Imperial College London
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ProfessorAustinBurt

Faculty of Natural Sciences, Department of Life Sciences (Silwood Park)

Professor of Evolutionary Genetics
 
 
 
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Contact

 

+44 (0)20 7594 2266a.burt

 
 
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Location

 

Silwood ParkSilwood Park

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Summary

 

Publications

Citation

BibTex format

@article{Hui:2021:10.1111/1755-0998.13412,
author = {Hui, T-YJ and Brenas, JH and Burt, A},
doi = {10.1111/1755-0998.13412},
journal = {Molecular Ecology Resources},
pages = {2221--2230},
title = {Contemporary Ne estimation using temporally spaced data with linked loci},
url = {http://dx.doi.org/10.1111/1755-0998.13412},
volume = {21},
year = {2021}
}
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RIS format (EndNote, RefMan)

TY  - JOUR
AB  - The contemporary effective population size Ne is important in many disciplines including population genetics, conservation science and pest management. One of the mostpopular methods of estimating this quantity uses temporal changes in allele frequencydue to genetic drift. A significant assumption of the existing methods is the independence among loci while constructing confidence intervals (CI), which restricts the typesof species or genetic data applicable to the methods. Although genetic linkage doesnot bias point Ne estimates, applying these methods to linked loci can yield unreliableCI that are far too narrow. We extend the current methods to enable the use of manylinked loci to produce precise contemporary Ne estimates, while preserving the targeted CI width and coverage. This is achieved by deriving the covariance of changes inallele frequency at linked loci in the face of recombination and sampling errors, suchthat the extra sampling variance due to between-locus correlation is properly handled. Extensive simulations are used to verify the new method. We apply the methodto two temporally spaced genomic data sets of Anopheles mosquitoes collected froma cluster of villages in Burkina Faso between 2012 and 2014. With over 33,000 linkedloci considered, the Ne estimate for Anopheles coluzzii is 9,242 (95% CI 5,702–24,282),and for Anopheles gambiae it is 4,826 (95% CI 3,602–7,353).
AU  - Hui,T-YJ
AU  - Brenas,JH
AU  - Burt,A
DO  - 10.1111/1755-0998.13412
EP  - 2230
PY  - 2021///
SN  - 1471-8278
SP  - 2221
TI  - Contemporary Ne estimation using temporally spaced data with linked loci
T2  - Molecular Ecology Resources
UR  - http://dx.doi.org/10.1111/1755-0998.13412
UR  - https://www.webofscience.com/api/gateway?GWVersion=2&SrcApp=PARTNER_APP&SrcAuth=LinksAMR&KeyUT=WOS:000664263800001&DestLinkType=FullRecord&DestApp=ALL_WOS&UsrCustomerID=a2bf6146997ec60c407a63945d4e92bb
UR  - https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13412
UR  - http://hdl.handle.net/10044/1/110434
VL  - 21
ER  -
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