Is optimal gene order impossible?

Trends in Genetics

Volumn 22, Issue 8, 2006, Pages 420-423

  Poyatos, Juan F ^a   Hurst, Laurence D ^b  

^a Centro Nacional de Investigaciones Oncológicas   (Spain)

^b University of Bath   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

DNA STRAND BREAKAGE; FUNGAL GENE; GENE CLUSTER; GENE CONTROL; GENE DUPLICATION; GENE EXPRESSION; GENE ORDER; GENETIC RECOMBINATION; GENOME; NONHUMAN; PRIORITY JOURNAL; PROTEIN ASSEMBLY; PROTEIN EXPRESSION; PROTEIN INTERACTION; SHORT SURVEY;

EVOLUTION, MOLECULAR; GENE ORDER; GENOME, FUNGAL; MULTIGENE FAMILY; RECOMBINATION, GENETIC; SACCHAROMYCES CEREVISIAE;

EID: 33746216861     PISSN: 01689525     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.tig.2006.06.003     Document Type: Short Survey

References (30)

1. Hurst L.D., et al. The evolutionary dynamics of eukaryotic gene order. Nat. Rev. Genet. 5 (2004) 299-310
2. Trinklein N.D., et al. An abundance of bidirectional promoters in the human genome. Genome Res. 14 (2004) 62-66
3. Robyr D., et al. Microarray deacetylation maps determine genome-wide functions for yeast histone deacetylases. Cell 109 (2002) 437-446
4. Finnegan E.J., et al. A cluster of Arabidopsis genes with a coordinate response to an environmental stimulus. Curr. Biol. 14 (2004) 911-916
5. Cohen B.A., et al. A computational analysis of whole-genome expression data reveals chromosomal domains of gene expression. Nat. Genet. 26 (2000) 183-186
6. Williams E.J., and Bowles D.J. Coexpression of neighboring genes in the genome of Arabidopsis thaliana. Genome Res. 14 (2004) 1060-1067
7. Spellman P.T., and Rubin G.M. Evidence for large domains of similarly expressed genes in the Drosophila genome. J. Biol. 1 (2002) 5
8. Lercher M.J., et al. Clustering of housekeeping genes provides a unified model of gene order in the human genome. Nat. Genet. 31 (2002) 180-183
9. Lercher M.J., et al. A unification of mosaic structures in the human genome. Hum. Mol. Genet. 12 (2003) 2411-2415
10. Caron H., et al. The human transcriptome map: clustering of highly expressed genes in chromosomal domains. Science 291 (2001) 1289-1292
11. Versteeg R., et al. The human transcriptome map reveals extremes in gene density, intron length, GC content, and repeat pattern for domains of highly and weakly expressed genes. Genome Res. 13 (2003) 1998-2004
12. Nei M. Evolutionary change of linkage intensity. Nature 218 (1968) 1160-1161
13. Fisher R. The genetical theory of natural selection (1930), Clarendon Press
14. Pal C., and Hurst L.D. Evidence for co-evolution of gene order and recombination rate. Nat. Genet. 33 (2003) 392-395
15. Nei M. Genome evolution: let's stick together. Heredity 90 (2003) 411-412
16. Lawrence J.G. Gene organization: selection, selfishness, and serendipity. Annu. Rev. Microbiol. 57 (2003) 419-440
17. Charlesworth D., and Charlesworth B. Theoretical genetics of Batesian mimicry III. Evolution of dominance. J. Theor. Biol. 55 (1975) 325-337
18. Kimura K. A model of a genetic system which leads to closer linkage by natural selection. Evolution 10 (1956) 278-287
19. Akhunov E.D., et al. Synteny perturbations between wheat homoeologous chromosomes caused by locus duplications and deletions correlate with recombination rates. Proc. Natl. Acad. Sci. U. S. A. 100 (2003) 10836-10841
20. Teichmann S.A., and Veitia R.A. Genes encoding subunits of stable complexes are clustered on the yeast chromosomes: an interpretation from a dosage balance perspective. Genetics 167 (2004) 2121-2125
21. Barabasi A.L., and Oltvai Z.N. Network biology: understanding the cell's functional organization. Nat. Rev. Genet. 5 (2004) 101-113
22. Poyatos J.F., and Hurst L.D. How biologically relevant are interaction-based modules in protein networks?. Genome Biol. 5 (2004) R93
23. Gerton J.L., et al. Inaugural article: global mapping of meiotic recombination hotspots and coldspots in the yeast Saccharomyces cerevisiae. Proc. Natl. Acad. Sci. U. S. A. 97 (2000) 11383-11390
24. Papp B., et al. Dosage sensitivity and the evolution of gene families in yeast. Nature 424 (2003) 194-197
25. Hershberg R., et al. Chromosomal organization is shaped by the transcription regulatory network. Trends Genet. 21 (2005) 138-142
26. Barton N.H. A general model for the evolution of recombination. Genet. Res. 65 (1995) 123-145
27. Kondrashov A.S. Deleterious mutations and the evolution of sexual reproduction. Nature 336 (1988) 435-440
28. Hurst L.D., et al. Natural selection promotes the conservation of linkage of co-expressed genes. Trends Genet. 18 (2002) 604-606
29. Spirin V., and Mirny L.A. Protein complexes and functional modules in molecular networks. Proc. Natl. Acad. Sci. U. S. A. 100 (2003) 12123-12128
30. Blatt M., et al. Superparamagnetic clustering of data. Phys. Rev. Lett. 76 (1996) 3251-3254