HOLLY WICHMAN

Summary

Affiliation: University of Idaho
Country: USA

Publications

  1. pmc The genetics of adaptation for eight microvirid bacteriophages
    Darin R Rokyta
    Department of Biological Sciences, University of Idaho, Moscow, ID 83844 3051, USA
    J Mol Evol 69:229-39. 2009
  2. pmc Experimental evolution and genome sequencing reveal variation in levels of clonal interference in large populations of bacteriophage phiX174
    Kim M Pepin
    Department of Biological Sciences, University of Idaho, Moscow, ID, 83844 3051, USA
    BMC Evol Biol 8:85. 2008
  3. ncbi request reprint Different trajectories of parallel evolution during viral adaptation
    H A Wichman
    Department of Biological Sciences, University of Idaho, Moscow, ID 83844, USA
    Science 285:422-4. 1999
  4. pmc Adaptive molecular evolution for 13,000 phage generations: a possible arms race
    Holly A Wichman
    Department of Biological Sciences, University of Idaho, Moscow, 83844 3051, USA
    Genetics 170:19-31. 2005
  5. pmc Experimental evolution of viruses: Microviridae as a model system
    Holly A Wichman
    Department of Biological Sciences, University of Idaho, Moscow, ID, USA
    Philos Trans R Soc Lond B Biol Sci 365:2495-501. 2010
  6. pmc Retrofitting the genome: L1 extinction follows endogenous retroviral expansion in a group of muroid rodents
    Issac K Erickson
    Department of Biological Sciences, P O Box 443051, University of Idaho, Moscow, ID 83844 3051, USA
    J Virol 85:12315-23. 2011
  7. pmc Variable pleiotropic effects from mutations at the same locus hamper prediction of fitness from a fitness component
    Kim M Pepin
    Department of Biological Sciences, University of Idaho, Moscow, Idaho 83844 3051, USA
    Genetics 172:2047-56. 2006
  8. pmc MysTR: an endogenous retrovirus family in mammals that is undergoing recent amplifications to unprecedented copy numbers
    Michael A Cantrell
    Department of Biological Sciences, PO Box 443051, University of Idaho, Moscow, ID 83844, USA
    J Virol 79:14698-707. 2005
  9. ncbi request reprint An empirical test of the mutational landscape model of adaptation using a single-stranded DNA virus
    Darin R Rokyta
    Department of Biological Sciences, University of Idaho, Moscow, Idaho 83844, USA
    Nat Genet 37:441-4. 2005
  10. pmc Mutational effects and population dynamics during viral adaptation challenge current models
    Craig R Miller
    Department of Biological Sciences, University of Idaho, Moscow, Idaho 83844, USA
    Genetics 187:185-202. 2011

Research Grants

  1. Mammalian Genomes - Stasis and Change
    HOLLY WICHMAN; Fiscal Year: 2007
  2. MAMMALIAN GENOMES--STASIS AND CHANGE
    HOLLY WICHMAN; Fiscal Year: 2005
  3. Predictability of Viral Evolution
    HOLLY WICHMAN; Fiscal Year: 2002
  4. MAMMALIAN GENOMES--STASIS AND CHANGE
    HOLLY WICHMAN; Fiscal Year: 2000
  5. MAMMALIAN GENOMES--STASIS AND CHANGE
    HOLLY WICHMAN; Fiscal Year: 1993
  6. Mammalian Genomes - Stasis and Change
    HOLLY WICHMAN; Fiscal Year: 2009

Collaborators

Detail Information

Publications14

  1. pmc The genetics of adaptation for eight microvirid bacteriophages
    Darin R Rokyta
    Department of Biological Sciences, University of Idaho, Moscow, ID 83844 3051, USA
    J Mol Evol 69:229-39. 2009
    ..These results provide an empirical framework for future adaptation theory...
  2. pmc Experimental evolution and genome sequencing reveal variation in levels of clonal interference in large populations of bacteriophage phiX174
    Kim M Pepin
    Department of Biological Sciences, University of Idaho, Moscow, ID, 83844 3051, USA
    BMC Evol Biol 8:85. 2008
    ..Genomic sequences of multiple individuals from evolved populations were used to detect competing beneficial mutations...
  3. ncbi request reprint Different trajectories of parallel evolution during viral adaptation
    H A Wichman
    Department of Biological Sciences, University of Idaho, Moscow, ID 83844, USA
    Science 285:422-4. 1999
    ..However, the order of these changes differed between replicates, and parallel substitutions did not reflect the changes with the largest beneficial effects or indicate a common trajectory of adaptation...
  4. pmc Adaptive molecular evolution for 13,000 phage generations: a possible arms race
    Holly A Wichman
    Department of Biological Sciences, University of Idaho, Moscow, 83844 3051, USA
    Genetics 170:19-31. 2005
    ..We instead suggest that continuing molecular evolution reflects a potentially indefinite arms race, stemming from high levels of co-infection and the resulting conflict among genomes competing within the same cell...
  5. pmc Experimental evolution of viruses: Microviridae as a model system
    Holly A Wichman
    Department of Biological Sciences, University of Idaho, Moscow, ID, USA
    Philos Trans R Soc Lond B Biol Sci 365:2495-501. 2010
    ..Elucidation of these mechanisms is aided by the availability of capsid and pro-capsid structures for phiX174 and builds on years of genetic studies of the phage life history...
  6. pmc Retrofitting the genome: L1 extinction follows endogenous retroviral expansion in a group of muroid rodents
    Issac K Erickson
    Department of Biological Sciences, P O Box 443051, University of Idaho, Moscow, ID 83844 3051, USA
    J Virol 85:12315-23. 2011
    ..Alternatively, it is possible that this large ERV expansion set the stage for L1 extinction...
  7. pmc Variable pleiotropic effects from mutations at the same locus hamper prediction of fitness from a fitness component
    Kim M Pepin
    Department of Biological Sciences, University of Idaho, Moscow, Idaho 83844 3051, USA
    Genetics 172:2047-56. 2006
    ..The data highlight that even in this simple, well-characterized system, prediction of fitness from a fitness component depends on genetic architecture and environment...
  8. pmc MysTR: an endogenous retrovirus family in mammals that is undergoing recent amplifications to unprecedented copy numbers
    Michael A Cantrell
    Department of Biological Sciences, PO Box 443051, University of Idaho, Moscow, ID 83844, USA
    J Virol 79:14698-707. 2005
    ..Nevertheless, these independent expansions of mysTR represent recent amplifications of this endogenous retrovirus family to unprecedented levels...
  9. ncbi request reprint An empirical test of the mutational landscape model of adaptation using a single-stranded DNA virus
    Darin R Rokyta
    Department of Biological Sciences, University of Idaho, Moscow, Idaho 83844, USA
    Nat Genet 37:441-4. 2005
    ....
  10. pmc Mutational effects and population dynamics during viral adaptation challenge current models
    Craig R Miller
    Department of Biological Sciences, University of Idaho, Moscow, Idaho 83844, USA
    Genetics 187:185-202. 2011
    ..Collectively, the results indicate that the fitness landscape falls between the extremes of smooth and fully uncorrelated, violating the assumptions of many current mutational landscape models...
  11. ncbi request reprint Variable epistatic effects between mutations at host recognition sites in phiX174 bacteriophage
    Kim M Pepin
    Department of Biological Sciences, University of Idaho, Moscow, Idaho 83844, USA
    Evolution 61:1710-24. 2007
    ..We discuss these findings in the context of studying the role of epistasis in evolution...
  12. pmc Testing the extreme value domain of attraction for distributions of beneficial fitness effects
    Craig J Beisel
    Initiative for Bioinformatics and Evolutionary Studies IBEST, University of Idaho, Moscow, ID 83844, USA
    Genetics 176:2441-9. 2007
    ..We also describe how to pool data across experiments, since we expect few possible beneficial mutations in any particular experiment...
  13. pmc X chromosome inactivation and Xist evolution in a rodent lacking LINE-1 activity
    Michael A Cantrell
    Department of Biological Sciences, University of Idaho, Moscow, Idaho, United States of America
    PLoS ONE 4:e6252. 2009
    ..Similarly, comparison of known repeats and potential RNA secondary structures reveals no major differences with the exception of a new repeat in O. palustris that has potential to form new secondary structures...
  14. pmc Loss of LINE-1 activity in the megabats
    Michael A Cantrell
    Department of Biological Sciences, University of Idaho, Moscow, Idaho 83844 3051, USA
    Genetics 178:393-404. 2008
    ..These megabat species can serve as new animal models to ask what effect loss of L1 activity has on mammalian genome evolution and gene expression...

Research Grants18

  1. Mammalian Genomes - Stasis and Change
    HOLLY WICHMAN; Fiscal Year: 2007
    ..This proposal will also ask whether changes in patterns of methylation by endocrine disruptors is linked to increased rates of retrotransposition. ..
  2. MAMMALIAN GENOMES--STASIS AND CHANGE
    HOLLY WICHMAN; Fiscal Year: 2005
    ..We will also continue our characterization of L1 elements throughout mammals, and examine XIST and L1 in mammals with unusual sex determining mechanisms or radical changes in the X chromosome. ..
  3. Predictability of Viral Evolution
    HOLLY WICHMAN; Fiscal Year: 2002
    ..A better understanding of the roles of molecular evolution could ultimately help us track pathogens, anticipate and control mechanisms of resistance, and develop long- lasting vaccines and drugs. ..
  4. MAMMALIAN GENOMES--STASIS AND CHANGE
    HOLLY WICHMAN; Fiscal Year: 2000
    ..The long term goal of this research is to understand how selection acting at the level of the element and/or host maintains L1s in the genome while constraining both the number and activity of master elements. ..
  5. MAMMALIAN GENOMES--STASIS AND CHANGE
    HOLLY WICHMAN; Fiscal Year: 1993
    ..The third objective is to examine the rate of transposition of two transposable elements in the same genome to see if the rates of transposition are correlated...
  6. Mammalian Genomes - Stasis and Change
    HOLLY WICHMAN; Fiscal Year: 2009
    ..This proposal will also ask whether changes in patterns of methylation by endocrine disruptors is linked to increased rates of retrotransposition. ..