In-silico analysis of mt-CO1 gene of Taenia hydatigena sheep isolates
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Feb 10, 2021
About this article
Article Category: Research Article
Published Online: Feb 10, 2021
Page range: 59 - 67
Received: Apr 22, 2020
Accepted: Oct 09, 2020
DOI: https://doi.org/10.2478/helm-2021-0007
Keywords
© 2021 F. Celik, S. Gunyakti Kilinc, H. Kaya Kesik, H. Ahmed, S. Simsek, published by Sciendo
This work is licensed under the Creative Commons Attribution-NonCommercial-NoDerivatives 4.0 International License.
Fig. 1
Fig. 2
Grouping haplotypes of Cysticercus tenuicollis mt-CO1 sequences and accession numbers of isolates forming groups_
| Haplotype name | No of isolates | Accession Numbers |
|---|---|---|
| Hap01 | 21 | KM032303-Palestine, KM032302-Palestine, KM032300-Palestine, |
| Hap02 | 2 | JQ710627-Iran, JQ710594-Iran |
| Hap03 | 1 | JQ710626-Iran |
| Hap04 | 1 | JQ710625-Iran |
| Hap05 | 1 | JQ710624-Iran |
| Hap06 | 1 | JQ710623-Iran |
| Hap07 | 1 | JQ710622-Iran |
| Hap08 | 1 | JQ710621-Iran |
| Hap09 | 1 | JQ710620-Iran |
| Hap10 | 1 | JQ710619-Iran |
| Hap11 | 1 | JQ710618-Iran |
| Hap12 | 2 | JQ710617-Iran, KM032294-Palestine |
| Hap13 | 1 | JQ710616-Iran |
| Hap14 | 1 | JQ710615-Iran |
| Hap15 | 1 | JQ710613-Iran |
| Hap16 | 8 | JQ710612-Iran, JQ710593-Iran, KT372528-Italy, KT372525-Italy, KT372524-Italy, KM032292-Palestine, KM032291-Palestine, DQ995656-India |
| Hap17 | 1 | JQ710611-Iran |
| Hap18 | 1 | JQ710610-Iran |
| Hap19 | 1 | JQ710609-Iran |
| Hap20 | 1 | JQ710608-Iran |
| Hap21 | 1 | JQ710607-Iran |
| Hap22 | 1 | JQ710606-Iran |
| Hap23 | 1 | JQ710605-Iran |
| Hap24 | 2 | JQ710604-Iran, KM032296-Palestine |
| Hap25 | 1 | JQ710603-Iran |
| Hap26 | 1 | JQ710602-Iran |
| Hap27 | 1 | JQ710601-Iran |
| Hap28 | 2 | JQ710600-Iran, JQ710591-Iran |
| Hap29 | 1 | JQ710598-Iran |
| Hap30 | 1 | JQ710597-Iran |
| Hap31 | 1 | JQ710596-Iran |
| Hap32 | 1 | JQ710595-Iran |
| Hap33 | 2 | JQ710592-Iran, KT372520-Italy |
| Hap34 | 1 | JQ710590-Iran |
| Hap35 | 3 | JQ710589-Iran, KT372518-Italy, KM032301-Palestine |
| Hap36 | 1 | KT372531-Italy |
| Hap37 | 1 | KT372527-Italy |
| Hap38 | 1 | KT372526-Italy |
| Hap39 | 1 | KT372523-Italy |
| Hap40 | 1 | KT372521-Italy |
| Hap41 | 1 | KT372517-Italy |
| Hap42 | 1 | KM032297-Palestine |
| Hap43 | 1 | KM032295-Palestine |
| Hap44 | 1 | KM032293-Palestine |
| Hap45 | 1 | KM032290-Palestine |
| Hap46 | 1 | EU544551-Finland |
| Hap47 | 2 | NC012896-China, GQ228819-China |
Access numbers of the mt-CO1 gene region of C_ tenuicollis isolates used in the study_
| Geographical region | Number of isolates | Accession Numbers | Genbank Submit Date |
|---|---|---|---|
| China | 2 | NC012896 and GQ228819 | 2010 and 2016 |
| Iran | 40 | JQ710588 - JQ710599 |
2012 |
| Palestine | 20 | KM032284 - KM032299 |
2014 |
| Italy (Sardinia) | 14 | KT372517 - KT372518 |
2015 |
| Finland | 1 | EU544551 | 2016 |
| India | 1 | DQ995656 | 2016 |
| Iraq | 4 | MH113919 - MH113922 | 2018 |
| Total | 82 | ||
Diversity and neutrality indices for Cysticercus tenuicollis isolates from Sardinia, Iran, Palestine, Iraq, Finland, India and China using nucleotide data of mt-CO1 gene (339 bp)_
| No of isolates (n) | Polymorphic sites | Tajima’s |
Fu’s Fs | |||||
|---|---|---|---|---|---|---|---|---|
| Total (82) | 44 | 47 | 0.926 ± 0.023 | 0.008 ± 0.0009 | -2.2984 | 0.009* | -60.528 | 0.000 |
Diversity and neutrality indices for Taenia hydatigena isolates from sheep originating from various geographical regions using nucleotide data of mt-CO1 (339 bp)_
| Geographical region (n) | Polymorphic sites | Tajima’s |
Fu’s Fs | |||||
|---|---|---|---|---|---|---|---|---|
| Palestine (20) | 10 | 9 | 0.705 ± 0.111 | 0.004 ± 0.0011 | -1.610 | 0.093* | -4.546 | 0.008 |
| Iran (40) | 36 | 35 | 0.992 ± 0.008 | 0.011 ± 0.001 | -2.017 | 0.031* | -44.411 | 0.000 |
| Sardinia (14) | 12 | 10 | 0.934 ± 0.051 | 0.007 ± 0.0013 | -1.501 | 0.125* | -5.775 | 0.003 |