Use of nuclear genes for phylogeny reconstruction in plants

RL Small, RC Cronn, JF Wendel - Australian Systematic Botany, 2004 - CSIRO Publishing
Molecular data have had a profound impact on the field of plant systematics, and the
application of DNA-sequence data to phylogenetic problems is now routine. The majority of …

Recombination in evolutionary genomics

D Posada, KA Crandall… - Annual Review of Genetics, 2002 - annualreviews.org
▪ Abstract Recombination can be a dominant force in shaping genomes and associated
phenotypes. To better understand the impact of recombination on genomic evolution, we …

Evaluation of methods for detecting recombination from DNA sequences: computer simulations

D Posada, KA Crandall - Proceedings of the National …, 2001 - National Acad Sciences
Recombination is a key evolutionary process that shapes the architecture of genomes and
the genetic structure of populations. Although many statistical methods are available for the …

A simple and robust statistical test for detecting the presence of recombination

TC Bruen, H Philippe, D Bryant - Genetics, 2006 - academic.oup.com
Recombination is a powerful evolutionary force that merges historically distinct genotypes.
But the extent of recombination within many organisms is unknown, and even determining …

A modified bootscan algorithm for automated identification of recombinant sequences and recombination breakpoints

DP Martin, D Posada, KA Crandall… - AIDS Research & …, 2005 - liebertpub.com
We have developed a modified BOOTSCAN algorithm that may be used to screen
nucleotide sequence alignments for evidence of recombination without prior identification of …

RDP2: recombination detection and analysis from sequence alignments

DP Martin, C Williamson, D Posada - Bioinformatics, 2005 - academic.oup.com
RDP2 is a Windows 95/XP program that examines nucleotide sequence alignments and
attempts to identify recombinant sequences and recombination breakpoints using 10 …

The effect of recombination on the accuracy of phylogeny estimation

D Posada, KA Crandall - Journal of molecular evolution, 2002 - Springer
Phylogenetic studies based on DNA sequences typically ignore the potential occurrence of
recombination, which may produce different alignment regions with different evolutionary …

Evaluation of methods for detecting recombination from DNA sequences: empirical data

D Posada - Molecular biology and evolution, 2002 - academic.oup.com
The performance of 14 different recombination detection methods was evaluated by
analyzing several empirical data sets where the presence of recombination has been …

Adaptive diversification of bitter taste receptor genes in mammalian evolution

P Shi, J Zhang, H Yang, Y Zhang - Molecular biology and …, 2003 - academic.oup.com
The diversity and evolution of bitter taste perception in mammals is not well understood.
Recent discoveries of bitter taste receptor (T2R) genes provide an opportunity for a genetic …

Chorionic gonadotropin has a recent origin within primates and an evolutionary history of selection

GA Maston, M Ruvolo - Molecular biology and evolution, 2002 - academic.oup.com
Chorionic gonadotropin (CG) is a critical signal in establishing pregnancy in humans and
some other primates, but this placentally expressed hormone has not been found in other …