1. Physicochemical Optimization in the Genetic Code Origin as the Number of Codified Amino Acids Increases

   • Massimo Di Giulio
   • Mario Medugno

   Pages: 1 - 10

2. A Probabilistic Treatment of Phylogeny and Sequence Alignment

   • G.J. Mitchison

   Pages: 11 - 22

3. Enhanced Evolvability in Immunoglobulin V Genes Under Somatic Hypermutation

   • Lindsay G. Cowell
   • Hye-Jung Kim
   • Thomas B. Kepler

   Pages: 23 - 26

4. Synonymous Codon Choices in the Extremely GC-Poor Genome of Plasmodium falciparum: Compositional Constraints and Translational Selection

   • Héctor Musto
   • Héctor Romero
   • Giorgio Bernardi

   Pages: 27 - 35

5. The Nonrandom Location of Synonymous Codons Suggests That Reading Frame-Independent Forces Have Patterned Codon Preferences

   • Marcos A. Antezana
   • Martin Kreitman

   Pages: 36 - 43

6. Current Intraspecific Dynamics of Sequence Evolution Differs from Long-Term Trends and Can Account for the AT-Richness of Honeybee Mitochondrial DNA

   • Stella Koulianos
   • Ross H. Crozier

   Pages: 44 - 48

7. Two Aspects of DNA Base Composition: G+C Content and Translation-Coupled Deviation from Intra-Strand Rule of A=T and G=C

   • Noboru Sueoka

   Pages: 49 - 62

8. The Evolution of Codon Preferences in Drosophila: A Maximum-Likelihood Approach to Parameter Estimation and Hypothesis Testing

   • Gilean A.T. McVean
   • Jorge Vieira

   Pages: 63 - 75

9. Estimating the Contributions of Selection and Self-Organization in RNA Secondary Structure

   • Erik A. Schultes
   • Peter T. Hraber
   • Thomas H. LaBean

   Pages: 76 - 83

10. Coevolution of PERB11 (MIC) and HLA Class I Genes with HERV-16 and Retroelements by Extended Genomic Duplication

    • Jerzy K. Kulski
    • Silvana Gaudieri
    • Roger L. Dawkins

    Pages: 84 - 97

11. Is There a Phylogenetic Signal in Prokaryote Proteins?

    • Sarah A. Teichmann
    • Graeme Mitchison

    Pages: 98 - 107

12. A Probable Mixed-Function Supraoperon in Pseudomonas Exhibits Gene Organization Features of Both Intergenomic Conservation and Gene Shuffling

    • Gary Xie
    • Carol A. Bonner
    • Roy A. Jensen

    Pages: 108 - 121

13. Organization, Structure, and Evolution of the Nonadult Rat β-Globin Gene Cluster

    • Hiroyuki Satoh
    • Naomi Inokuchi
    • Taro Okazaki

    Pages: 122 - 129

14. Reconstructing the Complex Evolutionary History of Hepatitis B Virus

    • Paul L. Bollyky
    • Edward C. Holmes

    Pages: 130 - 141

15. Mitochondrial Genes Collectively Suggest the Paraphyly of Crustacea with Respect to Insecta

    • Erik García-Machado
    • Malgorzata Pempera
    • Monique Monnerot

    Pages: 142 - 149

16. Apolipophorin II/I, Apolipoprotein B, Vitellogenin, and Microsomal Triglyceride Transfer Protein Genes Are Derived from a Common Ancestor

    • Patrick J. Babin
    • Jan Bogerd
    • Dick J. Van der Horst

    Pages: 150 - 160

17. Circular Permutations in the Molecular Evolution of DNA Methyltransferases

    • Albert Jeltsch

    Pages: 161 - 164