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Analysis of nad2 and nad5 enables reliable identification of genotypes G6 and G7 within the species complex Echinococcus granulosus sensu lato

Teivi Laurimäe 1 Liina Kinkar 1 Thomas Romig 2 Gérald Umhang 3 Adriano Casulli 4, 5 Rihab Omer 6 Mitra Sharbatkhori 7 Hossein Mirhendi 8 Francisco Ponce-Gordo 9 Lorena Lazzarini 10 Silvia Soriano 10 Antonio Varcasia 11 Mohammad Rostami-Nejad 12 Vanesa Andresiuk 13 Pablo Maravilla 14 Luis Miguel González 15 Monika Dybicz 16 Jakub Gawor 17 Mindaugas Šarkūnas 18 Viliam Šnábel 19 Tetiana Kuzmina 20 Eshrat Beigom Kia 21 Urmas Saarma 22 
Abstract : The larval stages of tapeworms in the species complex Echinococcus granulosus sensu lato cause a zoonotic disease known as cystic echinococcosis (CE). Within this species complex, genotypes G6 and G7 are among the most common genotypes associated with human CE cases worldwide. However, our understanding of ecology, biology and epidemiology of G6 and G7 is still limited. An essential first step towards this goal is correct genotype identification, but distinguishing genotypes G6 and G7 has been challenging. A recent analysis based on complete mitogenome data revealed that the conventional sequencing of the cox1 (366 bp) gene fragment mistakenly classified a subset of G7 samples as G6. On the other hand, sequencing complete mitogenomes is not practical if only genotype or haplogroup identification is needed. Therefore, a simpler and less costly method is required to distinguish genotypes G6 and G7. We compared 93 complete mitogenomes of G6 and G7 from a wide geographical range and demonstrate that a combination of nad2 (714 bp) and nad5 (680 bp) gene fragments would be the best option to distinguish G6 and G7. Moreover, this method allows assignment of G7 samples into haplogroups G7a and G7b. However, due to very high genetic variability of G6 and G7, we suggest to construct a phylogenetic network based on the nad2 and nad5 sequences in order to be absolutely sure in genotype assignment. For this we provide a reference dataset of 93 concatenated nad2 and nad5 sequences (1394 bp in total) containing representatives of G6 and G7 (and haplogroups G7a and G7b), which can be used for the reconstruction of phylogenetic networks.
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Submitted on : Friday, July 23, 2021 - 2:04:41 PM
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Teivi Laurimäe, Liina Kinkar, Thomas Romig, Gérald Umhang, Adriano Casulli, et al.. Analysis of nad2 and nad5 enables reliable identification of genotypes G6 and G7 within the species complex Echinococcus granulosus sensu lato. Infection, Genetics and Evolution, Elsevier, 2019, 74, pp.103941. ⟨10.1016/j.meegid.2019.103941⟩. ⟨anses-03297752⟩



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