HOLLY WICHMAN

Summary

Affiliation: University of Idaho
Country: USA

Publications

  1. pmc Billions of basepairs of recently expanded, repetitive sequences are eliminated from the somatic genome during copepod development
    Cheng Sun
    Department of Biology, Colorado State University, Fort Collins, CO 80523 1878, USA
    BMC Genomics 15:186. 2014
  2. 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
  3. 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
  4. 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
  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. 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
  7. 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
  8. 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
  9. 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
  10. 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

Research Grants

  1. Mammalian Genomes - Stasis and Change
    HOLLY WICHMAN; Fiscal Year: 2009

Collaborators

Detail Information

Publications15

  1. pmc Billions of basepairs of recently expanded, repetitive sequences are eliminated from the somatic genome during copepod development
    Cheng Sun
    Department of Biology, Colorado State University, Fort Collins, CO 80523 1878, USA
    BMC Genomics 15:186. 2014
    ....
  2. 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...
  3. 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...
  4. 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...
  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. 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...
  7. 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...
  8. 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...
  9. 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...
  10. 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...
  11. 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
    ....
  12. 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...
  13. 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...
  14. 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...
  15. 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 Grants1

  1. 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. ..