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Holly Wichman

Research Profile

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Genome, Viral

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Publications

TOP 3
Celeste J Brown; Jack Millstein; Christopher J Williams; Holly A Wichman
Selection affects genes involved in replication during long-term evolution in experimental populations of the bacteriophage φX174.
Anna C Nagel; Holly A Wichman; Paul Joyce; Craig R Miller
Stickbreaking: a novel fitness landscape model that harbors epistasis and is consistent with commonly observed patterns of adaptive evolution.
Issac K Erickson; LuAnn Scott; Michael A Cantrell; Holly A Wichman
Retrofitting the genome: L1 extinction follows endogenous retroviral expansion in a group of muroid rodents.

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All Publications

2013: Celeste J Brown; Jack Millstein; Christopher J Williams; Holly A Wichman
Selection affects genes involved in replication during long-term evolution in experimental populations of the bacteriophage φX174.
PloS one 2013;8(3):e60401.
2012: Anna C Nagel; Holly A Wichman; Paul Joyce; Craig R Miller
Stickbreaking: a novel fitness landscape model that harbors epistasis and is consistent with commonly observed patterns of adaptive evolution.
Genetics 2012;190(2):655-67.
2011: Issac K Erickson; LuAnn Scott; Michael A Cantrell; Holly A Wichman
Retrofitting the genome: L1 extinction follows endogenous retroviral expansion in a group of muroid rodents.
Journal of virology 2011;85(23):12315-23.
2011: Kuo Hao Lee; Craig R Miller; Anna C Nagel; Holly A Wichman; Paul Joyce; F Marty Ytreberg
First-step mutations for adaptation at elevated temperature increase capsid stability in a virus.
PloS one 2011;6(9):e25640.
2011: Craig R Miller; Paul Joyce; Holly A Wichman
Mutational effects and population dynamics during viral adaptation challenge current models.
Genetics 2011;187(1):185-202.
2010: Holly A Wichman; Celeste J Brown
Experimental evolution of viruses: Microviridae as a model system.
Philosophical transactions of the Royal Society of London. Series B, Biological sciences 2010;365(1552):2495-501.
2009: Darin R Rokyta; Zaid Abdo; Holly A Wichman
The genetics of adaptation for eight microvirid bacteriophages.
Journal of molecular evolution 2009;69(3):229-39.
2009: L Caitlin Coberly; Wei Wei; Koffi Y Sampson; Jack Millstein; Holly A Wichman; Stephen M Krone
Space, time, and host evolution facilitate coexistence of competing bacteriophages: theory and experiment.
The American naturalist 2009;173(4):E121-38.
2009: Michael A Cantrell; Bryan C Carstens; Holly A Wichman
X chromosome inactivation and Xist evolution in a rodent lacking LINE-1 activity.
PloS one 2009;4(7):e6252.
2008: Darin R Rokyta; Craig J Beisel; Paul Joyce; Martin T Ferris; Christina L Burch; Holly A Wichman
Beneficial fitness effects are not exponential for two viruses.
Journal of molecular evolution 2008;67(4):368-76.
2008: Kim M Pepin; Holly A Wichman
Experimental evolution and genome sequencing reveal variation in levels of clonal interference in large populations of bacteriophage phiX174.
BMC evolutionary biology 2008;8():85.
2008: Michael A Cantrell; LuAnn Scott; Celeste J Brown; Armando R Martinez; Holly A Wichman
Loss of LINE-1 activity in the megabats.
Genetics 2008;178(1):393-404.
2007: Craig J Beisel; Darin R Rokyta; Holly A Wichman; Paul Joyce
Testing the extreme value domain of attraction for distributions of beneficial fitness effects.
Genetics 2007;176(4):2441-9.
2007: Kim M Pepin; Holly A Wichman
Variable epistatic effects between mutations at host recognition sites in phiX174 bacteriophage.
Evolution; international journal of organic evolution 2007;61(7):1710-24.
2006: Kim M Pepin; Melanie A Samuel; Holly A Wichman
Variable pleiotropic effects from mutations at the same locus hamper prediction of fitness from a fitness component.
Genetics 2006;172(4):2047-56.
2006: James J Bull; Jack Millstein; J Orcutt; Holly A Wichman
Evolutionary feedback mediated through population density, illustrated with viruses in chemostats.
The American naturalist 2006;167(2):E39-51.
2006: Darin R Rokyta; C L Burch; S B Caudle; Holly A Wichman
Horizontal gene transfer and the evolution of microvirid coliphage genomes.
Journal of bacteriology 2006;188(3):1134-42.
2006: LA Scott; A Kuroiwa; Y Matsuda; Holly A Wichman
X accumulation of LINE-1 retrotransposons in Tokudaia osimensis, a spiny rat with the karyotype XO.
Cytogenetic and genome research 2006;112(3-4):261-9.
2005: Michael A Cantrell; Martina M Ederer; Issac K Erickson; Vicki J Swier; Robert J Baker; Holly A Wichman
MysTR: an endogenous retrovirus family in mammals that is undergoing recent amplifications to unprecedented copy numbers.
Journal of virology 2005;79(23):14698-707.
2005: Holly A Wichman; Jack Millstein; James J Bull
Adaptive molecular evolution for 13,000 phage generations: a possible arms race.
Genetics 2005;170(1):19-31.
2005: Darin R Rokyta; Paul Joyce; S Brian Caudle; Holly A Wichman
An empirical test of the mutational landscape model of adaptation using a single-stranded DNA virus.
Nature genetics 2005;37(4):441-4.
2005: TA Rinehart; RA Grahn; Holly A Wichman
SINE extinction preceded LINE extinction in sigmodontine rodents: implications for retrotranspositional dynamics and mechanisms.
Cytogenetic and genome research 2005;110(1-4):416-25.
2005: RA Grahn; TA Rinehart; Michael A Cantrell; Holly A Wichman
Extinction of LINE-1 activity coincident with a major mammalian radiation in rodents.
Cytogenetic and genome research 2005;110(1-4):407-15.
2002: D A Parish; P Vise; Holly A Wichman; James J Bull; Robert J Baker
Distribution of LINEs and other repetitive elements in the karyotype of the bat Carollia: implications for X-chromosome inactivation.
Cytogenetic and genome research 2002;96(1-4):191-7.
2001: Michael A Cantrell; B J Filanoski; A R Ingermann; K Olsson; N DiLuglio; Z Lister; Holly A Wichman
An ancient retrovirus-like element contains hot spots for SINE insertion.
Genetics 2001;158(2):769-77.
2000: Michael A Cantrell; RA Grahn; L Scott; Holly A Wichman
Isolation of markers from recently transposed LINE-1 retrotransposons.
BioTechniques 2000;29(6):1310-6.
2000: Holly A Wichman; LA Scott; C D Yarber; James J Bull
Experimental evolution recapitulates natural evolution.
Philosophical transactions of the Royal Society of London. Series B, Biological sciences 2000;355(1403):1677-84.
2000: James J Bull; Marty R Badgett; Holly A Wichman
Big-benefit mutations in a bacteriophage inhibited with heat.
Molecular biology and evolution 2000;17(6):942-50.
2000: NC Casavant; L Scott; Michael A Cantrell; Lara E Wiggins; Robert J Baker; Holly A Wichman
The end of the LINE?: lack of recent L1 activity in a group of South American rodents.
Genetics 2000;154(4):1809-17.
2000: W D Crill; Holly A Wichman; James J Bull
Evolutionary reversals during viral adaptation to alternating hosts.
Genetics 2000;154(1):27-37.
1999: Holly A Wichman; Marty R Badgett; LA Scott; Carla Boulianne; James J Bull
Different trajectories of parallel evolution during viral adaptation.
Science (New York, N.Y.) 1999;285(5426):422-4.
1998: NC Casavant; R N Lee; A N Sherman; Holly A Wichman
Molecular evolution of two lineages of L1 (LINE-1) retrotransposons in the california mouse, Peromyscus californicus.
Genetics 1998;150(1):345-57.
1997: James J Bull; Marty R Badgett; Holly A Wichman; J P Huelsenbeck; David M Hillis; A Gulati; C Ho; Ian J Molineux
Exceptional convergent evolution in a virus.
Genetics 1997;147(4):1497-507.
1997: R Sawby; Holly A Wichman
Analysis of orthologous retrovirus-like elements in the white-footed mouse, Peromyscus leucopus.
Journal of molecular evolution 1997;44(1):74-80.
1996: N C Casavant; A N Sherman; Holly A Wichman
Two persistent LINE-1 lineages in Peromyscus have unequal rates of evolution.
Genetics 1996;142(4):1289-98.
1996: J E Clough; J A Foster; M Barnett; Holly A Wichman
Computer simulation of transposable element evolution: random template and strict master models.
Journal of molecular evolution 1996;42(1):52-8.
1996: R N Lee; J C Jaskula; Ronald A Van den Bussche; Robert J Baker; Holly A Wichman
Retrotransposon Mys was active during evolution of the Peromyscus leucopus-maniculatus complex.
Journal of molecular evolution 1996;42(1):44-51.
1994: A R Edwards; Ronald A Van den Bussche; Holly A Wichman; C S Orser
Unusual pattern of bacterial ice nucleation gene evolution.
Molecular biology and evolution 1994;11(6):911-20.
1994: Robert D Bradley; Holly A Wichman
Rapidly evolving repetitive DNAs in a conservative genome: a test of factors that affect chromosomal evolution.
Chromosome research : an international journal on the molecular, supramolecular and evolutionary aspects of chromosome biology 1994;2(5):354-60.
1993: Ronald A Van den Bussche; Robert J Baker; Holly A Wichman; Mary Jo Hamilton
Molecular phylogenetics of Stenodermatini bat genera: congruence of data from nuclear and mitochondrial DNA.
Molecular biology and evolution 1993;10(5):944-59.
1993: L L Janecek; J L Longmire; Holly A Wichman; Robert J Baker
Genome organization of repetitive elements in the rodent, Peromyscus leucopus.
Mammalian genome : official journal of the International Mammalian Genome Society 1993;4(7):374-81.
1992: Holly A Wichman; Ronald A Van den Bussche
In search of retrotransposons: exploring the potential of the PCR.
BioTechniques 1992;13(2):258-65.
1992: Mary Jo Hamilton; G Hong; Holly A Wichman
Intragenomic movement and concerted evolution of satellite DNA in Peromyscus: evidence from in situ hybridization.
Cytogenetics and cell genetics 1992;60(1):40-4.
1992: Holly A Wichman; Ronald A Van den Bussche; Mary Jo Hamilton; Robert J Baker
Transposable elements and the evolution of genome organization in mammals.
Genetica 1992;86(1-3):287-93.
1991: Holly A Wichman; C T Payne; O A Ryder; Mary Jo Hamilton; M Maltbie; Robert J Baker
Genomic distribution of heterochromatic sequences in equids: implications to rapid chromosomal evolution.
The Journal of heredity 1991;82(5):369-77.
1991: Holly A Wichman; C B Lynch
Genetic variation for seasonal adaptation in Peromyscus leucopus: nonreciprocal breakdown in a population cross.
The Journal of heredity 1991;82(3):197-204.