Molecular Biology and Evolution

Comparative Genomics of Centrality and Essentiality in Three Eukaryotic Protein-Interaction Networks
pp. 803-806(4)
Authors: Hahn, Matthew W.; Kern, Andrew D.

Gene “Volatility” Is Most Unlikely to Reveal Adaptation
pp. 807-809(3)
Author: Sharp, Paul M.

Sister Group Relationship of Turtles to the Bird-Crocodilian Clade Revealed by Nuclear DNA–Coded Proteins
pp. 810-813(4)
Authors: Iwabe, Naoyuki; Hara, Yuichiro; Kumazawa, Yoshinori; Shibamoto, Kaori; Saito, Yumi; Miyata, Takashi; Katoh, Kazutaka

High Copy Number in Human Endogenous Retrovirus Families is Associated with Copying Mechanisms in Addition to Reinfection
pp. 814-817(4)
Authors: Belshaw, Robert; Katzourakis, Aris; Paes, Jan; Burt, Austin; Tristem, Michael

Comparative Genomics of Accessory Gland Protein Genes in Drosophila melanogaster and D. pseudoobscura
pp. 818-832(15)
Authors: Wagstaff, Bradley J.; Begun, David J.

Homologs of Drosophila P Transposons Were Mobile in Zebrafish but Have Been Domesticated in a Common Ancestor of Chicken and Human
pp. 833-844(12)
Authors: Hammer, Sabine E.; Strehl, Sabine; Hagemann, Sylvia

Structure, Divergence, and Distribution of the CRR Centromeric Retrotransposon Family in Rice
pp. 845-855(11)
Authors: Nagaki, Kiyotaka; Neumann, Pavel; Zhang, Dongfen; Ouyang, Shu; Buell, C. Robin; Cheng, Zhukuan; Jiang, Jiming

Comparative Genomics in Hemiascomycete Yeasts: Evolution of Sex, Silencing, and Subtelomeres
pp. 856-873(18)
Authors: Fabre, Emmanuelle; Muller, Héloïse; Therizols, Pierre; Lafontaine, Ingrid; Dujon, Bernard; Fairhead, Cécile

Sequence Turnover and Tandem Repeats in cis-Regulatory Modules in Drosophila
pp. 874-885(12)
Authors: Sinha, Saurabh; Siggia, Eric D.

A Novel Abundant Family of Retroposed Elements (DAS-SINEs) in the Nine-Banded Armadillo (Dasypus novemcinctus)
pp. 886-893(8)
Authors: Churakov, Gennady; Smit, Arian F.A.; Brosius, Jürgen; Schmitz, Jürgen

Protein Structural Influences in Rhodopsin Evolution
pp. 894-904(11)
Authors: Marsh, Lorraine; Griffiths, Carole S.

Listening to Viral Tongues: Comparing Viral Trees Using a Stochastic Context-Free Grammar
pp. 905-913(9)
Authors: Rzhetsky, Andrey; Fitch, Walter M.

Covarion Structure in Plastid Genome Evolution: A New Statistical Test
pp. 914-924(11)
Authors: Ané, Cécile; Burleigh, J. Gordon; McMahon, Michelle M.; Sanderson, Michael J.

Widespread Recombination in Published Animal mtDNA Sequences
pp. 925-933(9)
Authors: Tsaousis, A. D.; Martin, D. P.; Ladoukakis, E. D.; Posada, D.; Zouros, E.

Putting the Brakes on Snake Venom Evolution: The Unique Molecular Evolutionary Patterns of Aipysurus eydouxii (Marbled Sea Snake) Phospholipase A₂ Toxins
pp. 934-941(8)
Authors: Li, Min; Fry, Bryan G.; Kini, R. Manjunatha

Evolutionary Dynamics of Human Retroviruses Investigated Through Full-Genome Scanning
pp. 942-951(10)
Authors: Lemey, Philippe; Van Dooren, Sonia; Vandamme, Anne-Mieke

The Complete Maternal and Paternal Mitochondrial Genomes of the Mediterranean Mussel Mytilus galloprovincialis: Implications for the Doubly Uniparental Inheritance Mode of mtDNA
pp. 952-967(16)
Authors: Mizi, Athanasia; Zouros, Eleftherios; Moschonas, Nicholas; Rodakis, George C.

Statistical and Molecular Analyses of Evolutionary Significance of Red-Green Color Vision and Color Blindness in Vertebrates
pp. 968-975(8)
Authors: Yokoyama, Shozo; Takenaka, Naomi

Mobilization of the Active MITE Transposons mPing and Pong in Rice by Introgression from Wild Rice (Zizania latifolia Griseb.)
pp. 976-990(15)
Authors: Shan, Xiaohui; Liu, Zhenlan; Wang, Yongming; Chen, Yu; Lin, Xiuyun; Long, Likun; Dong, Yingshan; Liu, Bao

Complex Pattern of Coalescence and Fast Evolution of a Mitochondrial rRNA Pseudogene in a Recent Radiation of Tiger Beetles
pp. 991-1000(10)
Authors: Pons, Joan; Vogler, Alfried P.

Reconstitution of Ancestral Green Visual Pigments of Zebrafish and Molecular Mechanism of Their Spectral Differentiation
pp. 1001-1010(10)
Authors: Chinen, Akito; Matsumoto, Yoshifumi; Kawamura, Shoji

Comparative Genomics of Hemiascomycete Yeasts: Genes Involved in DNA Replication, Repair, and Recombination
pp. 1011-1023(13)
Authors: Richard, Guy-Franck; Kerrest, Alix; Lafontaine, Ingrid; Dujon, Bernard

The Origin and Evolution of Porcine Reproductive and Respiratory Syndrome Viruses
pp. 1024-1031(8)
Authors: Hanada, Kousuke; Suzuki, Yoshiyuki; Nakane, Takashi; Hirose, Osamu; Gojobori, Takashi

Evolution of the trnF(GAA) Gene in Arabidopsis Relatives and the Brassicaceae Family: Monophyletic Origin and Subsequent Diversification of a Plastidic Pseudogene
pp. 1032-1043(12)
Authors: Koch, Marcus A.; Dobe, Christoph; Matschinger, Michaela; Bleeker, Walter; Vogel, Johannes; Kiefer, Markus; Mitchell-Olds, Thomas

Rates of Protein Evolution Are Positively Correlated with Developmental Timing of Expression During Mouse Spermatogenesis
pp. 1044-1052(9)
Authors: Good, Jeffrey M.; Nachman, Michael W.

Complex Spliceosomal Organization Ancestral to Extant Eukaryotes
pp. 1053-1066(14)
Authors: Collins, Lesley; Penny, David

Expressed Sequence Tag-Linked Microsatellites as a Source of Gene-Associated Polymorphisms for Detecting Signatures of Divergent Selection in Atlantic Salmon (Salmo salar L.)
pp. 1067-1076(10)
Authors: Vasemägi, Anti; Nilsson, Jan

Neandertal Evolutionary Genetics: Mitochondrial DNA Data from the Iberian Peninsula
pp. 1077-1081(5)
Authors: Lalueza-Fox, Carles; Sampietro, María Lourdes; Caramelli, David; Puder, Yvonne; Lari, Martina; Calafell, Francesc; Martínez-Maza, Cayetana; Bastir, Markus; Fortea, Javier; Rasilla, Marco de la; Bertranpetit, Jaume; Rosas, Antonio

Molecular Evolution of FLORICAULA/LEAFY Orthologs in the Andropogoneae (Poaceae)
pp. 1082-1094(13)
Authors: Bomblies, Kirsten; Doebley, John F.

Rapid Evolution of the MH Class I Locus Results in Different Allelic Compositions in Recently Diverged Populations of Atlantic Salmon
pp. 1095-1106(12)
Authors: Consuegra, S.; Megens, H.-J.; Leon, K.; Stet, R. J. M.; Jordan, W. C.

Bayes Empirical Bayes Inference of Amino Acid Sites Under Positive Selection
pp. 1107-1118(12)
Authors: Yang, Ziheng; Wong, Wendy S.W.; Nielsen, Rasmus

Evolutionary Diversification of DNA Methyltransferases in Eukaryotic Genomes
pp. 1119-1128(10)
Authors: Ponger, Loïc; Li, Wen-Hsiung

Consideration of RNA Secondary Structure Significantly Improves Likelihood-Based Estimates of Phylogeny: Examples from the Bilateria
pp. 1129-1136(8)
Authors: Telford, Maximilian J; Wise, Michael J; Gowri-Shankar, Vivek

The Evolution of Transcription-Initiation Sites
pp. 1137-1146(10)
Authors: Lynch, Michael; Scofield, Douglas G.; Hong, Xin

Significant Impact of Protein Dispensability on the Instantaneous Rate of Protein Evolution
pp. 1147-1155(9)
Authors: Zhang, Jianzhi; He, Xionglei

Prediction of Site-Specific Amino Acid Distributions and Limits of Divergent Evolutionary Changes in Protein Sequences
pp. 1156-1156(1)
Authors: Porto, Markus; Roman, H. Eduardo; Vendruscolo, Michele; Bastolla, Ugo

Erratum
pp. 1156-1160(5)

Divergence Pattern of Duplicate Genes in Protein-Protein Interactions Follows the Power Law
pp. 1156-1156(1)
Authors: Zhang, Ze; Luo, Z. W.; Kishino, Hirohisa; Kearsey, Mike J.