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GeoDis: a program for the cladistic nested analysis of the geographical distribution of genetic haplotypes

GeoDis: a program for the cladistic nested analysis of the geographical distribution of genetic... The central focus of population genetics is the study of the distribution of the genetic variation within and among populations. This endeavour has often been accomplished by the use of genealogies upon which geographical information is incorporated in the search of association among genetic variation and geographical distribution (see Avise 1998 ). However, a particular population genetic structure can be the result of distinct processes acting in different points through time and space and may reflect historical rather than ongoing population level processes ( Gerber & Templeton 1996 ). Templeton (1993) and Templeton . (1995) describe a methodology (cladistic nested analysis) in which population structure can be separated from population history when it is assessed through rigorous and objective statistical tests upon an estimated nested cladogram (see Templeton . 1992 ). GeoDis is a computer program that implements the cladistic nested analysis. The simplest test for geographical association is to treat sample locations as categorical variables. An exact permutational contingency test is performed for any clade at each nesting level. A chi‐square statistic is calculated from the contingency tables in which rows are genetic clades and columns are geographical locations (see also software Chiperm, available at http://bioag.byu.edu/zoology/crandalllab/programs.htm ). http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Molecular Ecology Wiley

GeoDis: a program for the cladistic nested analysis of the geographical distribution of genetic haplotypes

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References (9)

Publisher
Wiley
Copyright
Copyright © 2000 Wiley Subscription Services, Inc., A Wiley Company
ISSN
0962-1083
eISSN
1365-294X
DOI
10.1046/j.1365-294x.2000.00887.x
Publisher site
See Article on Publisher Site

Abstract

The central focus of population genetics is the study of the distribution of the genetic variation within and among populations. This endeavour has often been accomplished by the use of genealogies upon which geographical information is incorporated in the search of association among genetic variation and geographical distribution (see Avise 1998 ). However, a particular population genetic structure can be the result of distinct processes acting in different points through time and space and may reflect historical rather than ongoing population level processes ( Gerber & Templeton 1996 ). Templeton (1993) and Templeton . (1995) describe a methodology (cladistic nested analysis) in which population structure can be separated from population history when it is assessed through rigorous and objective statistical tests upon an estimated nested cladogram (see Templeton . 1992 ). GeoDis is a computer program that implements the cladistic nested analysis. The simplest test for geographical association is to treat sample locations as categorical variables. An exact permutational contingency test is performed for any clade at each nesting level. A chi‐square statistic is calculated from the contingency tables in which rows are genetic clades and columns are geographical locations (see also software Chiperm, available at http://bioag.byu.edu/zoology/crandalllab/programs.htm ).

Journal

Molecular Ecology – Wiley

Published: Apr 1, 2000

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