Annals of the New York Academy of Sciences

Cover image for Annals of the New York Academy of Sciences

May 1999

Volume 870 MOLECULAR STRATEGIES IN BIOLOGICAL EVOLUTION

Pages xi–xiv, 1–431

  1. Molecular Strategies in Biological Evolutiona: Preface

    1. Top of page
    2. Molecular Strategies in Biological Evolutiona: Preface
    3. Molecular Strategies in Biological Evolutiona: Introduction Remarks
    4. Molecular Strategies in Biological Evolutiona: Chance Favors the Prepared Genome
    5. Molecular Strategies in Biological Evolutiona: Part I. Structured Pathways for Variation: Evolution As a Biological Function
    6. Molecular Strategies in Biological Evolutiona: Part II. Modulation of Fidelity and Repair: Fidelity and Flexibility in Evolution
    7. Molecular Strategies in Biological Evolutiona: Part III. Context-Dependent Genetic Alteration: Cell and Sequence Context-Dependent Effects on Genetic Variation
    8. Molecular Strategies in Biological Evolutiona: Part IV. New Contexts for Functional DNA Sequences: How Do New Functions Evolve?
    9. Molecular Strategies in Biological Evolutiona: Part V. Regulation of Genetic Variation
    10. Molecular Strategies in Biological Evolutiona: Part VI. Genomes As Evolving Systems
    11. Molecular Strategies in Biological Evolutiona: Closing Session
    12. Molecular Strategies in Biological Evolutiona: Poster Session
    1. Preface (pages xi–xii)

      Lynn Helena Caporale

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08858.x

  2. Molecular Strategies in Biological Evolutiona: Introduction Remarks

    1. Top of page
    2. Molecular Strategies in Biological Evolutiona: Preface
    3. Molecular Strategies in Biological Evolutiona: Introduction Remarks
    4. Molecular Strategies in Biological Evolutiona: Chance Favors the Prepared Genome
    5. Molecular Strategies in Biological Evolutiona: Part I. Structured Pathways for Variation: Evolution As a Biological Function
    6. Molecular Strategies in Biological Evolutiona: Part II. Modulation of Fidelity and Repair: Fidelity and Flexibility in Evolution
    7. Molecular Strategies in Biological Evolutiona: Part III. Context-Dependent Genetic Alteration: Cell and Sequence Context-Dependent Effects on Genetic Variation
    8. Molecular Strategies in Biological Evolutiona: Part IV. New Contexts for Functional DNA Sequences: How Do New Functions Evolve?
    9. Molecular Strategies in Biological Evolutiona: Part V. Regulation of Genetic Variation
    10. Molecular Strategies in Biological Evolutiona: Part VI. Genomes As Evolving Systems
    11. Molecular Strategies in Biological Evolutiona: Closing Session
    12. Molecular Strategies in Biological Evolutiona: Poster Session
    1. Introductory Remarks (pages xiii–xiv)

      Lynn Helena Caporale

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08859.x

  3. Molecular Strategies in Biological Evolutiona: Chance Favors the Prepared Genome

    1. Top of page
    2. Molecular Strategies in Biological Evolutiona: Preface
    3. Molecular Strategies in Biological Evolutiona: Introduction Remarks
    4. Molecular Strategies in Biological Evolutiona: Chance Favors the Prepared Genome
    5. Molecular Strategies in Biological Evolutiona: Part I. Structured Pathways for Variation: Evolution As a Biological Function
    6. Molecular Strategies in Biological Evolutiona: Part II. Modulation of Fidelity and Repair: Fidelity and Flexibility in Evolution
    7. Molecular Strategies in Biological Evolutiona: Part III. Context-Dependent Genetic Alteration: Cell and Sequence Context-Dependent Effects on Genetic Variation
    8. Molecular Strategies in Biological Evolutiona: Part IV. New Contexts for Functional DNA Sequences: How Do New Functions Evolve?
    9. Molecular Strategies in Biological Evolutiona: Part V. Regulation of Genetic Variation
    10. Molecular Strategies in Biological Evolutiona: Part VI. Genomes As Evolving Systems
    11. Molecular Strategies in Biological Evolutiona: Closing Session
    12. Molecular Strategies in Biological Evolutiona: Poster Session
    1. Chance Favors the Prepared Genome (pages 1–21)

      LYNN HELENA CAPORALE

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08860.x

  4. Molecular Strategies in Biological Evolutiona: Part I. Structured Pathways for Variation: Evolution As a Biological Function

    1. Top of page
    2. Molecular Strategies in Biological Evolutiona: Preface
    3. Molecular Strategies in Biological Evolutiona: Introduction Remarks
    4. Molecular Strategies in Biological Evolutiona: Chance Favors the Prepared Genome
    5. Molecular Strategies in Biological Evolutiona: Part I. Structured Pathways for Variation: Evolution As a Biological Function
    6. Molecular Strategies in Biological Evolutiona: Part II. Modulation of Fidelity and Repair: Fidelity and Flexibility in Evolution
    7. Molecular Strategies in Biological Evolutiona: Part III. Context-Dependent Genetic Alteration: Cell and Sequence Context-Dependent Effects on Genetic Variation
    8. Molecular Strategies in Biological Evolutiona: Part IV. New Contexts for Functional DNA Sequences: How Do New Functions Evolve?
    9. Molecular Strategies in Biological Evolutiona: Part V. Regulation of Genetic Variation
    10. Molecular Strategies in Biological Evolutiona: Part VI. Genomes As Evolving Systems
    11. Molecular Strategies in Biological Evolutiona: Closing Session
    12. Molecular Strategies in Biological Evolutiona: Poster Session
    1. Part I. Introduction (page 22)

      JAMES A. SHAPIRO

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08861.x

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    3. Palindromic DNA and Genome Stability: Further Studies (pages 45–57)

      SUSANNA LEWIS, ERCAN AKGÜN and MARIA JASIN

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08864.x

    4. Mobile Gene Cassettes and Integrons in Evolution (pages 68–80)

      RUTH M. HALL, CHRISTINA M. COLLIS, MI-JURNG KIM, SALLY R. PARTRIDGE, GAVIN D. RECCHIA and H. W. STOKES

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08866.x

    5. Evolutionary Genomics of Vertebrates and Its Implications (pages 81–94)

      GIUSEPPE D'ONOFRIO, KAMEL JABBARI, HÉCTOR MUSTO, FERNANDO ALVAREZ-VALIN, STEPHANE CRUVEILLER and GIORGIO BERNARDI

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08867.x

    6. Part I. Summary (pages 95–98)

      JAMES A. SHAPIRO

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08868.x

  5. Molecular Strategies in Biological Evolutiona: Part II. Modulation of Fidelity and Repair: Fidelity and Flexibility in Evolution

    1. Top of page
    2. Molecular Strategies in Biological Evolutiona: Preface
    3. Molecular Strategies in Biological Evolutiona: Introduction Remarks
    4. Molecular Strategies in Biological Evolutiona: Chance Favors the Prepared Genome
    5. Molecular Strategies in Biological Evolutiona: Part I. Structured Pathways for Variation: Evolution As a Biological Function
    6. Molecular Strategies in Biological Evolutiona: Part II. Modulation of Fidelity and Repair: Fidelity and Flexibility in Evolution
    7. Molecular Strategies in Biological Evolutiona: Part III. Context-Dependent Genetic Alteration: Cell and Sequence Context-Dependent Effects on Genetic Variation
    8. Molecular Strategies in Biological Evolutiona: Part IV. New Contexts for Functional DNA Sequences: How Do New Functions Evolve?
    9. Molecular Strategies in Biological Evolutiona: Part V. Regulation of Genetic Variation
    10. Molecular Strategies in Biological Evolutiona: Part VI. Genomes As Evolving Systems
    11. Molecular Strategies in Biological Evolutiona: Closing Session
    12. Molecular Strategies in Biological Evolutiona: Poster Session
    1. Part II. Introduction (page 99)

      STEPHEN J. BENKOVIC

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08869.x

    2. Fidelity of Retrotransposon Replication (pages 108–118)

      ABRAM GABRIEL and EMILIE H. MULES

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08871.x

    3. Evolution of Evolvability (pages 146–155)

      MIROSLAV RADMAN, IVAN MATIC and FRANÇOIS TADDEI

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08874.x

    4. Part II. Summary (page 156)

      STEPHEN J. BENKOVIC

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08875.x

  6. Molecular Strategies in Biological Evolutiona: Part III. Context-Dependent Genetic Alteration: Cell and Sequence Context-Dependent Effects on Genetic Variation

    1. Top of page
    2. Molecular Strategies in Biological Evolutiona: Preface
    3. Molecular Strategies in Biological Evolutiona: Introduction Remarks
    4. Molecular Strategies in Biological Evolutiona: Chance Favors the Prepared Genome
    5. Molecular Strategies in Biological Evolutiona: Part I. Structured Pathways for Variation: Evolution As a Biological Function
    6. Molecular Strategies in Biological Evolutiona: Part II. Modulation of Fidelity and Repair: Fidelity and Flexibility in Evolution
    7. Molecular Strategies in Biological Evolutiona: Part III. Context-Dependent Genetic Alteration: Cell and Sequence Context-Dependent Effects on Genetic Variation
    8. Molecular Strategies in Biological Evolutiona: Part IV. New Contexts for Functional DNA Sequences: How Do New Functions Evolve?
    9. Molecular Strategies in Biological Evolutiona: Part V. Regulation of Genetic Variation
    10. Molecular Strategies in Biological Evolutiona: Part VI. Genomes As Evolving Systems
    11. Molecular Strategies in Biological Evolutiona: Closing Session
    12. Molecular Strategies in Biological Evolutiona: Poster Session
    1. Part III. Introduction (pages 157–158)

      LYNN S. RIPLEY

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08876.x

    2. DNA-Directed Mutations: Leading and Lagging Strand Specificity (pages 173–189)

      RICHARD R. SINDEN, VERA I. HASHEM and WILLIAM A. ROSCHE

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08878.x

    3. Part III. Summary (pages 218–219)

      LYNN S. RIPLEY

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08881.x

  7. Molecular Strategies in Biological Evolutiona: Part IV. New Contexts for Functional DNA Sequences: How Do New Functions Evolve?

    1. Top of page
    2. Molecular Strategies in Biological Evolutiona: Preface
    3. Molecular Strategies in Biological Evolutiona: Introduction Remarks
    4. Molecular Strategies in Biological Evolutiona: Chance Favors the Prepared Genome
    5. Molecular Strategies in Biological Evolutiona: Part I. Structured Pathways for Variation: Evolution As a Biological Function
    6. Molecular Strategies in Biological Evolutiona: Part II. Modulation of Fidelity and Repair: Fidelity and Flexibility in Evolution
    7. Molecular Strategies in Biological Evolutiona: Part III. Context-Dependent Genetic Alteration: Cell and Sequence Context-Dependent Effects on Genetic Variation
    8. Molecular Strategies in Biological Evolutiona: Part IV. New Contexts for Functional DNA Sequences: How Do New Functions Evolve?
    9. Molecular Strategies in Biological Evolutiona: Part V. Regulation of Genetic Variation
    10. Molecular Strategies in Biological Evolutiona: Part VI. Genomes As Evolving Systems
    11. Molecular Strategies in Biological Evolutiona: Closing Session
    12. Molecular Strategies in Biological Evolutiona: Poster Session
    1. Transgenic and Mutational Analyses of Meiotic Recombination in Mice (pages 220–222)

      DOUGLAS L. PITTMAN, KERRY J. SCHIMENTI, WILLIAM H. HANNEMAN and JOHN C. SCHIMENTI

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08882.x

    2. Speciation of Cone Snails and Interspecific Hyperdivergence of Their Venom Peptides: Potential Evolutionary Significance of Introns (pages 223–237)

      BALDOMERO M. OLIVERA, CRAIG WALKER, G. EDWARD CARTIER, DAVID HOOPER, AMEURFINA D. SANTOS, ROBERT SCHOENFELD, RESHMA SHETTY, MAREN WATKINS, PRADIP BANDYOPADHYAY and DAVID R. HILLYARD

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08883.x

    3. Evolution of Chordate Hox Gene Clusters (pages 238–248)

      FRANK H. RUDDLE, CHRIS T. AMEMIYA, JANET L. CARR, CHANG-BAE KIM, CHRISTINA LEDJE, COODUVALLI S. SHASHIKANT and GÜNTER P. WAGNER

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08884.x

    4. Part IV. Summary (pages 249–250)

      MONICA RILEY

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08885.x

  8. Molecular Strategies in Biological Evolutiona: Part V. Regulation of Genetic Variation

    1. Top of page
    2. Molecular Strategies in Biological Evolutiona: Preface
    3. Molecular Strategies in Biological Evolutiona: Introduction Remarks
    4. Molecular Strategies in Biological Evolutiona: Chance Favors the Prepared Genome
    5. Molecular Strategies in Biological Evolutiona: Part I. Structured Pathways for Variation: Evolution As a Biological Function
    6. Molecular Strategies in Biological Evolutiona: Part II. Modulation of Fidelity and Repair: Fidelity and Flexibility in Evolution
    7. Molecular Strategies in Biological Evolutiona: Part III. Context-Dependent Genetic Alteration: Cell and Sequence Context-Dependent Effects on Genetic Variation
    8. Molecular Strategies in Biological Evolutiona: Part IV. New Contexts for Functional DNA Sequences: How Do New Functions Evolve?
    9. Molecular Strategies in Biological Evolutiona: Part V. Regulation of Genetic Variation
    10. Molecular Strategies in Biological Evolutiona: Part VI. Genomes As Evolving Systems
    11. Molecular Strategies in Biological Evolutiona: Closing Session
    12. Molecular Strategies in Biological Evolutiona: Poster Session
    1. Floricultural Traits and Transposable Elements in the Japanese and Common Morning Gloriesa (pages 265–274)

      SHIGERU IIDA, ATSUSHI HOSHINO, YASUYO JOHZUKA-HISATOMI, YOSHIKI HABU and YOSHISHIGE INAGAKI

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08887.x

    2. Mechanisms of Genome-Wide Hypermutation in Stationary Phasea (pages 275–289)

      MARY-JANE LOMBARDO, JOEL TORKELSON, HAROLD J. BULL, GREGORY J. McKENZIE and SUSAN M. ROSENBERG

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08888.x

    3. Part V. Summary (pages 290–291)

      EVELYN FOX KELLER

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08889.x

  9. Molecular Strategies in Biological Evolutiona: Part VI. Genomes As Evolving Systems

    1. Top of page
    2. Molecular Strategies in Biological Evolutiona: Preface
    3. Molecular Strategies in Biological Evolutiona: Introduction Remarks
    4. Molecular Strategies in Biological Evolutiona: Chance Favors the Prepared Genome
    5. Molecular Strategies in Biological Evolutiona: Part I. Structured Pathways for Variation: Evolution As a Biological Function
    6. Molecular Strategies in Biological Evolutiona: Part II. Modulation of Fidelity and Repair: Fidelity and Flexibility in Evolution
    7. Molecular Strategies in Biological Evolutiona: Part III. Context-Dependent Genetic Alteration: Cell and Sequence Context-Dependent Effects on Genetic Variation
    8. Molecular Strategies in Biological Evolutiona: Part IV. New Contexts for Functional DNA Sequences: How Do New Functions Evolve?
    9. Molecular Strategies in Biological Evolutiona: Part V. Regulation of Genetic Variation
    10. Molecular Strategies in Biological Evolutiona: Part VI. Genomes As Evolving Systems
    11. Molecular Strategies in Biological Evolutiona: Closing Session
    12. Molecular Strategies in Biological Evolutiona: Poster Session
    1. Part VI. Introduction (page 292)

      TAKASHI GOJOBORI

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08890.x

    2. Dynamic Evolution of Genomes and the Concept of Genome Space (pages 293–300)

      MATTHEW I. BELLGARD, TAKESHI ITOH, HIDEMI WATANABE, TADASHI IMANISHI and TAKASHI GOJOBORI

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08891.x

    3. Detecting Alien Genes in Bacterial Genomes (pages 314–329)

      JAN MRÁZEK and SAMUEL KARLIN

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08893.x

    4. Part VI. Summary (pages 339–340)

      TAKASHI GOJOBORI

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08895.x

  10. Molecular Strategies in Biological Evolutiona: Closing Session

    1. Top of page
    2. Molecular Strategies in Biological Evolutiona: Preface
    3. Molecular Strategies in Biological Evolutiona: Introduction Remarks
    4. Molecular Strategies in Biological Evolutiona: Chance Favors the Prepared Genome
    5. Molecular Strategies in Biological Evolutiona: Part I. Structured Pathways for Variation: Evolution As a Biological Function
    6. Molecular Strategies in Biological Evolutiona: Part II. Modulation of Fidelity and Repair: Fidelity and Flexibility in Evolution
    7. Molecular Strategies in Biological Evolutiona: Part III. Context-Dependent Genetic Alteration: Cell and Sequence Context-Dependent Effects on Genetic Variation
    8. Molecular Strategies in Biological Evolutiona: Part IV. New Contexts for Functional DNA Sequences: How Do New Functions Evolve?
    9. Molecular Strategies in Biological Evolutiona: Part V. Regulation of Genetic Variation
    10. Molecular Strategies in Biological Evolutiona: Part VI. Genomes As Evolving Systems
    11. Molecular Strategies in Biological Evolutiona: Closing Session
    12. Molecular Strategies in Biological Evolutiona: Poster Session
    1. Further Remarks (pages 342–343)

      MACLYN McCARY

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08897.x

    2. Concluding Remarks (pages 344–345)

      WERNER ARBER

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08898.x

  11. Molecular Strategies in Biological Evolutiona: Poster Session

    1. Top of page
    2. Molecular Strategies in Biological Evolutiona: Preface
    3. Molecular Strategies in Biological Evolutiona: Introduction Remarks
    4. Molecular Strategies in Biological Evolutiona: Chance Favors the Prepared Genome
    5. Molecular Strategies in Biological Evolutiona: Part I. Structured Pathways for Variation: Evolution As a Biological Function
    6. Molecular Strategies in Biological Evolutiona: Part II. Modulation of Fidelity and Repair: Fidelity and Flexibility in Evolution
    7. Molecular Strategies in Biological Evolutiona: Part III. Context-Dependent Genetic Alteration: Cell and Sequence Context-Dependent Effects on Genetic Variation
    8. Molecular Strategies in Biological Evolutiona: Part IV. New Contexts for Functional DNA Sequences: How Do New Functions Evolve?
    9. Molecular Strategies in Biological Evolutiona: Part V. Regulation of Genetic Variation
    10. Molecular Strategies in Biological Evolutiona: Part VI. Genomes As Evolving Systems
    11. Molecular Strategies in Biological Evolutiona: Closing Session
    12. Molecular Strategies in Biological Evolutiona: Poster Session
    1. Evolution of Gene Scrambling in Ciliate Micronuclear Genes (pages 349–350)

      EDWARD A. CURTIS and LAURA F. LANDWEBER

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08900.x

    2. Random Amplified Polymorphic DNA Analysis of Ustilago violacea (pages 357–361)

      CAROLL E. HENRY, PHILIP OKORO, EVLENE STEWARD-CLARK, EDWARD D. GARBER and MANFRED RUDDAT

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08903.x

    3. Contingency Loci, Mutator Alleles, and Their Interactions: Synergistic Strategies for Microbial Evolution and Adaptation in Pathogenesis (pages 378–381)

      DAWN FIELD, MARCELO O. MAGNASCO, E. RICHARD MOXON, DAVID METZGAR, MARK M. TANAKA, CHRISTOPHER WILLS and DAVID S. THALER

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08907.x

    4. Specificity of Transcription-Enhanced Mutations (pages 383–385)

      ANGELICA LONGACRE, JACQUELINE M. REIMERS and BARBARA E. WRIGHT

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08908.x

    5. Directed Evolution of Mesophilic Enzymes into Their Thermophilic Counterparts (pages 400–403)

      FRANCES H. ARNOLD, LORI GIVER, ANNE GERSHENSON, HUIMIN ZHAO and KEN MIYAZAKI

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08913.x

    6. A Comparative Genomics Approach to DNA Asymmetry (pages 428–431)

      M.PILAR FRANCINO and HOWARD OCHMAN

      Version of Record online: 6 FEB 2006 | DOI: 10.1111/j.1749-6632.1999.tb08919.x

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