Molecular Identification and Appraisal of the Genetic Variation of Taenia saginata in Central Regions of Vietnam
Abstract
:1. Introduction
2. Materials and Methods
2.1. Sample Collection
2.2. Diagnostic Molecular Analysis
2.3. Phylogeographic and Phylogenetic Analysis
3. Results
4. Discussion
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Data Availability Statement
Conflicts of Interest
Appendix A
Genbank # | Species | NDT | ASAP | PTP/bPTP |
---|---|---|---|---|
MN787534 | Echinococcus granulosus | 1 | 1 | 1 |
JN986685 | Taenia saginata | 2 | 2 | 20 |
MN452862 | Taenia saginata | 2 | 2 | 20 |
AB066494 | Taenia asiatica | 3 | 3 | 21 |
AB107234 | Taenia asiatica | 3 | 3 | 21 |
KC709807 | Taenia solium | 4 | 4 | 8 |
AY211880 | Taenia solium | 4 | 4 | 8 |
NC_024590 | Taenia arctos | 5 | 5 | 9 |
AB905199 | Taenia arctos | 5 | 5 | 9 |
AB033411 | Taenia crassiceps | 6 | 6 | 7 |
KY883633 | Taenia crassiceps | 6 | 6 | 7 |
MT784896 | Taenia hydatigena | 7 | 7 | 24 |
MT784895 | Taenia hydatigena | 8 | 7 | 25 |
MT227288 | Taenia krabbei | 9 | 8 | 22 |
MT227284 | Taenia krabbei | 9 | 8 | 22 |
AB731727 | Taenia laticollis | 10 | 9 | 4 |
NC_021140 | Taenia laticollis | 10 | 9 | 4 |
MK905226 | Taenia lynciscapreoli | 11 | 10 | 17 |
MK911724 | Taenia lynciscapreoli | 11 | 10 | 17 |
NC_021139 | Taenia madoquae | 12 | 11 | 16 |
AB731726 | Taenia madoquae | 12 | 11 | 16 |
NC_020153 | Taenia martis | 13 | 12 | 10 |
AB731758 | Taenia martis | 13 | 12 | 10 |
CM010318 | Taenia multiceps | 14 | 13 | 23 |
GQ228818 | Taenia multiceps | 14 | 13 | 23 |
EU544569 | Taenia mustalae | 15 | 14 | 6 |
AB732960 | Taenia mustalae | 15 | 14 | 6 |
KX855964 | Taenia omissa | 16 | 15 | 18 |
JX860631 | Taenia omissa | 17 | 16 | 19 |
NC_021138 | Taenia ovis | 18 | 17 | 13 |
KU995334 | Taenia ovis | 18 | 17 | 13 |
KC020710 | Taenia pisiformis | 19 | 18 | 5 |
KC020690 | Taenia pisiformis | 19 | 18 | 5 |
EU544595 | Taenia polyacantha | 20 | 19 | 14 |
KF751224 | Taenia polyacantha | 21 | 20 | 15 |
AM503329 | Taenia regis | 22 | 21 | 12 |
AM503328 | Taenia regis | 22 | 21 | 12 |
KY007158 | Taenia serialis | 23 | 22 | 26 |
NC_021457 | Taenia serialis | 23 | 22 | 27 |
EU544598 | Taenia twitchelli | 24 | 23 | 11 |
JQ837814 | Taenia taeniaeformis | 25 | 24 | 2 |
AF096243 | Taenia taeniaeformis | 26 | 25 | 3 |
OL459841 | Taenia sp. from the present study (TSVN1) | 2 | 2 | 20 |
OL459842 | Taenia sp. from the present study (TSVN2) | 2 | 2 | 20 |
OL459843 | Taenia sp. from the present study (TSVN3) | 2 | 2 | 20 |
OL459844 | Taenia sp. from the present study (TSVN4) | 2 | 2 | 20 |
OL459845 | Taenia sp. from the present study (TSVN5) | 2 | 2 | 20 |
OL459846 | Taenia sp. from the present study (TSVN6) | 2 | 2 | 20 |
OL459847 | Taenia sp. from the present study (TSVN7) | 2 | 2 | 20 |
OL459848 | Taenia sp. from the present study (TSVN8) | 2 | 2 | 20 |
OL459849 | Taenia sp. from the present study (TSVN9) | 2 | 2 | 20 |
OL459850 | Taenia sp. from the present study (TSVN10) | 2 | 2 | 20 |
OL459851 | Taenia sp. from the present study (TSVN11) | 2 | 2 | 20 |
OL459852 | Taenia sp. from the present study (TSVN12) | 2 | 2 | 20 |
OL459853 | Taenia sp. from the present study (TSVN13) | 2 | 2 | 20 |
OL459854 | Taenia sp. from the present study (TSVN14) | 2 | 2 | 20 |
OL459855 | Taenia sp. from the present study (TSVN15) | 2 | 2 | 20 |
OL459856 | Taenia sp. from the present study (TSVN16) | 2 | 2 | 20 |
OL459857 | Taenia sp. from the present study (TSVN17) | 2 | 2 | 20 |
OL459858 | Taenia sp. from the present study (TSVN18) | 2 | 2 | 20 |
OL459859 | Taenia sp. from the present study (TSVN19) | 2 | 2 | 20 |
OL459860 | Taenia sp. from the present study (TSVN20) | 2 | 2 | 20 |
OL459861 | Taenia sp. from the present study (TSVN21) | 2 | 2 | 20 |
OL459862 | Taenia sp. from the present study (TSVN22) | 2 | 2 | 20 |
OL459863 | Taenia sp. from the present study (TSVN23) | 2 | 2 | 20 |
OL459864 | Taenia sp. from the present study (TSVN24) | 2 | 2 | 20 |
OL459865 | Taenia sp. from the present study (TSVN25) | 2 | 2 | 20 |
OL459866 | Taenia sp. from the present study (TSVN26) | 2 | 2 | 20 |
OL459867 | Taenia sp. from the present study (TSVN27) | 2 | 2 | 20 |
OL459868 | Taenia sp. from the present study (TSVN28) | 2 | 2 | 20 |
OL459869 | Taenia sp. from the present study (TSVN29) | 2 | 2 | 20 |
OL459870 | Taenia sp. from the present study (TSVN30) | 2 | 2 | 20 |
OL459871 | Taenia sp. from the present study (TSVN31) | 2 | 2 | 20 |
OL459872 | Taenia sp. from the present study (TSVN32) | 2 | 2 | 20 |
OL459873 | Taenia sp. from the present study (TSVN33) | 2 | 2 | 20 |
OL459874 | Taenia sp. from the present study (TSVN34) | 2 | 2 | 20 |
OL459875 | Taenia sp. from the present study (TSVN36) | 2 | 2 | 20 |
OL459876 | Taenia sp. from the present study (TSVN37) | 2 | 2 | 20 |
OL459877 | Taenia sp. from the present study (TSVN38) | 2 | 2 | 20 |
OL459878 | Taenia sp. from the present study (TSVN39) | 2 | 2 | 20 |
TOTAL | 26 | 25 | 27 |
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Sample ID | Sampling Site | Species | Host | Genbank Accession # | Sampling Date |
---|---|---|---|---|---|
TSVN01 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459841 | August 2019 |
TSVN02 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459842 | August 2019 |
TSVN04 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459844 | September 2019 |
TSVN05 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459845 | September 2019 |
TSVN06 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459846 | September 2019 |
TSVN07 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459847 | September 2019 |
TSVN08 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459848 | September 2019 |
TSVN09 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459849 | September 2019 |
TSVN10 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459850 | November 2019 |
TSVN11 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459851 | November 2019 |
TSVN12 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459852 | November 2019 |
TSVN15 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459855 | November 2019 |
TSVN24 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459864 | January 2020 |
TSVN25 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459865 | January 2020 |
TSVN26 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459866 | February 2020 |
TSVN27 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459867 | February 2020 |
TSVN28 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459868 | February 2020 |
TSVN29 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459869 | March 2020 |
TSVN30 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459870 | May 2020 |
TSVN31 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459871 | May 2020 |
TSVN32 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459872 | May 2020 |
TSVN33 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459873 | May 2020 |
TSVN34 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459874 | May 2020 |
TSVN36 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459875 | May 2020 |
TSVN37 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459876 | June 2020 |
TSVN38 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459877 | June 2020 |
TSVN39 | Vietnam: Thua Thien Hue | Taenia saginata | Homo sapiens | OL459878 | June 2020 |
TSVN03 | Vietnam: Da Nang | Taenia saginata | Homo sapiens | OL459843 | September 2019 |
TSVN13 | Vietnam: Da Nang | Taenia saginata | Homo sapiens | OL459853 | November 2019 |
TSVN14 | Vietnam: Quang Nam | Taenia saginata | Homo sapiens | OL459854 | November 2019 |
TSVN16 | Vietnam: Kon Tum | Taenia saginata | Homo sapiens | OL459856 | December 2019 |
TSVN19 | Vietnam: Kon Tum | Taenia saginata | Homo sapiens | OL459859 | December 2019 |
TSVN23 | Vietnam: Kon Tum | Taenia saginata | Homo sapiens | OL459863 | December 2019 |
TSVN17 | Vietnam: Binh Dinh | Taenia saginata | Homo sapiens | OL459857 | December 2019 |
TSVN20 | Vietnam: Binh Dinh | Taenia saginata | Homo sapiens | OL459860 | December 2019 |
TSVN18 | Vietnam: Quang Tri | Taenia saginata | Homo sapiens | OL459858 | December 2019 |
TSVN21 | Vietnam: Quang Tri | Taenia saginata | Homo sapiens | OL459861 | December 2019 |
TSVN22 | Vietnam: Quang Tri | Taenia saginata | Homo sapiens | OL459862 | December 2019 |
Sample ID | Age | Sex | Sampling Region | Hospital | Collection Year |
---|---|---|---|---|---|
TSVN01 | 5 | F | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN02 | 41 | M | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN04 | 71 | F | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN05 | 57 | M | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN06 | 32 | M | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN07 | 48 | M | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN08 | 67 | F | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN09 | 60 | F | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN10 | 27 | M | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN11 | 57 | F | Thua Thien Hue | Traditional Medicine Hospital of Thua Thien Hue Province | 2019 |
TSVN12 | 51 | F | Thua Thien Hue | Traditional Medicine Hospital of Thua Thien Hue Province | 2019 |
TSVN15 | 55 | M | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN24 | 77 | M | Thua Thien Hue | Traditional Medicine Hospital of Thua Thien Hue Province | 2020 |
TSVN25 | 52 | F | Thua Thien Hue | Traditional Medicine Hospital of Thua Thien Hue Province | 2020 |
TSVN26 | 46 | M | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2020 |
TSVN27 | 66 | F | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2020 |
TSVN28 | 53 | F | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2020 |
TSVN29 | 53 | F | Thua Thien Hue | Traditional Medicine Hospital of Thua Thien Hue Province | 2020 |
TSVN30 | 32 | M | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2020 |
TSVN31 | 24 | M | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2020 |
TSVN32 | 31 | M | Thua Thien Hue | Traditional Medicine Hospital of Thua Thien Hue Province | 2020 |
TSVN33 | 47 | M | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2020 |
TSVN34 | 47 | M | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2020 |
TSVN36 | 56 | F | Thua Thien Hue | Traditional Medicine Hospital of Thua Thien Hue Province | 2020 |
TSVN37 | 27 | M | Thua Thien Hue | Traditional Medicine Hospital of Thua Thien Hue Province | 2020 |
TSVN38 | 36 | M | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2020 |
TSVN39 | 52 | F | Thua Thien Hue | Hue University of Medicine and Pharmacy Hospital | 2020 |
TSVN03 | 19 | F | Da Nang | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN13 | 50 | F | Da Nang | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN14 | 38 | F | Quang Nam | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN16 | 47 | F | Kon Tum | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN19 | 63 | F | Kon Tum | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN23 | 46 | F | Kon Tum | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN17 | 48 | F | Binh Dinh | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN20 | 51 | F | Binh Dinh | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN18 | 69 | F | Quang Tri | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN21 | 52 | F | Quang Tri | Hue University of Medicine and Pharmacy Hospital | 2019 |
TSVN22 | 5 | M | Quang Tri | Hue University of Medicine and Pharmacy Hospital | 2019 |
N | bp | H | S | hd | π | |
---|---|---|---|---|---|---|
Vietnamese COI dataset | 38 | 1013 | 15 | 18 | 0.667 | 0.00142 |
Asian COI dataset | 182 | 1013 | 50 | 51 | 0.789 | 0.00211 |
Whole world COI dataset | 202 | 1013 | 57 | 60 | 0.794 | 0.00209 |
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Tran Thi, G.; Azzena, I.; Scarpa, F.; Cossu, P.; Danh Le, C.; Ton Nu, P.A.; Chau Ngo, T.M.; Sanna, D.; Casu, M. Molecular Identification and Appraisal of the Genetic Variation of Taenia saginata in Central Regions of Vietnam. Life 2022, 12, 70. https://doi.org/10.3390/life12010070
Tran Thi G, Azzena I, Scarpa F, Cossu P, Danh Le C, Ton Nu PA, Chau Ngo TM, Sanna D, Casu M. Molecular Identification and Appraisal of the Genetic Variation of Taenia saginata in Central Regions of Vietnam. Life. 2022; 12(1):70. https://doi.org/10.3390/life12010070
Chicago/Turabian StyleTran Thi, Giang, Ilenia Azzena, Fabio Scarpa, Piero Cossu, Cong Danh Le, Phuong Anh Ton Nu, Thi Minh Chau Ngo, Daria Sanna, and Marco Casu. 2022. "Molecular Identification and Appraisal of the Genetic Variation of Taenia saginata in Central Regions of Vietnam" Life 12, no. 1: 70. https://doi.org/10.3390/life12010070
APA StyleTran Thi, G., Azzena, I., Scarpa, F., Cossu, P., Danh Le, C., Ton Nu, P. A., Chau Ngo, T. M., Sanna, D., & Casu, M. (2022). Molecular Identification and Appraisal of the Genetic Variation of Taenia saginata in Central Regions of Vietnam. Life, 12(1), 70. https://doi.org/10.3390/life12010070