Molecular Biology and Evolution

Letter:

Oliver Clay and Giorgio Bernardi

How Not to Search for Isochores: A Reply to Cohen et al
MBE Advance Access published on August 10, 2005
Mol Biol Evol 2005 22: 2315-2317; doi:10.1093/molbev/msi231 [Abstract] [Full Text] [PDF] [Request Permissions]  

Review:

Masatoshi Nei

Selectionism and Neutralism in Molecular Evolution
MBE Advance Access published on August 24, 2005
Mol Biol Evol 2005 22: 2318-2342; doi:10.1093/molbev/msi242 [Abstract] [Full Text] [PDF] [Request Permissions]  

Research Articles:

Miroslav Oborník and Beverley R. Green

Mosaic Origin of the Heme Biosynthesis Pathway in Photosynthetic Eukaryotes
MBE Advance Access published on August 10, 2005
Mol Biol Evol 2005 22: 2343-2353; doi:10.1093/molbev/msi230 [Abstract] [Full Text] [PDF] [Supplementary Material]  [Request Permissions]  

Rachel J. Whitaker, Dennis W. Grogan, and John W. Taylor

Recombination Shapes the Natural Population Structure of the Hyperthermophilic Archaeon Sulfolobus islandicus
MBE Advance Access published on August 10, 2005
Mol Biol Evol 2005 22: 2354-2361; doi:10.1093/molbev/msi233 [Abstract] [Full Text] [PDF] [Supplementary Material]  [Request Permissions]  

Tim J. C. Anderson, Shalini Nair, Dan Sudimack, Jeff T. Williams, Mayfong Mayxay, Paul N. Newton, Jean-Paul Guthmann, Frank M. Smithuis, Tran Tinh Hien, Ingrid V.F. van den Broek, Nicholas J. White, and François Nosten

Geographical Distribution of Selected and Putatively Neutral SNPs in Southeast Asian Malaria Parasites
MBE Advance Access published on August 10, 2005
Mol Biol Evol 2005 22: 2362-2374; doi:10.1093/molbev/msi235 [Abstract] [Full Text] [PDF] [Supplementary Material] [Supplementary Material]  [Request Permissions]  

Sergei Kosakovsky Pond and Spencer V. Muse

Site-to-Site Variation of Synonymous Substitution Rates
MBE Advance Access published on August 17, 2005
Mol Biol Evol 2005 22: 2375-2385; doi:10.1093/molbev/msi232 [Abstract] [Full Text] [PDF] [Supplementary Material]  [Request Permissions]  

Jongmin Nam and Masatoshi Nei

Evolutionary Change of the Numbers of Homeobox Genes in Bilateral Animals
MBE Advance Access published on August 3, 2005
Mol Biol Evol 2005 22: 2386-2394; doi:10.1093/molbev/msi229 [Abstract] [Full Text] [PDF] [Supplementary Material]  [Request Permissions]  

Abdel Aouacheria, Frédéric Brunet, and Manolo Gouy

Phylogenomics of Life-Or-Death Switches in Multicellular Animals: Bcl-2, BH3-Only, and BNip Families of Apoptotic Regulators
MBE Advance Access published on August 10, 2005
Mol Biol Evol 2005 22: 2395-2416; doi:10.1093/molbev/msi234 [Abstract] [Full Text] [PDF] [Supplementary Material]  [Request Permissions]  

Flávio S. J. de Souza, Viviana F. Bumaschny, Malcolm J. Low, and Marcelo Rubinstein

Subfunctionalization of Expression and Peptide Domains Following the Ancient Duplication of the Proopiomelanocortin Gene in Teleost Fishes
MBE Advance Access published on August 10, 2005
Mol Biol Evol 2005 22: 2417-2427; doi:10.1093/molbev/msi236 [Abstract] [Full Text] [PDF] [Request Permissions]  

Koji Inoue, Takashi Sakamoto, Shinya Yuge, Hozi Iwatani, Sayaka Yamagami, Makiko Tsutsumi, Hiroshi Hori, Maria Carmela Cerra, Bruno Tota, Norio Suzuki, Nobuaki Okamoto, and Yoshio Takei

Structural and Functional Evolution of Three Cardiac Natriuretic Peptides
MBE Advance Access published on August 24, 2005
Mol Biol Evol 2005 22: 2428-2434; doi:10.1093/molbev/msi243 [Abstract] [Full Text] [PDF] [Request Permissions]  

Nadin Rohland, Joshua L. Pollack, Doris Nagel, Cédric Beauval, Jean Airvaux, Svante Pääbo, and Michael Hofreiter

The Population History of Extant and Extinct Hyenas
MBE Advance Access published on August 24, 2005
Mol Biol Evol 2005 22: 2435-2443; doi:10.1093/molbev/msi244 [Abstract] [Full Text] [PDF] [Supplementary Material]  [Request Permissions]  

Mariana Mondragon-Palomino and Brandon S. Gaut

Gene Conversion and the Evolution of Three Leucine-Rich Repeat Gene Families in Arabidopsis thaliana
MBE Advance Access published on August 24, 2005
Mol Biol Evol 2005 22: 2444-2456; doi:10.1093/molbev/msi241 [Abstract] [Full Text] [PDF] [Supplementary Material]  [Request Permissions]  

Miklós Csurös and István Miklós

Statistical Alignment of Retropseudogenes and Their Functional Paralogs
MBE Advance Access published on August 17, 2005
Mol Biol Evol 2005 22: 2457-2471; doi:10.1093/molbev/msi238 [Abstract] [Full Text] [PDF] [Supplementary Material]  [Request Permissions]  

Jianzhi Zhang, Rasmus Nielsen, and Ziheng Yang

Evaluation of an Improved Branch-Site Likelihood Method for Detecting Positive Selection at the Molecular Level
MBE Advance Access published on August 17, 2005
Mol Biol Evol 2005 22: 2472-2479; doi:10.1093/molbev/msi237 [Abstract] [Full Text] [PDF] [Request Permissions]  

David A. Moeller and Peter Tiffin

Genetic Diversity and the Evolutionary History of Plant Immunity Genes in Two Species of Zea
MBE Advance Access published on August 24, 2005
Mol Biol Evol 2005 22: 2480-2490; doi:10.1093/molbev/msi247 [Abstract] [Full Text] [PDF] [Supplementary Material]  [Request Permissions]  

Raymond J. Pierce, Wenjie Wu, Hirohisa Hirai, Al Ivens, Lee D. Murphy, Christophe Noël, David A. Johnston, François Artiguenave, Martin Adams, Jocelyne Cornette, Eric Viscogliosi, Monique Capron, and Guillaume Balavoine

Evidence for a Dispersed Hox Gene Cluster in the Platyhelminth Parasite Schistosoma mansoni
MBE Advance Access published on August 24, 2005
Mol Biol Evol 2005 22: 2491-2503; doi:10.1093/molbev/msi239 [Abstract] [Full Text] [PDF] [Supplementary Material]  [Request Permissions]  

Liqing Zhang and Wen-Hsiung Li

Human SNPs Reveal No Evidence of Frequent Positive Selection
MBE Advance Access published on August 17, 2005
Mol Biol Evol 2005 22: 2504-2507; doi:10.1093/molbev/msi240 [Abstract] [Full Text] [PDF] [Request Permissions]  

Vladimír Hampl, David S. Horner, Patricia Dyal, Jaroslav Kulda, Jaroslav Flegr, Peter G. Foster, and T. Martin Embley

Inference of the Phylogenetic Position of Oxymonads Based on Nine Genes: Support for Metamonada and Excavata
MBE Advance Access published on August 24, 2005
Mol Biol Evol 2005 22: 2508-2518; doi:10.1093/molbev/msi245 [Abstract] [Full Text] [PDF] [Supplementary Material]  [Request Permissions]  

Josep M. Comeron and Theodore B. Guthrie

Intragenic Hill-Robertson Interference Influences Selection Intensity on Synonymous Mutations in Drosophila
MBE Advance Access published on August 24, 2005
Mol Biol Evol 2005 22: 2519-2530; doi:10.1093/molbev/msi246 [Abstract] [Full Text] [PDF] [Request Permissions]  

K. Scheffler and C. Seoighe

A Bayesian Model Comparison Approach to Inferring Positive Selection
MBE Advance Access published on August 24, 2005
Mol Biol Evol 2005 22: 2531-2540; doi:10.1093/molbev/msi250 [Abstract] [Full Text] [PDF] [Supplementary Material]  [Request Permissions]  

Fabio Verginelli, Cristian Capelli, Valentina Coia, Marco Musiani, Mario Falchetti, Laura Ottini, Raffaele Palmirotta, Antonio Tagliacozzo, Iacopo De Grossi Mazzorin, and Renato Mariani-Costantini

Mitochondrial DNA from Prehistoric Canids Highlights Relationships Between Dogs and South-East European Wolves
MBE Advance Access published on August 24, 2005
Mol Biol Evol 2005 22: 2541-2551; doi:10.1093/molbev/msi248 [Abstract] [Full Text] [PDF] [Supplementary Material]  [Request Permissions]  

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