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The present study was performed to differentiate the G1\/G3 genotypes of <jats:italic>Echinococcus granulosus<\/jats:italic> (s.s.) isolated from humans and livestock (sheep and cattle) from Azerbaijan in northwestern Iran, Fars Province in southern Iran, and Van province in Eastern Turkey, using the <jats:italic>nad5<\/jats:italic> gene fragment as a suitable marker to distinguish these two genotypes.<\/jats:p>\n              <\/jats:sec><jats:sec>\n                <jats:title>Methods<\/jats:title>\n                <jats:p>A total of 60 pathologically confirmed human hydatid cysts and 90 hydatid cyst samples from livestock were collected from Turkey and Iran. PCR was performed on all of the samples, targeting the <jats:italic>nad<\/jats:italic>5 gene. Based on PCR product quality, host type, and the geographical area where the samples were obtained, 36 of the samples were sequenced and were used in the phylogenetic analysis.<\/jats:p>\n              <\/jats:sec><jats:sec>\n                <jats:title>Results<\/jats:title>\n                <jats:p>Out of 36 evaluated samples, 26 (72.2%) samples belonged to G1, and 10 (27.8%) samples belonged to the G3 genotype. Out of 21 samples from Turkey, 16 (76.2%) were G1 and 5 (23.8%) were G3, while out of 15 samples from Iran, 10 (66.7%) were G1 and 5 (33.3%) were the G3 genotype. None of the samples isolated from humans in Iran or from sheep in Turkey were G3. Overall, between the two countries, 18.18% of <jats:italic>E. granulosus<\/jats:italic> isolates in cattle, 41.66% of isolates in sheep, and 23.07% of human samples were identified as G3, and the others as the G1 genotype. The G3 genotype was not detected in human samples from Iran or sheep samples from Turkey.<\/jats:p>\n              <\/jats:sec><jats:sec>\n                <jats:title>Conclusion<\/jats:title>\n                <jats:p>The findings of the study revealed that the G1 genotype of <jats:italic>E. granulosus<\/jats:italic> s.s. is the predominant genotype in humans and livestock, both in Turkey and Iran. The ratio of the <jats:italic>E. granulosus<\/jats:italic> s.s. G1 to G3 genotype was 3.2 in Turkey and 2 in Iran. The study also further confirmed that the <jats:italic>nad<\/jats:italic>5 gene properly differentiated the G1\/G3 isolates of <jats:italic>E. granulosus<\/jats:italic> from both humans and livestock.<\/jats:p>\n              <\/jats:sec><jats:sec>\n                <jats:title>Graphical Abstract<\/jats:title>\n                \n              <\/jats:sec>","DOI":"10.1186\/s13071-021-04869-1","type":"journal-article","created":{"date-parts":[[2021,7,20]],"date-time":"2021-07-20T09:02:59Z","timestamp":1626771779000},"update-policy":"https:\/\/doi.org\/10.1007\/springer_crossmark_policy","source":"Crossref","is-referenced-by-count":15,"title":["Echinococcus granulosus sensu stricto G1 is the predominant genotype in human and livestock isolates from Turkey and Iran, based on mitochondrial nad5 gene differentiation"],"prefix":"10.1186","volume":"14","author":[{"ORCID":"https:\/\/orcid.org\/0000-0002-2768-1497","authenticated-orcid":false,"given":"Saeed","family":"Shahabi","sequence":"first","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2045-9057","authenticated-orcid":false,"given":"Bahador","family":"Sarkari","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Afshin","family":"Barazesh","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"297","published-online":{"date-parts":[[2021,7,20]]},"reference":[{"key":"4869_CR1","doi-asserted-by":"publisher","first-page":"315","DOI":"10.1016\/bs.apar.2016.11.001","volume":"95","author":"P Deplazes","year":"2017","unstructured":"Deplazes P, Rinaldi L, Alvarez Rojas CA, Torgerson PR, Harandi MF, Romig T, et al. 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