Distinguishing Echinococcus granulosus sensu stricto genotypes G1 and G3 with confidence: A practical guide
Cystic echinococcosis (CE), a zoonotic disease caused by tapeworms of the species complex Echinococcus granulosus sensu lato, represents a substantial global health and economic burden. Within this complex, E. granulosus sensu stricto (genotypes G1 and G3) is the most frequent causative agent of hum...
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todo:paper_15671348_v64_n_p178_Kinkar2023-10-03T16:26:32Z Distinguishing Echinococcus granulosus sensu stricto genotypes G1 and G3 with confidence: A practical guide Kinkar, L. Laurimäe, T. Acosta-Jamett, G. Andresiuk, V. Balkaya, I. Casulli, A. Gasser, R.B. González, L.M. Haag, K.L. Zait, H. Irshadullah, M. Jabbar, A. Jenkins, D.J. Manfredi, M.T. Mirhendi, H. M'rad, S. Rostami-Nejad, M. Oudni-M'rad, M. Pierangeli, N.B. Ponce-Gordo, F. Rehbein, S. Sharbatkhori, M. Kia, E.B. Simsek, S. Soriano, S.V. Sprong, H. Šnábel, V. Umhang, G. Varcasia, A. Saarma, U. Cystic echinococcosis Echinococcus granulosus sensu stricto Genotype identification Mitochondrial markers The nad5 gene mitochondrial DNA Article controlled study cox1 gene DNA sequence Echinococcus granulosus Echinococcus granulosus genotype 1 Echinococcus granulosus genotype 3 genetic variation mitochondrial gene nad1 gene nad5 gene nonhuman priority journal Cystic echinococcosis (CE), a zoonotic disease caused by tapeworms of the species complex Echinococcus granulosus sensu lato, represents a substantial global health and economic burden. Within this complex, E. granulosus sensu stricto (genotypes G1 and G3) is the most frequent causative agent of human CE. Currently, there is no fully reliable method for assigning samples to genotypes G1 and G3, as the commonly used mitochondrial cox1 and nad1 genes are not sufficiently consistent for the identification and differentiation of these genotypes. Thus, a new genetic assay is required for the accurate assignment of G1 and G3. Here we use a large dataset of near-complete mtDNA sequences (n = 303) to reveal the extent of genetic variation of G1 and G3 on a broad geographical scale and to identify reliable informative positions for G1 and G3. Based on extensive sampling and sequencing data, we developed a new method, that is simple and cost-effective, to designate samples to genotypes G1 and G3. We found that the nad5 is the best gene in mtDNA to differentiate between G1 and G3, and developed new primers for the analysis. Our results also highlight problems related to the commonly used cox1 and nad1. To guarantee consistent identification of G1 and G3, we suggest using the sequencing of the nad5 gene region (680 bp). This region contains six informative positions within a relatively short fragment of the mtDNA, allowing the differentiation of G1 and G3 with confidence. Our method offers clear advantages over the previous ones, providing a significantly more consistent means to distinguish G1 and G3 than the commonly used cox1 and nad1. © 2018 Elsevier B.V. JOUR info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by/2.5/ar http://hdl.handle.net/20.500.12110/paper_15671348_v64_n_p178_Kinkar |
| institution |
Universidad de Buenos Aires |
| institution_str |
I-28 |
| repository_str |
R-134 |
| collection |
Biblioteca Digital - Facultad de Ciencias Exactas y Naturales (UBA) |
| topic |
Cystic echinococcosis Echinococcus granulosus sensu stricto Genotype identification Mitochondrial markers The nad5 gene mitochondrial DNA Article controlled study cox1 gene DNA sequence Echinococcus granulosus Echinococcus granulosus genotype 1 Echinococcus granulosus genotype 3 genetic variation mitochondrial gene nad1 gene nad5 gene nonhuman priority journal |
| spellingShingle |
Cystic echinococcosis Echinococcus granulosus sensu stricto Genotype identification Mitochondrial markers The nad5 gene mitochondrial DNA Article controlled study cox1 gene DNA sequence Echinococcus granulosus Echinococcus granulosus genotype 1 Echinococcus granulosus genotype 3 genetic variation mitochondrial gene nad1 gene nad5 gene nonhuman priority journal Kinkar, L. Laurimäe, T. Acosta-Jamett, G. Andresiuk, V. Balkaya, I. Casulli, A. Gasser, R.B. González, L.M. Haag, K.L. Zait, H. Irshadullah, M. Jabbar, A. Jenkins, D.J. Manfredi, M.T. Mirhendi, H. M'rad, S. Rostami-Nejad, M. Oudni-M'rad, M. Pierangeli, N.B. Ponce-Gordo, F. Rehbein, S. Sharbatkhori, M. Kia, E.B. Simsek, S. Soriano, S.V. Sprong, H. Šnábel, V. Umhang, G. Varcasia, A. Saarma, U. Distinguishing Echinococcus granulosus sensu stricto genotypes G1 and G3 with confidence: A practical guide |
| topic_facet |
Cystic echinococcosis Echinococcus granulosus sensu stricto Genotype identification Mitochondrial markers The nad5 gene mitochondrial DNA Article controlled study cox1 gene DNA sequence Echinococcus granulosus Echinococcus granulosus genotype 1 Echinococcus granulosus genotype 3 genetic variation mitochondrial gene nad1 gene nad5 gene nonhuman priority journal |
| description |
Cystic echinococcosis (CE), a zoonotic disease caused by tapeworms of the species complex Echinococcus granulosus sensu lato, represents a substantial global health and economic burden. Within this complex, E. granulosus sensu stricto (genotypes G1 and G3) is the most frequent causative agent of human CE. Currently, there is no fully reliable method for assigning samples to genotypes G1 and G3, as the commonly used mitochondrial cox1 and nad1 genes are not sufficiently consistent for the identification and differentiation of these genotypes. Thus, a new genetic assay is required for the accurate assignment of G1 and G3. Here we use a large dataset of near-complete mtDNA sequences (n = 303) to reveal the extent of genetic variation of G1 and G3 on a broad geographical scale and to identify reliable informative positions for G1 and G3. Based on extensive sampling and sequencing data, we developed a new method, that is simple and cost-effective, to designate samples to genotypes G1 and G3. We found that the nad5 is the best gene in mtDNA to differentiate between G1 and G3, and developed new primers for the analysis. Our results also highlight problems related to the commonly used cox1 and nad1. To guarantee consistent identification of G1 and G3, we suggest using the sequencing of the nad5 gene region (680 bp). This region contains six informative positions within a relatively short fragment of the mtDNA, allowing the differentiation of G1 and G3 with confidence. Our method offers clear advantages over the previous ones, providing a significantly more consistent means to distinguish G1 and G3 than the commonly used cox1 and nad1. © 2018 Elsevier B.V. |
| format |
JOUR |
| author |
Kinkar, L. Laurimäe, T. Acosta-Jamett, G. Andresiuk, V. Balkaya, I. Casulli, A. Gasser, R.B. González, L.M. Haag, K.L. Zait, H. Irshadullah, M. Jabbar, A. Jenkins, D.J. Manfredi, M.T. Mirhendi, H. M'rad, S. Rostami-Nejad, M. Oudni-M'rad, M. Pierangeli, N.B. Ponce-Gordo, F. Rehbein, S. Sharbatkhori, M. Kia, E.B. Simsek, S. Soriano, S.V. Sprong, H. Šnábel, V. Umhang, G. Varcasia, A. Saarma, U. |
| author_facet |
Kinkar, L. Laurimäe, T. Acosta-Jamett, G. Andresiuk, V. Balkaya, I. Casulli, A. Gasser, R.B. González, L.M. Haag, K.L. Zait, H. Irshadullah, M. Jabbar, A. Jenkins, D.J. Manfredi, M.T. Mirhendi, H. M'rad, S. Rostami-Nejad, M. Oudni-M'rad, M. Pierangeli, N.B. Ponce-Gordo, F. Rehbein, S. Sharbatkhori, M. Kia, E.B. Simsek, S. Soriano, S.V. Sprong, H. Šnábel, V. Umhang, G. Varcasia, A. Saarma, U. |
| author_sort |
Kinkar, L. |
| title |
Distinguishing Echinococcus granulosus sensu stricto genotypes G1 and G3 with confidence: A practical guide |
| title_short |
Distinguishing Echinococcus granulosus sensu stricto genotypes G1 and G3 with confidence: A practical guide |
| title_full |
Distinguishing Echinococcus granulosus sensu stricto genotypes G1 and G3 with confidence: A practical guide |
| title_fullStr |
Distinguishing Echinococcus granulosus sensu stricto genotypes G1 and G3 with confidence: A practical guide |
| title_full_unstemmed |
Distinguishing Echinococcus granulosus sensu stricto genotypes G1 and G3 with confidence: A practical guide |
| title_sort |
distinguishing echinococcus granulosus sensu stricto genotypes g1 and g3 with confidence: a practical guide |
| url |
http://hdl.handle.net/20.500.12110/paper_15671348_v64_n_p178_Kinkar |
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