Research Topics
| Antony M DeanSummaryAffiliation: University of Minnesota Country: USA Publications
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Detail Information
Publications
Mechanistic approaches to the study of evolution: the functional synthesisAntony M Dean
University of Minnesota, St Paul, Minnesota 55108, USA
Nat Rev Genet 8:675-88. 2007..Here we describe this emerging approach, highlight important new insights that it has made possible, and suggest future directions for the field...
Direct demonstration of an adaptive constraintStephen P Miller
Biotechnology Institute, University of Minnesota, St. Paul, MN 55108, USA
Science 314:458-61. 2006..Our results show that selective mechanisms and evolutionary constraints are to be understood in terms of underlying adaptive landscapes...- Pervasive cryptic epistasis in molecular evolutionMark Lunzer
Biotechnology Institute, University of Minnesota, St Paul, Minnesota, USA
PLoS Genet 6:e1001162. 2010..This demonstrates that epistatic interactions can occur between distant (>20Å) sites. Phylogenetic analysis shows that incompatible mutations were fixed in different lineages... - The biochemical architecture of an ancient adaptive landscapeMark Lunzer
Biotechnology Institute, Evolution and Behavior, University of Minnesota, St. Paul, MN 55108, USA
Science 310:499-501. 2005..The genotype-phenotype-fitness map shows that NAD use is a global optimum... - The argRB of Escherichia coli is rare in isolates obtained from natural sourcesLauren M F Merlo
University of Minnesota, Department of Ecology, Evolution, and Behavior, Saint Paul, MN, USA
Gene 376:240-7. 2006..Moreover, sequence analysis of 85 strains shows no evidence of selection at the arginine repressor locus. This illustrates that analysis of sequence data is insufficient to detect selection of uncommon alleles in rare environments... - An empirical test of the concomitantly variable codon hypothesisLauren M F Merlo
Department of Ecology, Evolution, and Behavior, University of Minnesota, 100 Ecology Building, 1987 Upper Buford Circle, Saint Paul, MN 55108, USA
Proc Natl Acad Sci U S A 104:10938-43. 2007..The evolution of covarions undermines a key assumption in phylogenetics and calls into question our ability to disentangle ancient relationships among major taxonomic groups... - Rapid identification and mapping of insertion sequences in Escherichia coli genomes using vectorette PCRShaobin Zhong
Biotechnology Institute, University of Minnesota, 1479 Gortner Ave, St, Paul, MN 55108, USA
BMC Microbiol 4:26. 2004..Here, we use vectorette PCR to identify and map the genomic positions of the eight insertion sequences (IS1, 2, 3, 4, 5, 30, 150, and 186) found in E. coli strain CGSC6300, a close relative of MG1655 whose genome has been sequenced... - Fitness consequences of a regulatory polymorphism in a seasonal environmentAmy M Suiter
Biotechnology Institute, University of Minnesota, 1479 Gortner Avenue, St Paul, MN 55108, USA
Proc Natl Acad Sci U S A 100:12782-6. 2003..In environments that cycle between high and low arginine, short seasons favor the K12 allele, whereas long seasons favor the B allele. Unexpectedly then, deregulated expression is adaptive in some seasonal habitats... - Protecting haploid polymorphisms in temporally variable environmentsAntony M Dean
BioTechnology Institute and Department of Ecology Evolution and Behavior, University of Minnesota, St Paul, Minnesota 55108 6106, USA
Genetics 169:1147-56. 2005..In temporally variable environments, frequency-dependent changes in generation times tend to counteract these invasions. Such changes can prevent fixation and protect polymorphisms... - The pattern of amino acid replacements in alpha/beta-barrelsAntony M Dean
The Biological Process Technology Institute, University of Minnesota, St Paul, 55108, USA
Mol Biol Evol 19:1846-64. 2002..A statistical analysis shows that, in all cases, much of the remaining unexplained variation is not attributable to chance and that other, as yet unidentified, causal relations must exist... - Selection in a cyclical environment: possible impact of phenotypic lag on Darwinian fitnessAmy M Suiter
Biotechnology Institute, University of Minnesota, 1987 Upper Buford Circle, St. Paul, MN 55108, USA
J Mol Evol 61:153-70. 2005..This suggests that phenotypic lag, wherein cellular physiology changes more slowly than the environment, may be influencing the outcome of competition in this experimental system... - The selective cause of an ancient adaptationGuoping Zhu
Biotechnology Institute, University of Minnesota, St. Paul, MN 55108, USA
Science 307:1279-82. 2005..Those with only an NAD-dependent IDH never have isocitrate lyase. Hence, the NADP dependence of prokaryotic IDH is an ancient adaptation to anabolic demand for reduced NADP during growth on acetate... - Evolutionary genomics of ecological specializationShaobin Zhong
Biotechnology Institute, University of Minnesota, St Paul, MN 55108, USA
Proc Natl Acad Sci U S A 101:11719-24. 2004..Other mutations that repeatedly appear in replicate experiments are adaptations to the chemostat environment and are not specific to one or the other sugar... - Enzyme kinetics, substitutable resources and competition: from biochemistry to frequency-dependent selection in lacMark Lunzer
Biotechnology Institute, University of Minnesota, St. Paul, Minnesota 55108, USA
Genetics 162:485-99. 2002..A comparison of predictions, based on first principles, with experimental outcomes reveals an additional, unanticipated source of weak selection... - Evolution of specialists in an experimental microcosmDaniel E Dykhuizen
Department of Ecology and Evolution, SUNY, Stony Brook, New York 11794, USA
Genetics 167:2015-26. 2004..Our results suggest that, once stabilized, ecological specialization prevented selective sweeps through the entire population, thereby promoting the maintenance of linked neutral polymorphisms... - Evolving protein functional diversity in new genes of DrosophilaJianming Zhang
Department of Ecology and Evolution, University of Chicago, Chicago, IL 60637, USA
Proc Natl Acad Sci U S A 101:16246-50. 2004..These data suggest that protein functional diversity can expand rapidly under the joint forces of exon shuffling, gene duplication, and natural selection... - Local migration promotes competitive restraint in a host-pathogen 'tragedy of the commons'Benjamin Kerr
Department of Biology, University of Washington, Box 351800, Seattle, Washington 98195 1800, USA
Nature 442:75-8. 2006..Thus, migration pattern alone can determine whether a de novo tragedy of the commons is resolved in favour of restraint... - The mitochondrial citrate transport protein: probing the secondary structure of transmembrane domain III, identification of residues that likely comprise a portion of the citrate transport pathway, and development of a model for the putative TMDIII-TMDIIIChunlong Ma
Department of Biochemistry and Molecular Biology, Finch University of Health Sciences/The Chicago Medical School, North Chicago, Illinois 60064, USA
J Biol Chem 279:1533-40. 2004.... - The cost of expression of Escherichia coli lac operon proteins is in the process, not in the productsDaniel M Stoebel
Department of Ecology and Evolution, Stony Brook University, Stony Brook, New York 11794, USA
Genetics 178:1653-60. 2008..Our results identify the basis of a single selective pressure likely acting across the entire E. coli transcriptome...