Molecular Biology and Evolution - 27 (4), IV 2010

Volume 27 Issue 4 April 2010

LETTERS

POPTREE2: Software for Constructing Population Trees from Allele Frequency Data and Computing Other Population Statistics with Windows Interface
Naoko Takezaki, Masatoshi Nei, and Koichiro Tamura

Evolution of Relative Reading Frame Bias in Unidirectional Prokaryotic Gene Overlaps
Peter J.A. Cock and David E. Whitworth

Rapid Proliferation of Repetitive Palindromic Elements in mtDNA of the Endemic Baikalian Sponge Lubomirskia baicalensis
Dennis V. Lavrov

RESEARCH ARTICLES

Inferring the Evolutionary History of Gene Clusters from Phylogenetic and Gene Order Data
Mathieu Lajoie, Denis Bertrand, and Nadia El-Mabrouk

Phylogenetic Analysis of Gene Structure and Alternative Splicing in a -Actinins
Monkol Lek, Daniel G. MacArthur, Nan Yang, and Kathryn N. North

Intragenic Recombination Events and Evidence for Hybrid Speciation in Nicotiana (Solanaceae)
Laura J. Kelly, Andrew R. Leitch, James J. Clarkson, Robin B. Hunter, Sandra Knapp, and Mark W. Chase

Modal Codon Usage: Assessing the Typical Codon Usage of a Genome
James J. Davis and Gary J. Olsen

Epidemic Dynamics Revealed in Dengue Evolution
S.N. Bennett, A.J. Drummond, D.D. Kapan, M.A. Suchard, J.L. Munoz-Jordán, O.G. Pybus, E.C. Holmes, and D.J. Gubler

Phylogenetic Analysis of Population-Based and Deep Sequencing Data to Identify Coevolving Sites in the nef Gene of HIV-1
Art F.Y. Poon, Luke C. Swenson, Winnie W.Y. Dong, Wenjie Deng, Sergei L. Kosakovsky Pond, Zabrina L. Brumme, James I. Mullins, Douglas D. Richman, P. Richard Harrigan, and Simon D.W. Frost

Slip into Something More Functional: Selection Maintains Ancient Frameshifts in Homopolymeric Sequences
Jennifer J. Wernegreen, Seth N. Kauppinen, and Patrick H. Degnan

An Evolutionary Genome Scan for Longevity-Related Natural Selection in Mammals
Richard W. Jobson, Benoit Nabholz, and Nicolas Galtier

Recombination Yet Inefficient Selection along the Drosophila melanogaster Subgroup’s Fourth Chromosome
J. Roman Arguello, Yue Zhang, Tomoyuki Kado, Chuanzhu Fan, Ruoping Zhao, Hideki Innan, WenWang, Manyuan Long

Origin and Diversification of Basic-Helix-Loop-Helix Proteins in Plants
Nuno Pires and Liam Dolan

Inferring Genealogical Processes from Patterns of Bronze-Age and Modern DNA Variation in Sardinia
Silvia Ghirotto, Stefano Mona, Andrea Benazzo, Francesco Paparazzo, David Caramelli, and Guido Barbujani

The Mitochondrial Porin, VDAC, Has Retained the Ability to Be Assembled in the Bacterial Outer Membrane
Dirk M. Walther, Martine P. Bos, Doron Rapaport, and Jan Tommassen

On the Estimation of the Insertion Time of LTR Retrotransposable Elements
T.E. Kijima and Hideki Innan

Isolation with Migration Models for More Than Two Populations
Jody Hey

The Divergence of Chimpanzee Species and Subspecies as Revealed in Multipopulation Isolation-with-Migration Analyses
Jody Hey

Exploring the Differences in Evolutionary Rates between Monogenic and Polygenic Disease Genes in Human
Soumita Podder and Tapash C. Ghosh

Multiple Evolutionary Rate Classes in Animal Genome Evolution
Christopher Oldmeadow, Kerrie Mengersen, John S. Mattick, and Jonathan M. Keith

Accelerated Mutation Accumulation in Asexual Lineages of a Freshwater Snail
Maurine Neiman, Gery Hehman, Joseph T. Miller, John M. Logsdon Jr, and Douglas R. Taylor

Nineteenth Century Seeds Reveal the Population Genetics of Landrace Barley ( Hordeum vulgare )
Matti W. Leino and Jenny Hagenblad

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