Molecular Biology and Evolution

Original Articles:

Simon Whelan and Nick Goldman

A General Empirical Model of Protein Evolution Derived from Multiple Protein Families Using a Maximum-Likelihood Approach
Mol Biol Evol 2001 18: 691-699. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Lev A. Zhivotovsky

Estimating Divergence Time with the Use of Microsatellite Genetic Distances: Impacts of Population Growth and Gene Flow
Mol Biol Evol 2001 18: 700-709. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Carmen Rotte, Frantisek Stejskal, Guan Zhu, Janet S. Keithly, and William Martin

Pyruvate : NADP Oxidoreductase from the Mitochondrion of Euglena gracilis and from the Apicomplexan Cryptosporidium parvum: A Biochemical Relic Linking Pyruvate Metabolism in Mitochondriate and Amitochondriate Protists
Mol Biol Evol 2001 18: 710-720. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Markus von Nickisch-Rosenegk, Wesley M. Brown, and Jeffrey L. Boore

Complete Sequence of the Mitochondrial Genome of the Tapeworm Hymenolepis diminuta: Gene Arrangements Indicate that Platyhelminths Are Eutrochozoans
Mol Biol Evol 2001 18: 721-730. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Marta Pascual, Charles F. Aquadro, Vanessa Soto, and Luis Serra

Microsatellite Variation in Colonizing and Palearctic Populations of Drosophila subobscura
Mol Biol Evol 2001 18: 731-740. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

John H. McDonald

Patterns of Temperature Adaptation in Proteins from the Bacteria Deinococcus radiodurans and Thermus thermophilus
Mol Biol Evol 2001 18: 741-749. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Gustavo Parisi and Julián Echave

Structural Constraints and Emergence of Sequence Patterns in Protein Evolution
Mol Biol Evol 2001 18: 750-756. [Abstract] [FREE Full Text] [PDF] [Supplementary material]  [Request Permissions]  

Laurent Duret and Laurence D. Hurst

The Elevated GC Content at Exonic Third Sites Is Not Evidence Against Neutralist Models of Isochore Evolution
Mol Biol Evol 2001 18: 757-762. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Anne-Mette Krabbe Pedersen and Jens Ledet Jensen

A Dependent-Rates Model and an MCMC-Based Methodology for the Maximum-Likelihood Analysis of Sequences with Overlapping Reading Frames
Mol Biol Evol 2001 18: 763-776. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Ronald M. Adkins, Eric L. Gelke, Diane Rowe, and Rodney L. Honeycutt

Molecular Phylogeny and Divergence Time Estimates for Major Rodent Groups: Evidence from Multiple Genes
Mol Biol Evol 2001 18: 777-791. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Huai-Chun Wang, Jonathan Badger, Paul Kearney, and Ming Li

Analysis of Codon Usage Patterns of Bacterial Genomes Using the Self-Organizing Map
Mol Biol Evol 2001 18: 792-800. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

John Parsch, Colin D. Meiklejohn, Elisabeth Hauschteck-Jungen, Peter Hunziker, and Daniel L. Hartl

Molecular Evolution of the ocnus and janus Genes in the Drosophila melanogaster Species Subgroup
Mol Biol Evol 2001 18: 801-811. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Yasuhiro Kitazoe, Yukio Kurihara, Yuichi Narita, Yoshiyasu Okuhara, Akira Tominaga, and Tomohiko Suzuki

A New Theory of Phylogeny Inference Through Construction of Multidimensional Vector Space
Mol Biol Evol 2001 18: 812-828. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Jan O. Andersson and Siv G. E. Andersson

Pseudogenes, Junk DNA, and the Dynamics of Rickettsia Genomes
Mol Biol Evol 2001 18: 829-839. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Alex D. Greenwood, Fred Lee, Cristian Capelli, Robert DeSalle, Alexei Tikhonov, Preston A. Marx, and Ross D. E. MacPhee

Evolution of Endogenous Retrovirus-like Elements of the Woolly Mammoth (Mammuthus primigenius) and its Relatives
Mol Biol Evol 2001 18: 840-847. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Yoko Kubo, Satoshi Okazaki, Tomohiro Anzai, and Haruhiko Fujiwara

Structural and Phylogenetic Analysis of TRAS, Telomeric Repeat-Specific Non-LTR Retrotransposon Families in Lepidopteran Insects
Mol Biol Evol 2001 18: 848-857. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Renfu Shao, Nick J. H. Campbell, and Stephen C. Barker

Numerous Gene Rearrangements in the Mitochondrial Genome of the Wallaby Louse, Heterodoxus macropus (Phthiraptera)
Mol Biol Evol 2001 18: 858-865. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Nicolas Galtier

Maximum-Likelihood Phylogenetic Analysis Under a Covarion-like Model
Mol Biol Evol 2001 18: 866-873. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Kevin P. Johnson and Jon Seger

Elevated Rates of Nonsynonymous Substitution in Island Birds
Mol Biol Evol 2001 18: 874-881. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Javier Terol, Mari Cruz Castillo, Mónica Bargues, Manuel Pérez-Alonso, and Rosa de Frutos

Structural and Evolutionary Analysis of the copia-like Elements in the Arabidopsis thaliana Genome
Mol Biol Evol 2001 18: 882-892. [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Letters to the Editor:

Zhijian Tu and Stephanos P. Orphanidis

Microuli, a Family of Miniature Subterminal Inverted-Repeat Transposable Elements (MSITEs): Transposition Without Terminal Inverted Repeats
Mol Biol Evol 2001 18: 893-895. [Extract] [FREE Full Text] [PDF] [Request Permissions]  

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