Assessment of the Genetic Diversity of Echinococcus multilocularis from Copro-Isolated Eggs
Abstract
:1. Introduction
2. Results
2.1. Copro-Sample and Egg Isolation
2.2. EmsB Fragment Size Analysis and Comparison of Pearson Coefficient Sorting
2.3. Correlation between EmsB Profiles and Individual Identification of Carnivores
3. Discussion
4. Materials and Methods
4.1. Fecal Samples, Egg Isolation, and DNA Purification
4.2. EmsB Amplification and Fragment Size Analyses
4.3. Hierarchical Clustering Analysis and Pearson Coefficient Sorting
4.4. Correlation between EmsB Profiles and Individual Identification of Carnivores
5. Conclusions
Supplementary Materials
Author Contributions
Funding
Institutional Review Board Statement
Informed Consent Statement
Acknowledgments
Conflicts of Interest
References
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Full Batches | r > 0.75 | r > 0.8 | r > 0.9 | |||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Faeces Code | 1 | 1 | 5 | 5 | 10 | 10 | p | 1 | 1 | 5 | 5 | 10 | 10 | p | 1 | 1 | 5 | 5 | 10 | 10 | p | 1 | 1 | 5 | 5 | 10 | 10 | p |
17AL039 | OT | OT | G1 1 | G1 | G1 | G1 | G1 | / | / | / | G1 | G1 | G1 | G1 | / | / | / | G1 | G2 | G3 | G1 | / | / | / | G1 | / | / | G1 |
17AL040 | OT | G3 1 | G1 | G1 | G1 | G1 | - | / | / | G1 | G1 | G1 | G1 | - | / | / | G1 | G1 | G1 | G1 | - | / | / | G1 | G1 | G1 | G1 | - |
17AL041 | G1 1 | G1 | G1 | G1 | G1 | G1 | - | G1 1 | G1 | G1 | G1 | G1 | G1 | - | G1 1 | / | G1 | G1 | G1 | G1 | - | / | / | / | / | G1 | G1 | - |
17AL095 | NE | OT | G1 | G1 | G1 | G1 | - | NE | / | G1 | G1 | G1 | G1 | - | NE | / | G1 | G1 | G1 | G1 | - | NE | / | / | G1 | G1 | G1 | - |
17AL224 | G2 1 | G2 1 | G2 1 | G2 | G2 | G2 | G2 | / | G2 1 | G2 1 | G2 | G2 | G2 | G2 | / | G2 1 | G2 1 | G2 | G2 | G2 | G2 | / | / | / | G2 | G2 | G2 | G2 |
17AL225 | OT | NE | G2 | G2 | G2 | G1/G2 | - | OT | NE | G2 | G2 | G2 | G1/G2 | - | OT | NE | G2 | G2 | G2 | G1/G2 | - | / | NE | G2 | G2 | / | G1/G2 | - |
17AL226 | G2 1 | OT | G2 | G2 | G2 | G2 | - | G2 1 | / | G2 | G2 | G2 | G2 | - | G2 1 | / | G2 | G2 | G2 | G2 | - | / | / | G2 | G2 | G2 | G2 | - |
17AL228 | G2 1 | G2 1 | G2 | G2 | G2 | G2 | - | / | G2 1 | G2 | G2 | G2 | G2 | - | / | / | G2 | G2 | G2 | G2 | - | / | / | G2 | G2 | G2 | G2 | - |
17AL244 | OT | NE | G2 | G2 | G2 | G2 | - | / | NE | G2 | G2 | G2 | G2 | - | / | NE | G2 | G2 | G2 | G2 | - | / | NE | / | / | G2 | G2 | - |
17AL245 | NE | G2 1 | G3 | G3 | G3 | G2 | - | NE | G2 1 | G3 | G3 | G3 | G2 | - | NE | G2 1 | G3 | G3 | G3 | G2 | - | NE | / | G3 | G3 | G3 | G2 | - |
17AL286 | G1 1 | NE | OT | G1 1 | G1 | G1 1 | G1 | / | NE | / | / | G1 | OT | G1 | / | NE | / | / | G1 | / | G1 | / | NE | / | / | G1 | / | G1 |
18AL297 | G2 | OT | G1 | G1 | G1 | - | - | / | / | G1 | G1 | G1 | - | - | / | / | G1 | G1 | G1 | - | - | / | / | G1 | G1 | G1 | - | - |
18AL300 | G1 1 | OT | G1 | G1 | G1 | - | - | / | / | G1 | G1 | G1 | - | - | / | / | G1 | G1 | G1 | - | - | / | / | G1 | G1 | G1 | - | - |
18AL320 | G1 1 | NE | G1 1 | G1 | G1 | G1 | - | OT | NE | G1/G3 | G1 | G1 | G1 | - | / | NE | / | G1 | G1 | G1 | - | / | NE | / | G1 | G1 | G1 | - |
18AL344 | OT | OT | G2 1 | OT | OT | G1 1 | - | / | / | G1 1 | / | / | / | - | / | / | G1 1 | / | / | / | - | / | / | / | / | / | / | - |
18AL460 | NE | - | NE | OT | NE | NE | - | NE | - | NE | / | NE | NE | - | NE | - | NE | / | NE | NE | - | NE | - | NE | / | NE | NE | - |
18AL599 | G2 | OT | G2 | G1/G2 | G2 | G2 | - | G2 | / | G2 | G1/G2 | G2 | G2 | - | G2 | / | G2 | G1/G2 | G2 | G2 | - | G1/G2 | / | / | / | G2 | / | - |
19AL127 | OT | OT | OT | - | OT | - | - | / | / | / | - | / | - | - | / | / | / | - | / | - | - | / | / | / | - | / | - | - |
19AL419 | G1 1 | G3 1 | G1 | G3 | G3 | G3 | - | / | G3 1 | G1 | G3 | G3 | G3 | - | / | G3 1 | G1 | G3 | G3 | G3 | - | / | / | G1 | G3 | G3 | G3 | - |
qPCR Cq Value 1 | No of Batches Per Egg-Batch Type | |||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|
Feces Code | Host ID | Molecular Host | Sampling Date | Host | Em rrnL | PCR Inhib. Test | Batch Species Typing 2 | 1 | 5 | 10 | Pellet | Total |
17AL039 | FOX005 | Vulpes vulpes | July 2017 | 25.85 | 28.66 | 32.92 | E. multilocularis | 2 | 2 | 2 | 1 | 7 |
17AL040 | FOX005 | Vulpes vulpes | July 2017 | 22.20 | 31.24 | 33.86 | E. multilocularis | 2 | 2 | 2 | 0 | 6 |
17AL041 | FOX005 | Vulpes vulpes | July 2017 | 22.62 | 30.08 | 33.49 | E. multilocularis | 2 | 2 | 2 | 0 | 6 |
17AL095 | DOG001 | Canis l. familiaris | March 2017 | 21.31 | 41.04 | 35.63 | E. multilocularis | 2 | 2 | 2 | 0 | 6 |
17AL224 | FOX004 | Vulpes vulpes | May 2017 | 24.30 | 33.76 | 34.99 | E. multilocularis | 2 | 2 | 2 | 1 | 7 |
17AL225 | FOX020 | Vulpes vulpes | May 2017 | 23.70 | 37.59 | 35.53 | E. multilocularis | 2 | 2 | 2 | 0 | 6 |
17AL226 | ND | Vulpes vulpes | May 2017 | 27.53 | 31.44 | 34.55 | E. multilocularis | 2 | 2 | 2 | 0 | 6 |
17AL228 | ND | Vulpes vulpes | May 2017 | 32.25 | 33.14 | 35.37 | E. multilocularis | 2 | 2 | 2 | 0 | 6 |
17AL244 | FOX004 | Vulpes vulpes | May 2017 | 24.64 | 36.50 | 34.90 | E. multilocularis | 2 | 2 | 2 | 0 | 6 |
17AL245 | FOX017 | Vulpes vulpes | May 2017 | 27.91 | 39.58 | 34.81 | E. multilocularis | 2 | 2 | 2 | 0 | 6 |
17AL286 | CAT001 | Felis catus | July 2017 | 21.57 | 38.61 | 33.92 | E. multilocularis | 2 | 2 | 2 | 1 | 7 |
18AL297 | ND | Vulpes vulpes | May 2018 | 26.79 | 37.94 | 33.56 | E. multilocularis | 2 | 2 | 1 | 0 | 5 |
18AL300 | DOG010 | Canis l. familiaris | July 2018 | 21.75 | 38.52 | 33.71 | E. multilocularis | 2 | 2 | 1 | 0 | 5 |
18AL320 | FOX031 | Vulpes vulpes | November 2018 | 23.09 | 38.97 | 33.11 | E. multilocularis | 2 | 2 | 2 | 0 | 6 |
18AL344 | FOX031 | Vulpes vulpes | November 2018 | 30.07 | 37.51 | 33.22 | E. multilocularis | 2 | 2 | 2 | 0 | 6 |
18AL460 | FOX032 | Vulpes vulpes | September 2018 | 22.82 | 31.64 | 34.59 | Taenia crassiceps | 1 | 2 | 2 | 0 | 5 |
18AL599 | FOX039 | Vulpes vulpes | November 2018 | 23.39 | 30.09 | 34.05 | E. multilocularis | 2 | 2 | 2 | 0 | 6 |
19AL127 | FOX030 | Vulpes vulpes | April 2019 | 27.34 | 35.72 | 34.46 | E. multilocularis | 2 | 1 | 1 | 0 | 4 |
19AL419 | ND | Canis l. familiaris | November 2019 | 21.06 | 30.59 | 33.41 | E. multilocularis | 2 | 2 | 2 | 0 | 6 |
Total No of batches | 37 | 37 | 35 | 3 | 112 |
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Knapp, J.; Da Silva, A.M.; Courquet, S.; Millon, L. Assessment of the Genetic Diversity of Echinococcus multilocularis from Copro-Isolated Eggs. Pathogens 2021, 10, 1296. https://doi.org/10.3390/pathogens10101296
Knapp J, Da Silva AM, Courquet S, Millon L. Assessment of the Genetic Diversity of Echinococcus multilocularis from Copro-Isolated Eggs. Pathogens. 2021; 10(10):1296. https://doi.org/10.3390/pathogens10101296
Chicago/Turabian StyleKnapp, Jenny, Abdou Malik Da Silva, Sandra Courquet, and Laurence Millon. 2021. "Assessment of the Genetic Diversity of Echinococcus multilocularis from Copro-Isolated Eggs" Pathogens 10, no. 10: 1296. https://doi.org/10.3390/pathogens10101296