Molecular Biology and Evolution

Letters

Get checked abstract Federico Abascal, David Posada, and Rafael Zardoya

MtArt: A New Model of Amino Acid Replacement for Arthropoda
MBE Advance Access published on October 16, 2006
Mol Biol Evol 2007 24: 1-5; doi:10.1093/molbev/msl136 [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Get checked abstract Denis Baurain, Henner Brinkmann, and Hervé Philippe

Lack of Resolution in the Animal Phylogeny: Closely Spaced Cladogeneses or Undetected Systematic Errors?
MBE Advance Access published on September 29, 2006
Mol Biol Evol 2007 24: 6-9; doi:10.1093/molbev/msl137 [Abstract] [FREE Full Text] [PDF] [Supplementary Material] [Request Permissions]  

Get checked abstract Ian Henry and Paul M. Sharp

Predicting Gene Expression Level from Codon Usage Bias
MBE Advance Access published on October 12, 2006
Mol Biol Evol 2007 24: 10-12; doi:10.1093/molbev/msl148 [Abstract] [FREE Full Text] [PDF] [Supplementary Material] [Request Permissions]  

Get checked abstract Einat Hazkani-Covo and Dan Graur

A Comparative Analysis of numt Evolution in Human and Chimpanzee
MBE Advance Access published on October 20, 2006
Mol Biol Evol 2007 24: 13-18; doi:10.1093/molbev/msl149 [Abstract] [FREE Full Text] [PDF] [Supplementary Material] [Request Permissions]  

Get checked abstract D Erpenbeck, O Voigt, M Adamski, M Adamska, JNA Hooper, G Wörheide, and BM Degnan

Mitochondrial Diversity of Early-Branching Metazoa Is Revealed by the Complete mt Genome of a Haplosclerid Demosponge
MBE Advance Access published on October 19, 2006
Mol Biol Evol 2007 24: 19-22; doi:10.1093/molbev/msl154 [Abstract] [FREE Full Text] [PDF] [Supplementary Material] [Request Permissions]  

Get checked abstract Zhongming Zhao and Cizhong Jiang

Methylation-Dependent Transition Rates Are Dependent on Local Sequence Lengths and Genomic Regions
MBE Advance Access published on October 20, 2006
Mol Biol Evol 2007 24: 23-25; doi:10.1093/molbev/msl156 [Abstract] [FREE Full Text] [PDF] [Supplementary Material] [Request Permissions]  

Review

Get checked abstract Michael J. Benton and Philip C. J. Donoghue

Paleontological Evidence to Date the Tree of Life
MBE Advance Access published on October 17, 2006
Mol Biol Evol 2007 24: 26-53; doi:10.1093/molbev/msl150 [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Research Articles

Get checked abstract Matthew B. Rogers, Paul R. Gilson, Vanessa Su, Geoffrey I. McFadden, and Patrick J. Keeling

The Complete Chloroplast Genome of the Chlorarachniophyte Bigelowiella natans: Evidence for Independent Origins of Chlorarachniophyte and Euglenid Secondary Endosymbionts
MBE Advance Access published on September 21, 2006
Mol Biol Evol 2007 24: 54-62; doi:10.1093/molbev/msl129 [Abstract] [FREE Full Text] [PDF] [Supplemantary Material] [Request Permissions]  

Get checked abstract Marcus A. Koch, Christoph Dobes, Christiane Kiefer, Roswitha Schmickl, Leos Klimes, and Martin A. Lysak

Supernetwork Identifies Multiple Events of Plastid trnF_(GAA) Pseudogene Evolution in the Brassicaceae
MBE Advance Access published on September 20, 2006
Mol Biol Evol 2007 24: 63-73; doi:10.1093/molbev/msl130 [Abstract] [FREE Full Text] [PDF] [Supplementary Material] [Request Permissions]  

Get checked abstract Katsunori Ogoh and Yoshihiro Ohmiya

Concerted Evolution of Duplicated Control Regions within an Ostracod Mitochondrial Genome
MBE Advance Access published on September 25, 2006
Mol Biol Evol 2007 24: 74-78; doi:10.1093/molbev/msl132 [Abstract] [FREE Full Text] [PDF] [Supplementary Material] [Request Permissions]  

Get checked abstract Heidi Kidron, Susanna Repo, Mark S. Johnson, and Tiina A. Salminen

Functional Classification of Amino Acid Decarboxylases from the Alanine Racemase Structural Family by Phylogenetic Studies
MBE Advance Access published on September 22, 2006
Mol Biol Evol 2007 24: 79-89; doi:10.1093/molbev/msl133 [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Get checked abstract Ann Willyard, John Syring, David S. Gernandt, Aaron Liston, and Richard Cronn

Fossil Calibration of Molecular Divergence Infers a Moderate Mutation Rate and Recent Radiations for Pinus
MBE Advance Access published on September 22, 2006
Mol Biol Evol 2007 24: 90-101; doi:10.1093/molbev/msl131 [Abstract] [FREE Full Text] [PDF] [Supplemantary Material] [Request Permissions]  

Get checked abstract Anne Geiger, Sophie Ravel, Thierry Mateille, Jérome Janelle, Delphine Patrel, Gérard Cuny, and Roger Frutos

Vector Competence of Glossina palpalis gambiensis for Trypanosoma brucei s.l. and Genetic Diversity of the Symbiont Sodalis glossinidius
MBE Advance Access published on September 29, 2006
Mol Biol Evol 2007 24: 102-109; doi:10.1093/molbev/msl135 [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Get checked abstract Brian R. Morton and Stephen I. Wright

Selective Constraints on Codon Usage of Nuclear Genes from Arabidopsis thaliana
MBE Advance Access published on October 4, 2006
Mol Biol Evol 2007 24: 122-129; doi:10.1093/molbev/msl139 [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Get checked abstract James A. Lake, Craig W. Herbold, Maria C. Rivera, Jacqueline A. Servin, and Ryan G. Skophammer

Rooting the Tree of Life Using Nonubiquitous Genes
MBE Advance Access published on October 5, 2006
Mol Biol Evol 2007 24: 130-136; doi:10.1093/molbev/msl140 [Abstract] [FREE Full Text] [PDF] [Supplementary Material] [Request Permissions]  

Get checked abstract Amanda J. Moehring, Katherine C. Teeter, and Mohamed A. F. Noor

Genome-Wide Patterns of Expression in Drosophila Pure Species and Hybrid Males. II. Examination of Multiple-Species Hybridizations, Platforms, and Life Cycle Stages
MBE Advance Access published on October 10, 2006
Mol Biol Evol 2007 24: 137-145; doi:10.1093/molbev/msl142 [Abstract] [FREE Full Text] [PDF] [Supplementary Material] [Request Permissions]  

Get checked abstract O Thalmann, A Fischer, F Lankester, S Pääbo, and L Vigilant

The Complex Evolutionary History of Gorillas: Insights from Genomic Data
MBE Advance Access published on October 25, 2006
Mol Biol Evol 2007 24: 146-158; doi:10.1093/molbev/msl160 [Abstract] [FREE Full Text] [PDF] [Supplementary Material] [Request Permissions]  

Get checked abstract Sergei L. Kosakovsky Pond, Frank V. Mannino, Michael B. Gravenor, Spencer V. Muse, and Simon D. W. Frost

Evolutionary Model Selection with a Genetic Algorithm: A Case Study Using Stem RNA
MBE Advance Access published on October 12, 2006
Mol Biol Evol 2007 24: 159-170; doi:10.1093/molbev/msl144 [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Get checked abstract Scott William Roy and David Penny

Patterns of Intron Loss and Gain in Plants: Intron Loss–Dominated Evolution and Genome-Wide Comparison of O. sativa and A. thaliana
MBE Advance Access published on October 25, 2006
Mol Biol Evol 2007 24: 171-181; doi:10.1093/molbev/msl159 [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Get checked abstract Vanessa L. Bauer DuMont, Heather A. Flores, Mark H. Wright, and Charles F. Aquadro

Recurrent Positive Selection at Bgcn, a Key Determinant of Germ Line Differentiation, Does Not Appear to be Driven by Simple Coevolution with Its Partner Protein Bam
MBE Advance Access published on October 20, 2006
Mol Biol Evol 2007 24: 182-191; doi:10.1093/molbev/msl141 [Abstract] [FREE Full Text] [PDF] [Supplementary Material] [Request Permissions]  

Get checked abstract William R. Atchley and Jieping Zhao

Molecular Architecture of the DNA-Binding Region and Its Relationship to Classification of Basic Helix–Loop–Helix Proteins
MBE Advance Access published on October 13, 2006
Mol Biol Evol 2007 24: 192-202; doi:10.1093/molbev/msl143 [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Get checked abstract Anthony Boureux, Emmanuel Vignal, Sandrine Faure, and Philippe Fort

Evolution of the Rho Family of Ras-Like GTPases in Eukaryotes
MBE Advance Access published on October 11, 2006
Mol Biol Evol 2007 24: 203-216; doi:10.1093/molbev/msl145 [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Get checked abstract B Kilian, H Özkan, O Deusch, S Effgen, A Brandolini, J Kohl, W Martin, and F Salamini

Independent Wheat B and G Genome Origins in Outcrossing Aegilops Progenitor Haplotypes
MBE Advance Access published on October 19, 2006
Mol Biol Evol 2007 24: 217-227; doi:10.1093/molbev/msl151 [Abstract] [FREE Full Text] [PDF] [Supplementary Material] [Request Permissions]  

Get checked abstract Rasmus Nielsen, Vanessa L. Bauer DuMont, Melissa J. Hubisz, and Charles F. Aquadro

Maximum Likelihood Estimation of Ancestral Codon Usage Bias Parameters in Drosophila
MBE Advance Access published on October 13, 2006
Mol Biol Evol 2007 24: 228-235; doi:10.1093/molbev/msl146 [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Get checked abstract Alberto Rissone, Matteo Monopoli, Monica Beltrame, Federico Bussolino, Franco Cotelli, and Marco Arese

Comparative Genome Analysis of the Neurexin Gene Family in Danio rerio: Insights into Their Functions and Evolution
MBE Advance Access published on October 13, 2006
Mol Biol Evol 2007 24: 236-252; doi:10.1093/molbev/msl147 [Abstract] [FREE Full Text] [PDF] [Supplementary Material] [Request Permissions]  

Get checked abstract Megan L. Porter, Thomas W. Cronin, David A. McClellan, and Keith A. Crandall

Molecular Characterization of Crustacean Visual Pigments and the Evolution of Pancrustacean Opsins
MBE Advance Access published on October 19, 2006
Mol Biol Evol 2007 24: 253-268; doi:10.1093/molbev/msl152 [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Get checked abstract Gillian C. Gibb, Olga Kardailsky, Rebecca T. Kimball, Edward L. Braun, and David Penny

Mitochondrial Genomes and Avian Phylogeny: Complex Characters and Resolvability without Explosive Radiations
MBE Advance Access published on October 24, 2006
Mol Biol Evol 2007 24: 269-280; doi:10.1093/molbev/msl158 [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Get checked abstract Keiiti Anan, Nobuaki Yoshida, Yuki Kataoka, Mitsuharu Sato, Hirotake Ichise, Makoto Nasu, and Shintaroh Ueda

Morphological Change Caused by Loss of the Taxon-Specific Polyalanine Tract in Hoxd-13
MBE Advance Access published on October 25, 2006
Mol Biol Evol 2007 24: 281-287; doi:10.1093/molbev/msl161 [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Get checked abstract M Casanellas and J Fernández-Sánchez

Performance of a New Invariants Method on Homogeneous and Nonhomogeneous Quartet Trees
MBE Advance Access published on October 19, 2006
Mol Biol Evol 2007 24: 288-293; doi:10.1093/molbev/msl153 [Abstract] [FREE Full Text] [PDF] [Supplementary Material] [Request Permissions]  

Get checked abstract Huai-Chun Wang, Matthew Spencer, Edward Susko, and Andrew J. Roger

Testing for Covarion-like Evolution in Protein Sequences
MBE Advance Access published on October 20, 2006
Mol Biol Evol 2007 24: 294-305; doi:10.1093/molbev/msl155 [Abstract] [FREE Full Text] [PDF] [Supplementary Material] [Request Permissions]  

Get checked abstract Daven C. Presgraves and Wolfgang Stephan

Pervasive Adaptive Evolution among Interactors of the Drosophila Hybrid Inviability Gene, Nup96
MBE Advance Access published on October 20, 2006
Mol Biol Evol 2007 24: 306-314; doi:10.1093/molbev/msl157 [Abstract] [FREE Full Text] [PDF] [Supplementary Material] [Request Permissions]  

Get checked abstract Catrióna R. Johnston, Colm O'Dushlaine, David A. Fitzpatrick, Richard J. Edwards, and Denis C. Shields

Evaluation of Whether Accelerated Protein Evolution in Chordates Has Occurred before, after, or Simultaneously with Gene Duplication
MBE Advance Access published on October 25, 2006
Mol Biol Evol 2007 24: 315-323; doi:10.1093/molbev/msl162 [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Get checked abstract Guohua Jin, Luay Nakhleh, Sagi Snir, and Tamir Tuller

Inferring Phylogenetic Networks by the Maximum Parsimony Criterion: A Case Study
MBE Advance Access published on October 26, 2006
Mol Biol Evol 2007 24: 324-337; doi:10.1093/molbev/msl163 [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

Get checked abstract Vera B. Kaiser, Marcel van Tuinen, and Hans Ellegren

Insertion Events of CR1 Retrotransposable Elements Elucidate the Phylogenetic Branching Order in Galliform Birds
MBE Advance Access published on October 31, 2006
Mol Biol Evol 2007 24: 338-347; doi:10.1093/molbev/msl164 [Abstract] [FREE Full Text] [PDF] [Request Permissions]  

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