{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,1,31]],"date-time":"2026-01-31T09:39:33Z","timestamp":1769852373800,"version":"3.49.0"},"reference-count":43,"publisher":"Public Library of Science (PLoS)","issue":"1","license":[{"start":{"date-parts":[[2026,1,30]],"date-time":"2026-01-30T00:00:00Z","timestamp":1769731200000},"content-version":"vor","delay-in-days":0,"URL":"http:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Faculty of Veterinary Science, Prince of Songkla University","award":["VET6704096S"],"award-info":[{"award-number":["VET6704096S"]}]}],"content-domain":{"domain":["www.plosone.org"],"crossmark-restriction":false},"short-container-title":["PLoS One"],"abstract":"<jats:p>\n                    Orf virus (ORFV), a member of the\n                    <jats:italic>Poxviridae<\/jats:italic>\n                    family, causes contagious ecthyma (CE), a viral skin disease in small ruminants. Due to its self-limiting nature, low mortality rate and economic consequences, CE is considered as a neglected disease, resulting in underreporting in Thailand. Despite its global presence, the genetic characterization of ORFV in Thailand, especially in the southern region where there is high density of goat farming, is largely unknown. To address the knowledge gap, we conducted genetic and evolutionary analysis including phylogenetic, BEAST, and discriminant analysis of principal components (DAPC), on ORFV isolated from Southern Thailand, utilizing conserved B2L gene (major envelope protein) and A32L gene (C-terminal ATPase protein). All suspected CE meat goats across 2 farms in Songkhla and Pattani provinces in 2024 tested ORFV positive via PCR using ORFV-specific primers. These isolates along with a positive control isolate (Pattani 2020) were used for molecular characterization and genetic analysis. The 2024 isolates clustered with Malaysian strains based on phylogenetic and population analysis. BEAST analysis of these isolates further indicated a shared evolutionary origin around 2007, suggesting transboundary spread. Although the 2024 isolates were highly related, some differentiation observed for both genes and they evolved separately from 2020 Pattani isolate suggesting ongoing local evolution and genetic variation in the regional population. Moreover, the Pattani 2020 isolate was phylogenetically distinct and revealed a distinct ancestral origin, suggesting a separate introduction event into the region. Notably, heterogeneity in C-terminal region of ATPase gene was observed, including 4 amino acid deletions in Songkhla 2024 and Pattani 2020 isolates, and unique substitutions (G258S and G260S) in Pattani 2024 which may cause a distinct cluster based on DAPC analysis. Collectively, our findings indicate diverse ORFV evolution in Southern Thailand, necessitating continued molecular surveillance and genetic characterization to improve national control strategies.\n                  <\/jats:p>","DOI":"10.1371\/journal.pone.0340195","type":"journal-article","created":{"date-parts":[[2026,1,30]],"date-time":"2026-01-30T18:27:06Z","timestamp":1769797626000},"page":"e0340195","update-policy":"https:\/\/doi.org\/10.1371\/journal.pone.corrections_policy","source":"Crossref","is-referenced-by-count":0,"title":["Molecular characterization and phylogenetic analysis of major envelope protein gene (B2L) and ATPase protein gene (A32L) of orf virus isolates from goats in Southern, Thailand"],"prefix":"10.1371","volume":"21","author":[{"given":"Wongkae","family":"Watjiranon","sequence":"first","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Chya","family":"Vannakovida","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Thanidtha","family":"Te-Chaniyom","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-8472-613X","authenticated-orcid":true,"given":"Natakorn","family":"Nokchan","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0009-0002-3734-2621","authenticated-orcid":true,"given":"Syriam","family":"Sooksawasdi Na Ayudhya","sequence":"additional","affiliation":[],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"340","published-online":{"date-parts":[[2026,1,30]]},"reference":[{"issue":"4","key":"pone.0340195.ref001","doi-asserted-by":"crossref","DOI":"10.1002\/rmv.1932","article-title":"Orf virus infection","volume":"27","author":"C Bergqvist","year":"2017","journal-title":"Rev Med Virol"},{"key":"pone.0340195.ref002","doi-asserted-by":"crossref","first-page":"178","DOI":"10.1016\/j.vetmic.2015.08.010","article-title":"Orf virus infection in sheep or goats","volume":"181","author":"V Spyrou","year":"2015","journal-title":"Vet Microbiol"},{"issue":"1","key":"pone.0340195.ref003","first-page":"37","article-title":"Investigation and analysis of a human orf outbreak among people living on the same farm","volume":"34","author":"Y Bayindir","year":"2011","journal-title":"New Microbiol"},{"key":"pone.0340195.ref004","first-page":"2233636","article-title":"A transmission chain from sheep to sheep and human of zoonotic orf virus during the mpox epidemic","author":"PhD Atiyyat B","year":"2023","journal-title":"Emerg Microbes Infect"},{"issue":"6","key":"pone.0340195.ref005","doi-asserted-by":"crossref","DOI":"10.1111\/pde.13259","article-title":"Extensive orf infection in a toddler with associated id reaction","volume":"34","author":"ES Haddock","year":"2017","journal-title":"Pediatr Dermatol"},{"key":"pone.0340195.ref006","doi-asserted-by":"crossref","first-page":"1560","DOI":"10.1099\/vir.0.018374-0","article-title":"The genome of pseudocowpoxvirus: comparison of a reindeer isolate and a reference strain","volume":"91","author":"M Hautaniemi","year":"2010","journal-title":"J Gen Virol"},{"key":"pone.0340195.ref007","doi-asserted-by":"crossref","first-page":"15","DOI":"10.1016\/j.meegid.2013.10.014","article-title":"Poxviruses and the evolution of host range and virulence","volume":"21","author":"SL Haller","year":"2014","journal-title":"Infect Genet Evol"},{"issue":"2","key":"pone.0340195.ref008","doi-asserted-by":"crossref","first-page":"86","DOI":"10.4102\/jsava.v73i2.564","article-title":"A severe case of contagious ecthyma in Tswana goats","volume":"73","author":"EK Baipoledi","year":"2002","journal-title":"J S Afr Vet Assoc"},{"issue":"4","key":"pone.0340195.ref009","first-page":"10","article-title":"Contagious pustular dermatitis (Orf Disease) \u2013 epidemiology, diagnosis, control and public health concerns","volume":"3","author":"R Kumar","year":"2015","journal-title":"Adv Anim Vet Sci"},{"key":"pone.0340195.ref010","doi-asserted-by":"crossref","first-page":"55","DOI":"10.1016\/j.micpath.2018.04.057","article-title":"The re-emerging of orf virus infection: A call for surveillance, vaccination and effective control measures","volume":"120","author":"JA Bala","year":"2018","journal-title":"Microb Pathog"},{"key":"pone.0340195.ref011","doi-asserted-by":"crossref","first-page":"44","DOI":"10.1016\/j.jviromet.2017.01.012","article-title":"Development of multiplex PCR for simultaneous detection and differentiation of six DNA and RNA viruses from clinical samples of sheep and goats","volume":"243","author":"Y-P He","year":"2017","journal-title":"J Virol Methods"},{"issue":"4","key":"pone.0340195.ref012","doi-asserted-by":"crossref","first-page":"255","DOI":"10.1007\/s13337-015-0278-4","article-title":"Isolation and phylogenetic analysis of caprine Orf virus in Malaysia","volume":"26","author":"AA Abdullah","year":"2015","journal-title":"Virusdisease"},{"issue":"5","key":"pone.0340195.ref013","doi-asserted-by":"crossref","first-page":"268","DOI":"10.1007\/s11250-022-03269-6","article-title":"Epidemiology, clinical features, and molecular detection of orf virus in Haryana (India) and its adjoining areas","volume":"54","author":"R Kumar","year":"2022","journal-title":"Trop Anim Health Prod"},{"key":"pone.0340195.ref014","first-page":"1135","article-title":"Genome analysis of orf virus isolates from goats in the Fujian Province of southern China","volume":"6","author":"X Chi","year":"2015","journal-title":"Front Microbiol"},{"issue":"2","key":"pone.0340195.ref015","doi-asserted-by":"crossref","first-page":"273","DOI":"10.5455\/OVJ.2022.v12.i2.16","article-title":"Molecular detection and characterization of Orf virus from goats in Egypt","volume":"12","author":"AA Shehata","year":"2022","journal-title":"Open Vet J"},{"key":"pone.0340195.ref016","doi-asserted-by":"crossref","first-page":"34","DOI":"10.1186\/s12985-016-0489-3","article-title":"Molecular characterization of orf virus from sheep and goats in Ethiopia, 2008-2013","volume":"13","author":"E Gelaye","year":"2016","journal-title":"Virol J"},{"key":"pone.0340195.ref017","doi-asserted-by":"crossref","first-page":"877149","DOI":"10.3389\/fmicb.2022.877149","article-title":"Genome-wide analysis and molecular characterization of Orf Virus strain UPM\/HSN-20 isolated from goat in Malaysia","volume":"13","author":"HK Mangga","year":"2022","journal-title":"Front Microbiol"},{"key":"pone.0340195.ref018","doi-asserted-by":"crossref","first-page":"104076","DOI":"10.1016\/j.meegid.2019.104076","article-title":"Identification of strain diversity and phylogenetic analysis based on two major essential proteins of Orf viruses isolated from several clinical cases reported in Malaysia","volume":"77","author":"JA Bala","year":"2020","journal-title":"Infect Genet Evol"},{"issue":"7","key":"pone.0340195.ref019","doi-asserted-by":"crossref","first-page":"1022","DOI":"10.14202\/vetworld.2019.1022-1027","article-title":"Molecular characterization of Orf virus isolates from Kodai hills, Tamil Nadu, India","volume":"12","author":"G Nagarajan","year":"2019","journal-title":"Vet World"},{"key":"pone.0340195.ref020","doi-asserted-by":"crossref","first-page":"109924","DOI":"10.1016\/j.virol.2023.109924","article-title":"Contagious ecthyma in Egypt: clinical, virological and molecular explorations","volume":"589","author":"SS Ewies","year":"2024","journal-title":"Virology"},{"issue":"7","key":"pone.0340195.ref021","doi-asserted-by":"crossref","first-page":"1571","DOI":"10.1007\/s00705-022-05443-5","article-title":"Recombination drives the emergence of orf virus diversity: evidence from the first complete genome sequence of an Indian orf virus isolate and comparative genomic analysis","volume":"167","author":"BP Sahu","year":"2022","journal-title":"Arch Virol"},{"issue":"2","key":"pone.0340195.ref022","first-page":"8","article-title":"Report of contagious ecthyma disease in goat and sheep found in Bangkok","volume":"19","author":"P Neramitmansook","year":"1985","journal-title":"Agricult Natural Res"},{"key":"pone.0340195.ref023","unstructured":"Sujit K, Nawawipapan T. Case report: Sore Mouth in Meat Goats, Wangpikul, Wangthong, Phitsanulok, December 2010 (In Thai). Newsletter of Veterinary Research and Development Center (Upper southern region). 2010."},{"issue":"1","key":"pone.0340195.ref024","article-title":"Pathologcal study of contagious echyma from skin lesion in naturally infected meat goats","volume":"72","author":"P Sripipattanakul","year":"2021","journal-title":"J Thai Veterinary Medical Association Under Royal Patronage"},{"key":"pone.0340195.ref025","doi-asserted-by":"crossref","first-page":"1389185","DOI":"10.3389\/fvets.2024.1389185","article-title":"Molecular detection and phylogenetic analysis of Orf viruses from goats in Jiangxi province, China","volume":"11","author":"Z Zhang","year":"2024","journal-title":"Front Vet Sci"},{"issue":"1","key":"pone.0340195.ref026","article-title":"Phylogenetic analysis reveals genetic characteristics of orf virus F1L and B2L genes in the Fujian province","volume":"86","author":"Y Lin","year":"2025","journal-title":"Am J Vet Res"},{"issue":"2","key":"pone.0340195.ref027","doi-asserted-by":"crossref","first-page":"107","DOI":"10.1023\/A:1026431704679","article-title":"Orf virus encodes a homolog of the vaccinia virus interferon-resistance gene E3L","volume":"17","author":"CJ McInnes","year":"1998","journal-title":"Virus Genes"},{"key":"pone.0340195.ref028","doi-asserted-by":"crossref","first-page":"44","DOI":"10.1016\/j.gene.2008.10.029","article-title":"Phylogenetic analysis of parapoxviruses and the C-terminal heterogeneity of viral ATPase proteins","volume":"432","author":"K-W Chan","year":"2009","journal-title":"Gene"},{"key":"pone.0340195.ref029","doi-asserted-by":"crossref","first-page":"199160","DOI":"10.1016\/j.virusres.2023.199160","article-title":"Genetic analysis of Orf virus (ORFV) strains isolated from goats in China: insights into epidemiological characteristics and evolutionary patterns","volume":"334","author":"S Li","year":"2023","journal-title":"Virus Res"},{"issue":"2","key":"pone.0340195.ref030","doi-asserted-by":"crossref","first-page":"968","DOI":"10.1006\/viro.1994.1420","article-title":"Identification and characterization of an orf virus homologue of the vaccinia virus gene encoding the major envelope antigen p37K","volume":"202","author":"JT Sullivan","year":"1994","journal-title":"Virology"},{"issue":"23","key":"pone.0340195.ref031","doi-asserted-by":"crossref","first-page":"11720","DOI":"10.1128\/JVI.75.23.11720-11734.2001","article-title":"Common origin of four diverse families of large eukaryotic DNA viruses","volume":"75","author":"LM Iyer","year":"2001","journal-title":"J Virol"},{"issue":"5305","key":"pone.0340195.ref032","doi-asserted-by":"crossref","first-page":"1489","DOI":"10.1126\/science.275.5305.1489","article-title":"Evidence for a family of archaeal ATPases","volume":"275","author":"EV Koonin","year":"1997","journal-title":"Science"},{"issue":"2","key":"pone.0340195.ref033","doi-asserted-by":"crossref","first-page":"210","DOI":"10.1016\/j.pep.2011.04.010","article-title":"Purification and functional motifs of the recombinant ATPase of orf virus","volume":"79","author":"F-Y Lin","year":"2011","journal-title":"Protein Expr Purif"},{"issue":"2","key":"pone.0340195.ref034","doi-asserted-by":"crossref","first-page":"380","DOI":"10.1016\/j.virol.2007.10.002","article-title":"Capripoxvirus tissue tropism and shedding: A quantitative study in experimentally infected sheep and goats","volume":"371","author":"TR Bowden","year":"2008","journal-title":"Virology"},{"key":"pone.0340195.ref035","first-page":"95","article-title":"BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95\/98\/NT","volume":"41","author":"TA Hall","year":"1999","journal-title":"Nucleic Acids Symposium Series"},{"issue":"7","key":"pone.0340195.ref036","doi-asserted-by":"crossref","first-page":"1870","DOI":"10.1093\/molbev\/msw054","article-title":"MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets","volume":"33","author":"S Kumar","year":"2016","journal-title":"Mol Biol Evol"},{"issue":"1","key":"pone.0340195.ref037","doi-asserted-by":"crossref","DOI":"10.1093\/ve\/vey016","article-title":"Bayesian phylogenetic and phylodynamic data integration using BEAST 1.10","volume":"4","author":"MA Suchard","year":"2018","journal-title":"Virus Evol"},{"issue":"11","key":"pone.0340195.ref038","doi-asserted-by":"crossref","first-page":"1403","DOI":"10.1093\/bioinformatics\/btn129","article-title":"adegenet: a R package for the multivariate analysis of genetic markers","volume":"24","author":"T Jombart","year":"2008","journal-title":"Bioinformatics"},{"key":"pone.0340195.ref039","unstructured":"Choe-ngern N, Tunak A, Chalamaat M, Bintavihok M. Case report: Orf virus in goats in Chonburi province. In: Proceeding of the 3rd Thailand-Japan Joint Conference on Animal Health. 2014."},{"key":"pone.0340195.ref040","doi-asserted-by":"crossref","first-page":"94","DOI":"10.1186\/1471-2156-11-94","article-title":"Discriminant analysis of principal components: a new method for the analysis of genetically structured populations","volume":"11","author":"T Jombart","year":"2010","journal-title":"BMC Genet"},{"issue":"6","key":"pone.0340195.ref041","doi-asserted-by":"crossref","DOI":"10.2144\/fsoa-2020-0162","article-title":"Molecular characterization and phylogenetic analysis of orf virus isolated from goats in Sokoto metropolis, Nigeria","volume":"7","author":"N Lawal","year":"2021","journal-title":"Future Sci OA"},{"issue":"7","key":"pone.0340195.ref042","doi-asserted-by":"crossref","first-page":"5769","DOI":"10.1128\/JVI.72.7.5769-5780.1998","article-title":"DNA packaging mutant: repression of the vaccinia virus A32 gene results in noninfectious, DNA-deficient, spherical, enveloped particles","volume":"72","author":"MC Cassetti","year":"1998","journal-title":"J Virol"},{"issue":"5","key":"pone.0340195.ref043","doi-asserted-by":"crossref","first-page":"1285","DOI":"10.1007\/s00705-018-3717-x","article-title":"Genetic diversity of Orf virus isolated from sheep in Uruguay","volume":"163","author":"N Olivero","year":"2018","journal-title":"Arch Virol"}],"container-title":["PLOS One"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pone.0340195","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2026,1,30]],"date-time":"2026-01-30T18:27:14Z","timestamp":1769797634000},"score":1,"resource":{"primary":{"URL":"https:\/\/dx.plos.org\/10.1371\/journal.pone.0340195"}},"subtitle":[],"editor":[{"given":"Phuping","family":"Sucharitakul","sequence":"first","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2026,1,30]]},"references-count":43,"journal-issue":{"issue":"1","published-online":{"date-parts":[[2026,1,30]]}},"URL":"https:\/\/doi.org\/10.1371\/journal.pone.0340195","relation":{},"ISSN":["1932-6203"],"issn-type":[{"value":"1932-6203","type":"electronic"}],"subject":[],"published":{"date-parts":[[2026,1,30]]}}}