The human genome: organization and evolutionary history.

This review outlines briefly the compositional properties of the vertebrate genome, namely its isochore organization, the compositional patterns of DNA molecules and of coding sequences, the compositional correlations between coding and noncoding sequences, and the relationships between isochores and chromosomal bands. It then deals with the fundamental properties of the vertebrate genome, namely the distribution of genes and its associated functional features. Finally, it considers how the structural and functional organization of the human genome (and of the genomes of warm-blooded vertebrates in general) arose in evolution.

[1]  G Bernardi,et al.  An analysis of eukaryotic genomes by density gradient centrifugation. , 1976, Journal of molecular biology.

[2]  A. Wilson,et al.  Rapid speciation and chromosomal evolution in mammals. , 1977, Proceedings of the National Academy of Sciences of the United States of America.

[3]  G. Bernardi,et al.  Integration of bovine leukemia virus DNA in the bovine genome. , 1979, Proceedings of the National Academy of Sciences of the United States of America.

[4]  G. Bernardi,et al.  An analysis of fish genomes by density gradient centrifugation. , 1980, European journal of biochemistry.

[5]  G Bernardi,et al.  The major components of the mouse and human genomes. 2. Reassociation kinetics. , 1981, European journal of biochemistry.

[6]  G Bernardi,et al.  The distribution of interspersed repeats is nonuniform and conserved in the mouse and human genomes. , 1983, Proceedings of the National Academy of Sciences of the United States of America.

[7]  G. Bernardi,et al.  Nucleotide sequence organization in the very small genome of a tetraodontid fish, Arothron diadematus. , 1984, European journal of biochemistry.

[8]  G Bernardi,et al.  The mosaic genome of warm-blooded vertebrates. , 1985, Science.

[9]  W. Li,et al.  Evidence for higher rates of nucleotide substitution in rodents than in man. , 1985, Proceedings of the National Academy of Sciences of the United States of America.

[10]  T. Ikemura.  Codon usage and tRNA content in unicellular and multicellular organisms. , 1985, Molecular biology and evolution.

[11]  S. Aota,et al.  Diversity in G + C content at the third position of codons in vertebrate genes and its cause. , 1986, Nucleic acids research.

[12]  P. Tiollais,et al.  Hepatitis B virus. , 1991, Scientific American.

[13]  A. Bird.  CpG islands as gene markers in the vertebrate nucleus , 1987 .

[14]  G. Bernardi,et al.  Nonrandom distribution of MMTV proviral sequences in the mouse genome. , 1987, Nucleic acids research.

[15]  G. Bernardi,et al.  Compositional compartmentalization and compositional patterns in the nuclear genomes of plants. , 1988, Nucleic acids research.

[16]  Mary C. Rykowski,et al.  Human genome organization: Alu, LINES, and the molecular structure of metaphase chromosome bands , 1988, Cell.

[17]  A. Jeffreys,et al.  Clustering of hypervariable minisatellites in the proterminal regions of human autosomes. , 1988, Genomics.

[18]  G. Bernardi,et al.  The isochore organization of the human genome. , 1989, Annual review of genetics.

[19]  G Bernardi,et al.  The isochore organization and the compositional distribution of homologous coding sequences in the nuclear genome of plants. , 1989, Nucleic acids research.

[20]  P. Goodfellow,et al.  The mammalian pseudoautosomal region. , 1989, Trends in genetics : TIG.

[21]  G. Bernardi,et al.  A compositional map of human chromosome 21. , 1990, The EMBO journal.

[22]  S. Aota,et al.  Giant G+C% mosaic structures of the human genome found by arrangement of GenBank human DNA sequences according to genetic positions. , 1990, Genomics.

[23]  G. Bernardi,et al.  Gene distribution and isochore organization in the nuclear genome of plants. , 1990, Nucleic acids research.

[24]  D. Hartl,et al.  Rapid determination of nucleotide content and its application to the study of genome structure. , 1991, Nucleic acids research.

[25]  G Bernardi,et al.  CpG islands, genes and isochores in the genomes of vertebrates. , 1991, Gene.

[26]  G. Bernardi,et al.  Compositional bimodality of the nuclear genome of tobacco. , 1991, Nucleic acids research.

[27]  G Bernardi,et al.  The distribution of genes in the human genome. , 1991, Gene.

[28]  G. Bernardi,et al.  The isopycnic, compartmentalized integration of Rous sarcoma virus sequences. , 1991, Gene.

[29]  S. Cross,et al.  Non-methylated islands in fish genomes are GC-poor. , 1991, Nucleic acids research.

[30]  T. Lange.  Human telomeres are attached to the nuclear matrix. , 1992 .

[31]  H. Prydz,et al.  CpG islands as gene markers in the human genome. , 1992, Genomics.

[32]  G. Gyapay,et al.  A second-generation linkage map of the human genome , 1992, Nature.

[33]  G. Bernardi,et al.  The highest gene concentrations in the human genome are in telomeric bands of metaphase chromosomes. , 1992, Proceedings of the National Academy of Sciences of the United States of America.

[34]  G. Bernardi,et al.  Large-scale methylation patterns in the nuclear genomes of plants. , 1992, Gene.

[35]  B. Dujon,et al.  The complete DNA sequence of yeast chromosome III , 1992, Nature.

[36]  A. Kolstø,et al.  CpG islands in mammalian gene promoters are inherently resistant to de novo methylation. , 1992, Genetic analysis, techniques and applications.

[37]  A. Eyre-Walker,et al.  Evidence that both G + C rich and G + C poor isochores are replicated early and late in the cell cycle. , 1992, Nucleic acids research.

[38]  G. Holmquist,et al.  Chromosome bands, their chromatin flavors, and their functional features. , 1992, American journal of human genetics.

[39]  G. Bernardi,et al.  Compositional bimodality and evolution of retroviral genomes. , 1992, Gene.

[40]  W. Miller,et al.  Use of long sequence alignments to study the evolution and regulation of mammalian globin gene clusters. , 1993, Molecular biology and evolution.

[41]  G. Bernardi,et al.  The vertebrate genome: isochores and evolution. , 1993, Molecular biology and evolution.

[42]  J. Weissenbach,et al.  A first-generation physical map of the human genome , 1993, Nature.

[43]  Adam Eyre-Walker,et al.  Recombination and mammalian genome evolution , 1993, Proceedings of the Royal Society of London. Series B: Biological Sciences.

[44]  S. Brenner,et al.  Characterization of the pufferfish (Fugu) genome as a compact model vertebrate genome , 1993, Nature.

[45]  J. Salinas,et al.  Non-random distribution of transposable elements in the nuclear genome of plants. , 1993, Nucleic Acids Research.

[46]  U. K. Laemmli,et al.  Metaphase chromosome structure: Bands arise from a differential folding path of the highly AT-rich scaffold , 1994, Cell.

[47]  Cécile Fizames,et al.  The 1993–94 Généthon human genetic linkage map , 1994, Nature Genetics.

[48]  S. Antonarakis.  Genome linkage scanning: systematic or intelligent? , 1994, Nature Genetics.

[49]  G. Bernardi,et al.  The nuclear genomes of African and American trypanosomes are strikingly different. , 1994, Gene.

[50]  P. Meyer.  Gene Silencing in Higher Plants and Related Phenomena in Other Eukaryotes , 2011, Current Topics in Microbiology and Immunology.

[51]  A Ando,et al.  A boundary of long-range G + C% mosaic domains in the human MHC locus: pseudoautosomal boundary-like sequence exists near the boundary. , 1995, Genomics.

[52]  R. Durbin,et al.  Comparative sequence analysis of the human and pufferfish Huntington's disease genes , 1995, Nature Genetics.

[53]  G Bernardi,et al.  Compositional properties of nuclear genes from Plasmodium falciparum. , 1995, Gene.

[54]  S. Brenner,et al.  Genomic structure and sequence of the Fugu rubripes glucose-6-phosphate dehydrogenase gene (G6PD). , 1995, Genomics.

[55]  T. Ohta,et al.  Synonymous and nonsynonymous substitutions in mammalian genes and the nearly neutral theory. , 1995, Journal of molecular evolution.

[56]  S. Razin,et al.  Specificity and functional significance of DNA interaction with the nuclear matrix: new approaches to clarify the old questions. , 1995, International review of cytology.