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  • 1
    Publication Date: 2000-02-11
    Description: Eukaryotic genome sizes range over five orders of magnitude. This variation cannot be explained by differences in organismic complexity (the C value paradox). To test the hypothesis that some variation in genome size can be attributed to differences in the patterns of insertion and deletion (indel) mutations among organisms, this study examines the indel spectrum in Laupala crickets, which have a genome size 11 times larger than that of Drosophila. Consistent with the hypothesis, DNA loss is more than 40 times slower in Laupala than in Drosophila.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Petrov, D A -- Sangster, T A -- Johnston, J S -- Hartl, D L -- Shaw, K L -- New York, N.Y. -- Science. 2000 Feb 11;287(5455):1060-2.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Harvard University Society of Fellows, Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA. dpetrov@oeb.harvard.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/10669421" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; DNA/genetics ; Drosophila/*genetics ; *Evolution, Molecular ; *Genome ; Gryllidae/*genetics ; Likelihood Functions ; Multigene Family ; *Mutation ; Phylogeny ; Polymerase Chain Reaction ; Pseudogenes ; *Retroelements ; Sequence Deletion ; Species Specificity
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 2
    Publication Date: 2007-05-26
    Description: Identifying the properties of gene networks that influence their evolution is a fundamental research goal. However, modes of evolution cannot be inferred solely from the distribution of natural variation, because selection interacts with demography and mutation rates to shape polymorphism and divergence. We estimated the effects of naturally occurring mutations on gene expression while minimizing the effect of natural selection. We demonstrate that sensitivity of gene expression to mutations increases with both increasing trans-mutational target size and the presence of a TATA box. Genes with greater sensitivity to mutations are also more sensitive to systematic environmental perturbations and stochastic noise. These results provide a mechanistic basis for gene expression evolvability that can serve as a foundation for realistic models of regulatory evolution.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Landry, Christian R -- Lemos, Bernardo -- Rifkin, Scott A -- Dickinson, W J -- Hartl, Daniel L -- New York, N.Y. -- Science. 2007 Jul 6;317(5834):118-21. Epub 2007 May 24.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Organismic and Evolutionary Biology, Harvard University, 16 Divinity Avenue, Cambridge, MA 02138, USA. clandry@post.harvard.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/17525304" target="_blank"〉PubMed〈/a〉
    Keywords: Binding Sites ; *Evolution, Molecular ; *Gene Expression ; Gene Expression Regulation, Fungal ; *Gene Regulatory Networks ; *Genes, Fungal ; Genetic Variation ; Linear Models ; Models, Genetic ; *Mutation ; Oligonucleotide Array Sequence Analysis ; Phenotype ; Promoter Regions, Genetic ; Saccharomyces cerevisiae/*genetics ; Selection, Genetic ; TATA Box ; Transcription Factors/metabolism ; Transcription, Genetic
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 3
    Publication Date: 2004-10-23
    Description: Relatively little is known about the importance of amino acid interactions in protein and phenotypic evolution. Here we examine whether mutations that are pathogenic in Drosophila melanogaster become fixed via epistasis in other Dipteran genomes. Overall divergence at pathogenic amino acid sites is reduced. However, approximately 10% of the substitutions at these sites carry the exact same pathogenic amino acid found in D. melanogaster mutants. Hence compensatory mutation(s) must have evolved. Surprisingly, the fraction 10% is not affected by phylogenetic distance. These results support a selection-driven process that allows compensated amino acid substitutions to become rapidly fixed in taxa with large populations.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Kulathinal, Rob J -- Bettencourt, Brian R -- Hartl, Daniel L -- GM068465/GM/NIGMS NIH HHS/ -- P41-HG00739/HG/NHGRI NIH HHS/ -- New York, N.Y. -- Science. 2004 Nov 26;306(5701):1553-4. Epub 2004 Oct 21.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/15498973" target="_blank"〉PubMed〈/a〉
    Keywords: Amino Acid Sequence ; Amino Acid Substitution ; Animals ; Anopheles gambiae/*genetics ; Codon, Nonsense ; Drosophila/*genetics ; Drosophila melanogaster/*genetics ; Epistasis, Genetic ; *Evolution, Molecular ; Genes, Insect ; *Genome ; Insect Proteins/chemistry/*genetics ; Molecular Sequence Data ; *Mutation ; Mutation, Missense ; Phenotype ; Phylogeny ; Selection, Genetic ; Sequence Alignment
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 4
    Publication Date: 2006-04-08
    Description: Five point mutations in a particular beta-lactamase allele jointly increase bacterial resistance to a clinically important antibiotic by a factor of approximately 100,000. In principle, evolution to this high-resistance beta-lactamase might follow any of the 120 mutational trajectories linking these alleles. However, we demonstrate that 102 trajectories are inaccessible to Darwinian selection and that many of the remaining trajectories have negligible probabilities of realization, because four of these five mutations fail to increase drug resistance in some combinations. Pervasive biophysical pleiotropy within the beta-lactamase seems to be responsible, and because such pleiotropy appears to be a general property of missense mutations, we conclude that much protein evolution will be similarly constrained. This implies that the protein tape of life may be largely reproducible and even predictable.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Weinreich, Daniel M -- Delaney, Nigel F -- Depristo, Mark A -- Hartl, Daniel L -- New York, N.Y. -- Science. 2006 Apr 7;312(5770):111-4.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Organismic and Evolutionary Biology, Harvard University, 16 Divinity Avenue, Cambridge, MA 02138, USA. dmw@post.harvard.edu〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/16601193" target="_blank"〉PubMed〈/a〉
    Keywords: Alleles ; Anti-Bacterial Agents/pharmacology ; Cefotaxime/metabolism/*pharmacology ; *Drug Resistance, Bacterial ; Enzyme Stability ; Epistasis, Genetic ; Escherichia coli/*drug effects/enzymology/genetics ; *Evolution, Molecular ; Models, Genetic ; *Mutation ; Mutation, Missense ; Point Mutation ; Probability ; Selection, Genetic ; beta-Lactamases/*genetics/metabolism
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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