Bork P, Ouzounis C, Casari G, Schneider R, Sander C, Dolan M, Gilbert W, Gillevet PM (1995) Exploring the Mycoplasma capricolum genome: a minimal cell reveals its physiology. Mol Microbiol 16:955–967 ArticlePubMedCAS Google Scholar
Boudreau E, Otis C, Turmel M (1994) Conserved gene clusters in the highly rearranged chloroplast genomes of Chlamydomonas moewusii and Chlamydomonas reinhardtii. Plant Mol Biol 24:585–602 ArticlePubMedCAS Google Scholar
Casari G, Andrade A, Bork P, Boyle J, Daruvar A, Ouzounis C, Schneider R, Tamames J, Valencia A, Sander C (1995) Challenging times for bioinformatics. Nature 376:647–648 ArticlePubMedCAS Google Scholar
Casari G, Ouzounis C, Valencia A, Sander C (1996) GeneQuiz II: automatic function assignment for genome sequence analysis. In: Hunter L, Klein TE (eds) First annual Pacific symposium on biocomputing. World Scientific, Hawaii, pp 707–709 Google Scholar
Fleischmann RD, Adams MD, White O, Clayton RA, Kirkness EF, Kerlavage AR, Bult CJ, Tomb J-F, Dougherty BA, Merrick JM, McKenney K, Sutton G, FitzHugh W, Fields C, Gocayne JD, Scott J, Shirley R, Liu L-I, Glodek A, Kelley JM, Weidman JF, Phillips CA, Spriggs T, Hedblom E, Cotton MD, Utterback TR, Hanna MC, Nguyen DT, Saudek DM, Brandon RC, Fine LD, Fritchman JL, Fuhrmann JL, Geoghagen NSM, Gnehm CL, McDonald LA, Small KV, Fraser CM, Smith O, Venter JC (1995) Whole-genome random sequencing an assembly of Haemophilus influenzae Rd. Science 269:496–512 ArticlePubMedCAS Google Scholar
Fraser FC, Gocayne JD, White O, Adams MD, Clayton RA, Fleischmann RD, Bult CJ, Kerlavage AR, Sutton G, Kelley JM, Fritchman JL, Weidman JF, Small KV, Sandusky M, Fuhrmann J, Nguyen D, Utterback TR, Saudek DM, Phillips CA, Merrick JM, Tomb J-F, Dougherty BA, Bott KF, Hu P-C, Lucier TS, Peterson SN, Smith HO, Hutchison CAI, Venter JC (1995) The minimal gene complement of Mycoplasma genitalium. Science 270:397–403 ArticlePubMedCAS Google Scholar
Gompels UA, Nicholas J, Lawrence G, Jones M, Thomson BJ, Martin ME, Efstathiou S, Craxton M, Macaulay HA (1995) The DNA sequence of human herpesvirus-6: structure, coding content, and genome evolution. Virology 209:29–51 ArticlePubMedCAS Google Scholar
Irving NG, Cabin DE, Swanson DA, Reeves RH (1994) Gene order is conserved within the human chromosome 21 linkage group on mouse chromosome 10. Genomics 21:144–149 ArticlePubMedCAS Google Scholar
Johansson M, Ellegren H, Andersson L (1995) Comparative mapping reveals extensive linkage conservation but with gene order rearrangements-between the pig and the human genomes. Genomics 25:682–690 ArticlePubMedCAS Google Scholar
Keeling PJ, Charlebois RL, Doolittle WF (1994) Archaebacterial genomes: eubacterial form and eukaryotic content. Curr Opin Genet Dev 4:816–822 ArticlePubMedCAS Google Scholar
Kingsmore SF, Watson ML, Howard TA, Seldin MF (1989) A 6000 Kb segment of chromosome 1 is conserved in human and mouse. EMBO J 8:4073–4080 PubMed CentralPubMedCAS Google Scholar
Kunisawa T (1995) Identification and chromosomal distribution of DNA sequence segments conserved since divergence of Escherichia coli and Bacillus subtilis. J Mol Evol 40:585–593 ArticlePubMedCAS Google Scholar
Lopez-Garcia P, St Jean A, Amils R, Charlebois RL (1995) Genomic stability in the archaeae Haloferax volcanii and Haloferax mediterraneii. J Bacteriol 177:1405–1408 PubMed CentralPubMedCAS Google Scholar
Lundin LG (1979) Evolutionary conservation of large chromosomal segments reflected in mammalian gene maps. Clin Genet 16:72–81 ArticlePubMedCAS Google Scholar
O’Brien SJ, Seuanez HN, Womack JE (1988) Mammalian genome organization: an evolutionary view. Annu Rev Genet 22:323–351 ArticlePubMed Google Scholar
Ouzounis C, Valencia A, Tamames J, Bork P, Sander C (1995) The functional composition of living machines as a design principle for artificial organisms. In: Morán F, Moreno A, Merelo JJ, Chacón P (eds) European conference on artificial life 1995 (ECAL95). Springer-Verlag, Granada, Spain, pp 843–851 Google Scholar
Ouzounis C, Casari G, Valencia A, Sander C (1996) Novelties from the complete genome of Mycoplasma genitalium. Mol Microbiol 20: 897–899 Article Google Scholar
Rogatko A, Zacks S (1989) Statistical inference in the gene order problem: theoretical aspects. Prog Clin Biol Res 329:63–68 PubMedCAS Google Scholar
Rudd KE (1993) Maps, genes, sequences, and computers: an Escherichia coli case study. ASM News 59:335–341 Google Scholar
Sankoff D, Goldstein M (1989) Probabilistic models of genome shuffling. Bull Math Biol 51:117–124 ArticlePubMedCAS Google Scholar
Sankoff D, Leduc G, Antoine N, Paquin B, Lang BF, Cedergren R (1992) Gene order comparisons for phylogenetic inference: evolution of the mitochondrial genome. Proc Natl Acad Sci USA 89: 6575–6579 ArticlePubMed CentralPubMedCAS Google Scholar
Shapiro JA (1982) Changes in gene order and gene expression. Natl Cancer Inst Monogr 60:87–110 PubMedCAS Google Scholar
Tamames J, Ouzounis C, Sander C, Valencia A (1996) Genomes with distinct functional composition. FEBS Lett 389:96-101 Zakharov IA, Nikiforov VS, Stepaniuk EV (1992) Homology and evolution of gene orders: combinatorial measure of synteny group similarity and simulation of the evolution process. Genetika 28:77–81 ArticlePubMedCAS Google Scholar
Zorio DAR, Cheng NN, Blumenthal T, Spieth J (1994) Operons as a common form of chromosomal organization in C. elegans. Nature 372:270–273 ArticlePubMedCAS Google Scholar