Journal article
Genome-wide SNPs lead to strong signals of geographic structure and relatedness patterns in the major arbovirus vector, Aedes aegypti
G Rašić, I Filipović, AR Weeks, AA Hoffmann
BMC Genomics | Published : 2014
Abstract
Background: Genetic markers are widely used to understand the biology and population dynamics of disease vectors, but often markers are limited in the resolution they provide. In particular, the delineation of population structure, fine scale movement and patterns of relatedness are often obscured unless numerous markers are available. To address this issue in the major arbovirus vector, the yellow fever mosquito (Aedes aegypti), we used double digest Restriction-site Associated DNA (ddRAD) sequencing for the discovery of genome-wide single nucleotide polymorphisms (SNPs). We aimed to characterize the new SNP set and to test the resolution against previously described microsatellite markers ..
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Funding Acknowledgements
This work is funded by a grant from the National Health and Medical Research Council, Fellowship from the Australian Research Council Australia to AAH, a grant from the Foundation for the National Institutes of Health through the Grand Challenges in Global Health Initiative of the Bill and Melinda Gates Foundation, and the Early Career Researcher Grant Scheme awarded to GR. Computational resources were provided by the NeCTAR Research Cloud and Edward HPC at the University of Melbourne. We are grateful to a number of researchers for providing field collections of Aedes aegypti: Renata Schama, Rafael Maceil-de Freitas and Luciano Moreira from FIOCRUZ for Brazilian samples; Hoang Le Nguyen from National Institute Of Hygiene And Epidemiology for Vietnamese samples; Eggi Arguni and Warsito Tantowijoyo from Universitas Gadjah Mada for Indonesian samples; and Brian Montgomery from Monash University and Scott Ritchie from James Cook University for Australian samples. We would also like to thank Philippa Griffin and two anonymous reviewers for the insightful comments on the earlier version of the manuscript.