Molecular Biology and Evolution

1 October 2008

Abstract Research Article

Junichi Sugahara, Kaoru Kikuta, Kosuke Fujishima, Nozomu Yachie, Masaru Tomita, and Akio Kanai
Comprehensive analysis of archaeal tRNA genes reveals rapid increase of tRNA introns in the order Thermoproteales
MBE Advance Access published on October 1, 2008.
doi:10.1093/molbev/msn216
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Abstract Research Article

Brian C. Verrelli, Cecil M. Lewis Jr., Anne C. Stone, and George H. Perry
Different Selective Pressures Shape the Molecular Evolution of Color Vision in Chimpanzee and Human Populations
MBE Advance Access published on October 1, 2008.
doi:10.1093/molbev/msn220
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Abstract Research Article

Cynthia C. Steiner, Holger Römpler, Linda M. Boettger, Torsten Schöneberg, and Hopi E. Hoekstra
The genetic basis of phenotypic convergence in beach mice: similar pigment patterns but different genes
MBE Advance Access published on October 1, 2008.
doi:10.1093/molbev/msn218
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26 September 2008

Abstract Research Article Tomislav Domazet-Loso and Diethard Tautz An ancient evolutionary origin of genes associated with human genetic diseases MBE Advance Access published on September 26, 2008. doi:10.1093/molbev/msn214 [Abstract] [Accepted Manuscript] [Supplementary Data]     OPEN ACCESS ARTICLE

Abstract Research Article

Austin L. Hughes and Robert Friedman
Genome Size Reduction in the Chicken has Involved Massive Loss of Ancestral Protein-Coding Genes
MBE Advance Access published on September 26, 2008.
doi:10.1093/molbev/msn207
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Abstract Article Chih-Horng Kuo, John P. Wares, and Jessica C. Kissinger The apicomplexan whole genome phylogeny: an analysis of incongruence among gene trees MBE Advance Access published on September 26, 2008. doi:10.1093/molbev/msn213 [Abstract] [Accepted Manuscript] [Supplementary Data]     OPEN ACCESS ARTICLE

Abstract Research Article

Mayako Kutsukake, Naruo Nikoh, Harunobu Shibao, Claude Ripse, Jean-Christophe Simon, and Takema Fukatsu
Evolution of Soldier-Specific Venomous Protease in Social Aphids
MBE Advance Access published on September 26, 2008.
doi:10.1093/molbev/msn203
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23 September 2008

Abstract Letter

Hong Chen, Lin Xu, and Zhenglong Gu
Regulation dynamics of WGD genes during yeast metabolic oscillation
MBE Advance Access published on September 23, 2008.
doi:10.1093/molbev/msn212
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22 September 2008

Abstract Research Article

Steven E Massey
The Proteomic Constraint and its role in molecular evolution
MBE Advance Access published on September 22, 2008.
doi:10.1093/molbev/msn210
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17 September 2008

Abstract Research Article

John Wakeley
Conditional Gene Genealogies under Strong Purifying Selection
MBE Advance Access published on September 17, 2008.
doi:10.1093/molbev/msn209
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Abstract Research Article Jacob A. Tennessen and Michael S. Blouin Balancing selection at a frog antimicrobial peptide locus: fluctuating immune effector alleles? MBE Advance Access published on September 17, 2008. doi:10.1093/molbev/msn208 [Abstract] [Accepted Manuscript] [Supplementary Data] [Supplementary Data]     OPEN ACCESS ARTICLE

Abstract Research Article

Ruth Frommolt, Sonja Werner, Harald Paulsen, Reimund Goss, Christian Wilhelm, Stefan Zauner, Uwe G. Maier, Arthur R. Grossman, Debashish Bhattacharya, and Martin Lohr
Ancient Recruitment by Chromists of Green Algal Genes Encoding Enzymes for Carotenoid Biosynthesis
MBE Advance Access published on September 17, 2008.
doi:10.1093/molbev/msn206
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Abstract Research Article

Anthony J. Greenberg, Sarah R. Stockwell, and Andrew G. Clark
Evolutionary constraint and adaptation in the metabolic network of Drosophila
MBE Advance Access published on September 17, 2008.
doi:10.1093/molbev/msn205
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Abstract Research Article

Sean Michael Carroll, Jamie T. Bridgham, and Joseph W. Thornton
Evolution of hormone signaling in elasmobranchs by exploitation of promiscuous receptors
MBE Advance Access published on September 17, 2008.
doi:10.1093/molbev/msn204
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15 September 2008

Abstract Article

Mikael Brandström, Andrew T Bagshaw, Neil J Gemmell, and Hans Ellegren
The relationship between microsatellite polymorphism and recombination hotspots in the human genome
MBE Advance Access published on September 15, 2008.
doi:10.1093/molbev/msn201
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12 September 2008

Abstract Article

Orsolya Symmons, András Váradi, and Tamás Arányi
How segmental duplications shape our genome: recent evolution of ABCC6 and PKD1 Mendelian disease genes
MBE Advance Access published on September 12, 2008.
doi:10.1093/molbev/msn202
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9 September 2008

Abstract Research Article

Federico G. Hoffmann, Juan C. Opazo, and Jay F. Storz
New Genes Originated via Multiple Recombinational Pathways in the β-Globin Gene Family of Rodents
MBE Advance Access published on September 9, 2008.
doi:10.1093/molbev/msn200
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Abstract Research Article Maria D. S. Nunes, Viola Nolte, and Christian Schlötterer Non-Random Wolbachia Infection Status Of Drosophila melanogaster Strains With Different MtDNA Haplotypes MBE Advance Access published on September 9, 2008. doi:10.1093/molbev/msn199 [Abstract] [Accepted Manuscript] [Supplementary Data]     OPEN ACCESS ARTICLE

8 September 2008

Abstract Research Article N.C. Sheffield, H. Song, S.L. Cameron, and M.F. Whiting A comparative analysis of mitochondrial genomes in Coleoptera (Arthropoda: Insecta) and genome descriptions of six new beetles MBE Advance Access published on September 8, 2008. doi:10.1093/molbev/msn198 [Abstract] [Accepted Manuscript] [Supplementary Data]     OPEN ACCESS ARTICLE

4 September 2008

Abstract Research Article

Ignacio Luque, María Loreto Riera-Alberola, Alfonso Andújar, and Jesús A. G. Ochoa de Alda
Intraphylum diversity and complex evolution of cyanobacterial aminoacyl-tRNA synthetases
MBE Advance Access published on September 4, 2008.
doi:10.1093/molbev/msn197
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Abstract Research Article

Ying Zhen and Mark C. Ungerer
Relaxed selection on the CBF/DREB1 regulatory genes and reduced freezing tolerance in the southern range of Arabidopsis thaliana
MBE Advance Access published on September 4, 2008.
doi:10.1093/molbev/msn196
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Abstract Research Article

Robert Piskol and Wolfgang Stephan
Analyzing the Evolution of RNA Secondary Structures in Vertebrate Introns Using Kimura's Model of Compensatory Fitness Interactions
MBE Advance Access published on September 4, 2008.
doi:10.1093/molbev/msn195
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Abstract Research Article

Anna E Palmé, Mark Wright, and Outi Savolainen
Patterns of divergence among conifer ESTs and polymorphism in Pinus sylvestris identify putative selective sweeps
MBE Advance Access published on September 4, 2008.
doi:10.1093/molbev/msn194
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2 September 2008

Abstract Research Article Vicente Pérez-Brocal and C. Graham Clark Analysis of two genomes from the mitochondrion-like organelle of the intestinal parasite Blastocystis: Complete sequences, gene content and genome organization MBE Advance Access published on September 2, 2008. doi:10.1093/molbev/msn193 [Abstract] [Accepted Manuscript] [Supplementary Data]     OPEN ACCESS ARTICLE

Abstract Research Article Takeshi Tsuru and Ichizo Kobayashi Multiple genome comparison within a bacterial species reveals a unit of evolution spanning two adjacent genes in a tandem paralog cluster MBE Advance Access published on September 2, 2008. doi:10.1093/molbev/msn192 [Abstract] [Accepted Manuscript] [Supplementary Material]     OPEN ACCESS ARTICLE

28 August 2008

Abstract Research Article

Shamoni Maheshwari, Jun Wang, and Daniel A Barbash
Recurrent positive selection of the Drosophila hybrid incompatibility gene Hmr
MBE Advance Access published on August 28, 2008.
doi:10.1093/molbev/msn190
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Abstract Research Article

Saverio Vicario, Christopher E. Mason, Kevin P. White, and Jeffrey R. Powell
Developmental Stage and Level of Codon Usage Bias in Drosophila
MBE Advance Access published on August 28, 2008.
doi:10.1093/molbev/msn189
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26 August 2008

Abstract Letter

Uwe K. Simon and Michael Weiß
Intragenomic Variation of Fungal Ribosomal Genes is higher than Previously Thought
MBE Advance Access published on August 26, 2008.
doi:10.1093/molbev/msn188
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Abstract Research Article

Michael S. Barker, Nolan C. Kane, Marta Matvienko, Alexander Kozik, Richard W. Michelmore, Steven J. Knapp, and Loren H. Rieseberg
Multiple paleopolyploidizations during the evolution of the Compositae reveal parallel patterns of duplicate gene retention after millions of years
MBE Advance Access published on August 26, 2008.
doi:10.1093/molbev/msn187
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25 August 2008

Abstract Research Article

Michael Lynch
Estimation of Nucleotide Diversity, Disequilibrium Coefficients, and Mutation Rates from High-coverage Genome-sequencing Projects
MBE Advance Access published on August 25, 2008.
doi:10.1093/molbev/msn185
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22 August 2008

Abstract Research Article

Mohamed A. F. Noor
Mutagenesis from meiotic recombination is not a primary driver of sequence divergence between Saccharomyces species
MBE Advance Access published on August 22, 2008.
doi:10.1093/molbev/msn186
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21 August 2008

Abstract Letter

Farhan Ali and Rudolf Meier
Positive selection in ASPM is correlated with cerebral cortex evolution across primates but not with whole brain size
MBE Advance Access published on August 21, 2008.
doi:10.1093/molbev/msn184
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Abstract Research Article

Justin C. Havird, Michael M. Miyamoto, Keith P. Choe, and David H. Evans
Gene duplications and losses within the cyclooxygenase family of teleosts and other chordates
MBE Advance Access published on August 21, 2008.
doi:10.1093/molbev/msn183
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20 August 2008

Abstract Research Article

Robert C. Karn, Nathaniel L. Clark, Eric D. Nguyen, and Willie J. Swanson
Adaptive Evolution in Rodent Seminal Vesicle Secretion Proteins
MBE Advance Access published on August 20, 2008.
doi:10.1093/molbev/msn182
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Abstract Research Article

Sergio Barberan-Soler and Alan M. Zahler
Alternative splicing and the steady-state ratios of mRNA isoforms generated by it are under strong stabilizing selection in C. elegans
MBE Advance Access published on August 20, 2008.
doi:10.1093/molbev/msn181
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14 August 2008

Abstract Research Article

Kálmán Somogyi, Botond Sipos, Zsolt Pénzes, Éva Kurucz, János Zsámboki, Dan Hultmark, and István Andó
Evolution of genes and repeats in the Nimrod superfamily Research article
MBE Advance Access published on August 14, 2008.
doi:10.1093/molbev/msn180
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13 August 2008

Abstract Research Article

Paula Juárez, Iñaki Comas, Fernando González-Candelas, and Juan J. Calvete
Evolution of snake venom disintegrins by positive darwinian selection
MBE Advance Access published on August 13, 2008.
doi:10.1093/molbev/msn179
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12 August 2008

Abstract Research Article

Victor Soria-Carrasco and Jose Castresana
Estimation of Phylogenetic Inconsistencies in the Three Domains of Life
MBE Advance Access published on August 12, 2008.
doi:10.1093/molbev/msn176
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11 August 2008

Abstract Research Article

Pascal-Antoine Christin, Nicolas Salamin, A. Muthama Muasya, Eric H. Roalson, Flavien Russier, and Guillaume Besnard
Evolutionary switch and genetic convergence on rbcL following the evolution of C₄ photosynthesis
MBE Advance Access published on August 11, 2008.
doi:10.1093/molbev/msn178
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9 August 2008

Abstract Research Article

Fernando Cruz, Carles Vilà, and Matthew T. Webster
The legacy of domestication: Accumulation of deleterious mutations in the dog genome
MBE Advance Access published on August 9, 2008.
doi:10.1093/molbev/msn177
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7 August 2008

Abstract Review Article

Douglas G. Scofield and Michael Lynch
Evolutionary diversification of the Sm family of RNA-associated proteins
MBE Advance Access published on August 7, 2008.
doi:10.1093/molbev/msn175
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6 August 2008

Abstract Research Article

Shimon Bershtein and Dan S. Tawfik
Ohno's model revisited: Measuring the frequency of potentially adaptive mutations under various mutational drifts
MBE Advance Access published on August 6, 2008.
doi:10.1093/molbev/msn174
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Abstract Research Article

Paul G. Higgs and Wenqi Ran
Coevolution of Codon Usage and tRNA Genes Leads to Alternative Stable States of Biased Codon Usage
MBE Advance Access published on August 6, 2008.
doi:10.1093/molbev/msn173
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5 August 2008

Abstract Research Article

Federico Squartini and Peter F. Arndt
Quantifying the Stationarity and Time Reversibility of the Nucleotide Substitution Process
MBE Advance Access originally published on August 5, 2008. This version published August 14, 2008.
doi:10.1093/molbev/msn169
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4 August 2008

Abstract Research Article

Séverine Jancek, Sébastien Gourbière, Hervé Moreau, and Gwenaël Piganeau
Clues about the genetic basis of adaptation emerge from comparing the proteomes of two Ostreococcus ecotypes (Chlorophyta, Prasinophyceae)
MBE Advance Access originally published on August 4, 2008. This version published August 22, 2008.
doi:10.1093/molbev/msn168
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16 August 2007

Retraction

Jing He, David M. Irwin, and Ya-ping Zhang
Insights into the evolution of themotilin/ghrelin-associated family and their receptors
MBE Advance Access originally published on August 16, 2007. This version published September 26, 2008.
doi:10.1093/molbev/msm161
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