Document Detail

Comparing the van Oosterhout and Chybicki-Burczyk methods of estimating null allele frequencies for inbred populations.
MedLine Citation:
PMID:  23227485     Owner:  NLM     Status:  In-Process    
In spite of the usefulness of codominant markers in population genetics, the existence of null alleles raises challenging estimation issues in natural populations that are characterized by positive inbreeding coefficients (F > 0). Disregarding the possibility of F > 0 in a population will generally lead to overestimates of null allele frequencies. Conversely, estimates of inbreeding coefficients (F) may be strongly biased upwards (excess homozygotes), in the presence of nontrivial frequencies of null alleles. An algorithm has been presented for the estimation of null allele frequencies in inbred populations (van Oosterhout method), using external estimates of the F-statistics. The goal of this study is to introduce a modification of this method and to provide a formal comparison with an alternative likelihood-based method (Chybicki-Burczyk). Using simulated data, we illustrate the strengths and limitations of these competing methods. Under most circumstances, the likelihood method is preferable, but for highly inbred organisms, a modified van Oosterhout method offers some advantages.
P Campagne; P E Smouse; G Varouchas; J-F Silvain; B Leru
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Publication Detail:
Type:  Journal Article; Research Support, Non-U.S. Gov't; Research Support, U.S. Gov't, Non-P.H.S.    
Journal Detail:
Title:  Molecular ecology resources     Volume:  12     ISSN:  1755-0998     ISO Abbreviation:  Mol Ecol Resour     Publication Date:  2012 Nov 
Date Detail:
Created Date:  2012-12-07     Completed Date:  -     Revised Date:  -    
Medline Journal Info:
Nlm Unique ID:  101465604     Medline TA:  Mol Ecol Resour     Country:  England    
Other Details:
Languages:  eng     Pagination:  975-82     Citation Subset:  IM    
IRD, UR072-BEI C/O CNRS, Laboratoire Evolution Génomes et Spéciation, Gif sur Yvette Cedex, France.
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