing and phylogenetic analysis to identify specific viruses involved, followed by next-generation sequencing (NGS) and additional PCR assays targeting the medium (M) segment and the large (L) segment. In total, 3/172 (1.7%) animals were PCR positive for Simbu serogroup viruses, including two horses with neurological signs and one aborted goat fetus in 2021. Phylogenetic analyses confirmed that the two horses were infected with SHUV strains with nucleotide pairwise (p-) distances of 98.1% and 97.6% to previously identified strains, while the aborted goat fetus was infected with a virus closely related to Shamonda virus (SHAV) with nucleotide p-distances between 94.7% and 91.8%. Virus isolation was unsuccessful, likely due to low levels of infectious particles. However, phylogenetic analyses of a larger fragment of the S segment obtained through NGS and partial sequences of the M and L segments obtained through RT-PCR and Sanger sequencing confirmed that the virus is likely SHAV with nucleotide p-distances between 96.6% and 97.8%. This is the first detection of SHAV in an aborted animal in SA and suggests that SHAV should be considered in differential diagnosis for abortion in animals in Southern Africa. MDPI 2023-08-28 /pmc/articles/PMC10536486/ /pubmed/37764908 http://dx.doi.org/10.3390/pathogens12091100 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/).
spellingShingle Article
van der Walt, Miné
Rakaki, Matshepo E.
MacIntyre, Caitlin
Mendes, Adriano
Junglen, Sandra
Theron, Cherise
Anthony, Tasneem
O’Dell, Nicolize
Venter, Marietjie
Identification and Molecular Characterization of Shamonda Virus in an Aborted Goat Fetus in South Africa
title Identification and Molecular Characterization of Shamonda Virus in an Aborted Goat Fetus in South Africa
title_full Identification and Molecular Characterization of Shamonda Virus in an Aborted Goat Fetus in South Africa
title_fullStr Identification and Molecular Characterization of Shamonda Virus in an Aborted Goat Fetus in South Africa
title_full_unstemmed Identification and Molecular Characterization of Shamonda Virus in an Aborted Goat Fetus in South Africa
title_short Identification and Molecular Characterization of Shamonda Virus in an Aborted Goat Fetus in South Africa
title_sort identification and molecular characterization of shamonda virus in an aborted goat fetus in south africa
topic Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10536486/
https://www.ncbi.nlm.nih.gov/pubmed/37764908
http://dx.doi.org/10.3390/pathogens12091100
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