Characterization of the FMDV-serotype-O isolates collected during 1962 and 1997 discloses new topotypes, CEY-1 and WCSA-1, and six new lineages

Abstract The genetic diversity of the FMD viruses collected from the outbreaks during the second half of the 20th Century in Sri Lanka was assessed in the present study. We sequenced the VP1 genomic region of the samples collected during FMDV epidemics caused by serotype O in Sri Lanka during 1962 a...

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Autores principales:	Lahiru Thilanka Ranaweera, Upendra Kumari Wijesundara, Hashan Sri-Madhubashana Jayarathne, Nick Knowles, Jemma Wadsworth, Valerie Mioulet, Jayantha Adikari, Cholani Weebadde, Suneth S. Sooriyapathirana
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2019
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/37d03746dade43f187f0f03963abec99
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spelling	oai:doaj.org-article:37d03746dade43f187f0f03963abec992021-12-02T15:09:20ZCharacterization of the FMDV-serotype-O isolates collected during 1962 and 1997 discloses new topotypes, CEY-1 and WCSA-1, and six new lineages10.1038/s41598-019-51120-02045-2322https://doaj.org/article/37d03746dade43f187f0f03963abec992019-10-01T00:00:00Zhttps://doi.org/10.1038/s41598-019-51120-0https://doaj.org/toc/2045-2322Abstract The genetic diversity of the FMD viruses collected from the outbreaks during the second half of the 20th Century in Sri Lanka was assessed in the present study. We sequenced the VP1 genomic region of the samples collected during FMDV epidemics caused by serotype O in Sri Lanka during 1962 and 1997. For comparison, we sequenced the VP1 of the related viral isolates collected from other Asian countries. We analyzed the VP1 sequences of the viral strains using the UPGMA method with uncorrected pairwise distances. Nucleotide divergence (ND) thresholds of 15%–20% and 5%–<15% were used to differentiate topotypes and lineages, respectively. We calibrated the divergence times and lineage-specific substitution rates using Bayesian-skyline models. Based on the ND estimations and phylogenetic relationships, we identified and named two new topotypes [CEYLON 1 (CEY-1) and WEST, CENTRAL AND SOUTH ASIA 1 (WCSA-1)] and six new lineages (Syr-62, Srl-77, Tur-69, May-78, Tai-87 and Bur-77) of serotype O. We believe that the novel topotypes and lineages named may have disappeared although they have similar substitution rates for epizootic outbreaks. Because the amino acid selection analysis revealed that the two topotypes and six lineages identified were under purifying selection during the outbreaks.Lahiru Thilanka RanaweeraUpendra Kumari WijesundaraHashan Sri-Madhubashana JayarathneNick KnowlesJemma WadsworthValerie MiouletJayantha AdikariCholani WeebaddeSuneth S. SooriyapathiranaNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 9, Iss 1, Pp 1-10 (2019)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Lahiru Thilanka Ranaweera Upendra Kumari Wijesundara Hashan Sri-Madhubashana Jayarathne Nick Knowles Jemma Wadsworth Valerie Mioulet Jayantha Adikari Cholani Weebadde Suneth S. Sooriyapathirana Characterization of the FMDV-serotype-O isolates collected during 1962 and 1997 discloses new topotypes, CEY-1 and WCSA-1, and six new lineages
description	Abstract The genetic diversity of the FMD viruses collected from the outbreaks during the second half of the 20th Century in Sri Lanka was assessed in the present study. We sequenced the VP1 genomic region of the samples collected during FMDV epidemics caused by serotype O in Sri Lanka during 1962 and 1997. For comparison, we sequenced the VP1 of the related viral isolates collected from other Asian countries. We analyzed the VP1 sequences of the viral strains using the UPGMA method with uncorrected pairwise distances. Nucleotide divergence (ND) thresholds of 15%–20% and 5%–<15% were used to differentiate topotypes and lineages, respectively. We calibrated the divergence times and lineage-specific substitution rates using Bayesian-skyline models. Based on the ND estimations and phylogenetic relationships, we identified and named two new topotypes [CEYLON 1 (CEY-1) and WEST, CENTRAL AND SOUTH ASIA 1 (WCSA-1)] and six new lineages (Syr-62, Srl-77, Tur-69, May-78, Tai-87 and Bur-77) of serotype O. We believe that the novel topotypes and lineages named may have disappeared although they have similar substitution rates for epizootic outbreaks. Because the amino acid selection analysis revealed that the two topotypes and six lineages identified were under purifying selection during the outbreaks.
format	article
author	Lahiru Thilanka Ranaweera Upendra Kumari Wijesundara Hashan Sri-Madhubashana Jayarathne Nick Knowles Jemma Wadsworth Valerie Mioulet Jayantha Adikari Cholani Weebadde Suneth S. Sooriyapathirana
author_facet	Lahiru Thilanka Ranaweera Upendra Kumari Wijesundara Hashan Sri-Madhubashana Jayarathne Nick Knowles Jemma Wadsworth Valerie Mioulet Jayantha Adikari Cholani Weebadde Suneth S. Sooriyapathirana
author_sort	Lahiru Thilanka Ranaweera
title	Characterization of the FMDV-serotype-O isolates collected during 1962 and 1997 discloses new topotypes, CEY-1 and WCSA-1, and six new lineages
title_short	Characterization of the FMDV-serotype-O isolates collected during 1962 and 1997 discloses new topotypes, CEY-1 and WCSA-1, and six new lineages
title_full	Characterization of the FMDV-serotype-O isolates collected during 1962 and 1997 discloses new topotypes, CEY-1 and WCSA-1, and six new lineages
title_fullStr	Characterization of the FMDV-serotype-O isolates collected during 1962 and 1997 discloses new topotypes, CEY-1 and WCSA-1, and six new lineages
title_full_unstemmed	Characterization of the FMDV-serotype-O isolates collected during 1962 and 1997 discloses new topotypes, CEY-1 and WCSA-1, and six new lineages
title_sort	characterization of the fmdv-serotype-o isolates collected during 1962 and 1997 discloses new topotypes, cey-1 and wcsa-1, and six new lineages
publisher	Nature Portfolio
publishDate	2019
url	https://doaj.org/article/37d03746dade43f187f0f03963abec99
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Characterization of the FMDV-serotype-O isolates collected during 1962 and 1997 discloses new topotypes, CEY-1 and WCSA-1, and six new lineages

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