Whole genome amplification and exome sequencing of archived schistosome miracidia

Winka Le Clec'h; Frédéric D. Chevalier; Marina McDew-White; Fiona Allan; Bonnie L. Webster; Anouk N. Gouvras; Safari Kinunghi; Louis Albert Tchuem Tchuenté; Amadou Garba; Khalfan A. Mohammed; Shaali M. Ame; Joanne P. Webster; David Rollinson; Aidan M. Emery; Timothy J.C. Anderson

doi:10.1017/S0031182018000811

Whole genome amplification and exome sequencing of archived schistosome miracidia

Winka Le Clec'h, Frédéric D. Chevalier, Marina McDew-White, Fiona Allan, Bonnie L. Webster, Anouk N. Gouvras, Safari Kinunghi, Louis Albert Tchuem Tchuenté, Amadou Garba, Khalfan A. Mohammed, Shaali M. Ame, Joanne P. Webster, David Rollinson, Aidan M. Emery, Timothy J.C. Anderson

Research output: Contribution to journal › Article › peer-review

14 Scopus citations

Abstract

Adult schistosomes live in the blood vessels and cannot easily be sampled from humans, so archived miracidia larvae hatched from eggs expelled in feces or urine are commonly used for population genetic studies. Large collections of archived miracidia on FTA cards are now available through the Schistosomiasis Collection at the Natural History Museum (SCAN). Here we describe protocols for whole genome amplification of Schistosoma mansoni and Schistosome haematobium miracidia from these cards, as well as real time PCR quantification of amplified schistosome DNA. We used microgram quantities of DNA obtained for exome capture and sequencing of single miracidia, generating dense polymorphism data across the exome. These methods will facilitate the transition from population genetics, using limited numbers of markers to population genomics using genome-wide marker information, maximising the value of collections such as SCAN.

Original language	English (US)
Pages (from-to)	1739-1747
Number of pages	9
Journal	Parasitology
Volume	145
Issue number	13
DOIs	https://doi.org/10.1017/S0031182018000811
State	Published - Nov 1 2018
Externally published	Yes

Keywords

Exome sequencing
FTA cards
Schistosoma
miracidia
quantitative PCR
whole genome amplification

ASJC Scopus subject areas

Parasitology
Animal Science and Zoology
Infectious Diseases

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10.1017/S0031182018000811

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Le Clec'h, W., Chevalier, F. D., McDew-White, M., Allan, F., Webster, B. L., Gouvras, A. N., Kinunghi, S., Tchuem Tchuenté, L. A., Garba, A., Mohammed, K. A., Ame, S. M., Webster, J. P., Rollinson, D., Emery, A. M., & Anderson, T. J. C. (2018). Whole genome amplification and exome sequencing of archived schistosome miracidia. Parasitology, 145(13), 1739-1747. https://doi.org/10.1017/S0031182018000811

Le Clec'h, W, Chevalier, FD, McDew-White, M, Allan, F, Webster, BL, Gouvras, AN, Kinunghi, S, Tchuem Tchuenté, LA, Garba, A, Mohammed, KA, Ame, SM, Webster, JP, Rollinson, D, Emery, AM & Anderson, TJC 2018, 'Whole genome amplification and exome sequencing of archived schistosome miracidia', Parasitology, vol. 145, no. 13, pp. 1739-1747. https://doi.org/10.1017/S0031182018000811

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abstract = "Adult schistosomes live in the blood vessels and cannot easily be sampled from humans, so archived miracidia larvae hatched from eggs expelled in feces or urine are commonly used for population genetic studies. Large collections of archived miracidia on FTA cards are now available through the Schistosomiasis Collection at the Natural History Museum (SCAN). Here we describe protocols for whole genome amplification of Schistosoma mansoni and Schistosome haematobium miracidia from these cards, as well as real time PCR quantification of amplified schistosome DNA. We used microgram quantities of DNA obtained for exome capture and sequencing of single miracidia, generating dense polymorphism data across the exome. These methods will facilitate the transition from population genetics, using limited numbers of markers to population genomics using genome-wide marker information, maximising the value of collections such as SCAN.",

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AU - Webster, Bonnie L.

AU - Gouvras, Anouk N.

AU - Kinunghi, Safari

AU - Tchuem Tchuenté, Louis Albert

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AU - Webster, Joanne P.

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AU - Emery, Aidan M.

AU - Anderson, Timothy J.C.

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Whole genome amplification and exome sequencing of archived schistosome miracidia

Abstract

Keywords

ASJC Scopus subject areas

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