Get 20M+ Full-Text Papers For Less Than $1.50/day. Start a 14-Day Trial for You or Your Team.

Learn More →

TCS: a computer program to estimate gene genealogies

TCS: a computer program to estimate gene genealogies Phylogenies are extremely useful tools, not only for establishing genealogical relationships among a group of organisms or their parts (e.g. genes), but also for a variety of research once the phylogenies are estimated. In a recent review, Pagel (1999) eloquently outline a number of uses for phylogenetic information from discovery of drug resistance to reconstructing the common ancestor to all of life. Phylogenies have been used to predict future trends in infectious disease ( Bush . 1999 ) and have even been offered as evidence in a court of law ( Vogel 1997 ). Yet phylogenies are only as useful as they are accurate. Estimating genealogical relationships among genes at the population level presents a number of difficulties to traditional methods of phylogeny reconstruction. These traditional methods such as parsimony, neighbour‐joining, and maximum‐likelihood make assumptions that are invalid at the population level. For example, these methods assume ancestral haplotypes are no longer in the population, yet coalescent theory predicts that ancestral haplotypes will be the most frequent sequences sampled in a population level study ( Watterson & Guess 1977 ; Donnelly & Tavaré 1986 ; Crandall & Templeton 1993 ). Traditional methods require reasonably large numbers of variable http://www.deepdyve.com/assets/images/DeepDyve-Logo-lg.png Molecular Ecology Wiley

TCS: a computer program to estimate gene genealogies

Clement, M.; Posada, D.; Crandall, K. A.
Molecular Ecology , Volume 9 (10) – Oct 1, 2000
Download PDF
3 pages

Loading next page...
 
/lp/wiley/tcs-a-computer-program-to-estimate-gene-genealogies-0vDENX3nhO

References (34)

Publisher
Wiley
Copyright
Copyright © 2000 Wiley Subscription Services, Inc., A Wiley Company
ISSN
0962-1083
eISSN
1365-294X
DOI
10.1046/j.1365-294x.2000.01020.x
Publisher site
See Article on Publisher Site

Abstract

Phylogenies are extremely useful tools, not only for establishing genealogical relationships among a group of organisms or their parts (e.g. genes), but also for a variety of research once the phylogenies are estimated. In a recent review, Pagel (1999) eloquently outline a number of uses for phylogenetic information from discovery of drug resistance to reconstructing the common ancestor to all of life. Phylogenies have been used to predict future trends in infectious disease ( Bush . 1999 ) and have even been offered as evidence in a court of law ( Vogel 1997 ). Yet phylogenies are only as useful as they are accurate. Estimating genealogical relationships among genes at the population level presents a number of difficulties to traditional methods of phylogeny reconstruction. These traditional methods such as parsimony, neighbour‐joining, and maximum‐likelihood make assumptions that are invalid at the population level. For example, these methods assume ancestral haplotypes are no longer in the population, yet coalescent theory predicts that ancestral haplotypes will be the most frequent sequences sampled in a population level study ( Watterson & Guess 1977 ; Donnelly & Tavaré 1986 ; Crandall & Templeton 1993 ). Traditional methods require reasonably large numbers of variable

Journal

Molecular Ecology – Wiley

Published: Oct 1, 2000

There are no references for this article.