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Bull, J.J., J. Millstein, J. Orcutt, and H.A.
Wichman. (2006) Evolutionary feedback mediated through population
density, illustrated with viruses in chemostats. Am. Nat.
167:E39-E51.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16670974
Pepin, K.M., M.A. Samuel, and H.A. Wichman. (2006)
Variable pleiotropic effects from mutations at the same locus hamper
prediction of fitness from a fitness component. Genetics
172:2047-2056.
http://www.genetics.org/cgi/content/full/172/4/2047
Rokyta, D.R., C.L. Burch, S.B. Caudle, and H.A.
Wichman. (2006) Horizontal gene transfer and the evolution of
microvirid coliphage genomes. J. Bacteriol. 188:1134-1142.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16428417
Scott, L., A. Kuroiwa, Y. Matsuda, and H.A. Wichman.
(2006) X accumulation of LINE-1 retrotransposons in Tokudaia
osimensis, a spiny rat with the karyotype XO. Cytogenet. Genome
Res. 112:261-269.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16484782
Cantrell, M.A., M.M. Ederer, I.K. Erickson, V.J.
Swier, R.J. Baker, and H.A. Wichman. (2005) MysTR: an endogenous
retrovirus family in mammals undergoing recent amplifications to
unprecedented copy numbers. J. Virol. 79:14698-14707.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16282470
Rokyta, D.R., P. Joyce, S.B. Caudle, and H.A.
Wichman. (2005) An empirical test of the mutational landscape model
of adaptation using a single-stranded DNA virus. Nat. Genet.
37:441-444.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=15778707
Wichman, H.A., J. Millstein, and J.J. Bull. (2005)
Adaptive molecular evolution for 13,000 phage generations: a
possible arms race. Genetics 170:19-31.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=15687276
Grahn, R.A., T.A. Rinehart, M.A. Cantrell, and H.A.
Wichman. (2005) Extinction of LINE-1 activity coincident with a
major mammalian radiation in rodents. Cytogenet. Genome Res.
110:407-415.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16093693
Rinehart, T.A., R.A. Grahn, and H.A. Wichman. (2005)
SINE extinction preceded LINE extinction in sigmodontine rodents:
implications for retrotranspositional dynamics and mechanisms.
Cytogenet. Genome Res. 110:416-425.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Citation&list_uids=16093694
Bradley, R.D., R. Martinez, M. Maltbie, I.
Tiemann-Boege, H.A. Wichman, and R.J. Baker. (2003) Rapidly evolving
repetitive DNA in a karyotypically megaevolved genome: factors that
affect chromosomal evolution. Occasional Papers No. 223. Museum of
Texas Tech University.
http://www.nsrl.ttu.edu/publications/opapers.htm
Parish, D.A., H.A. Wichman, J.J. Bull, and R.J. Baker. (2002)
Distribution of LINEs and other repetitive elements in the karyotype
of the bat Carollia: implications for X-chromsome inactivation.
Cytogent. Genome Res. 96:191-197.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=12438798&dopt=Abstract Bull, J.J. and H.A. Wichman. (2001) Applied evolution. Ann. Rev.
Ecol. System. 16:183-217.
http://ecolsys.annualreviews.org/cgi/reprint/32/1/183.pdf
Cantrell, M.A., B.J. Filanoski, A. Ingermann,
K. Olsson, N. DiLuglio, Z. Lister, H.A. Wichman
(2001) An ancient retrovirus-like element contains hot spots for
SINE insertion. Genetics 158:769-777.
http://www.genetics.org/cgi/content/full/158/2/769
Cantrell, M.A., R.A. Grahn, L.A. Scott, and H.A. Wichman. (2000)
Isolation of markers from recently transposed LINE-1
retrotransposons. BioTechniques 29:1310-16.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=11126134&dopt=Abstract
Wichman, H.A., C.D. Yarber, L.A. Scott, and J.J. Bull. (2000)
Experimental evolution recapitulates natural evolution. Phil. Trans.
R. Soc. Lond. B. 355:1677-1684.
http://www.journals.royalsoc.ac.uk/link.asp?id=9xtekg5a36blcy17
Bull, J. J., M.R. Badgett, and H.A. Wichman. (2000) Big-benefit
mutations in a bacteriophage inhibited with heat. Mol. Biol. Evol. 17:942-50.
http://mbe.oupjournals.org/cgi/content/full/17/6/942
Casavant, N.C., L.A. Scott, M.A. Cantrell, L.E. Wiggins, R.J.
Baker, and H.A. Wichman. (2000) The end of the LINE? Lack of recent
L1 activity in a group of South American rodents. Genetics
154:1809-1817.
http://www.genetics.org/cgi/content/full/154/4/1809
Crill, W.D., H.A. Wichman, and J.J. Bull. (2000) Evolutionary
reversals during viral adaptation to alternating hosts. Genetics
154: 27-37.
http://www.genetics.org/cgi/content/full/154/1/27
Wichman, H.A., M.R. Badgett, L.A. Scott, C.M. Boulianne, and J.J.
Bull. (1999) Different trajectories of parallel evolution during
viral adaptation. Science 285:422-424.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=10411508&dopt=Abstract
Casavant, N.C., R.N. Lee, A.N. Sherman, and H.A.
Wichman. (1998) Molecular evolution of two lineages of L1 (LINE-1) retrotransposons in the California mouse, Peromyscus californicus.
Genetics 150:345-357.
http://www.genetics.org/cgi/content/full/150/1/345
Bull, J.J., M.R. Badgett, H.A. Wichman, J.P. Huelsenbeck, D.M.
Hillis, A. Gulati, C. Ho, I.J. Molineaux. (1997) Exceptional
convergent evolution in a virus. Genetics 147: 1497-1507.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=9409816&dopt=Abstract
Sawby, R., and H.A. Wichman. (1997) Analysis of orthologous
retrovirus-like elements in the white-footed mouse, Peromyscus
leucopus. J. Mol. Evol. 44:74-80.
http://link.springer-ny.com/link/service/journals/00239/papers97/44n1p74.pdf
Casavant, N.C., A.N. Sherman, and H.A. Wichman. (1996)
Two persistent LINE-1 lineages in Peromyscus have unequal rates of
evolution. Genetics 142:1289-1298.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=8846905&dopt=Abstract
Lee, R.N., J.C. Jaskula, R.A. Van Den Bussche,
R.J. Baker and H.A. Wichman. (1996) Retrotransposon mys was
active during evolution of the Peromyscus leucopus-maniculatus
complex. J. Mol. Evol. 42:44-51.
http://link.springer-ny.com/link/service/journals/00239/papers/42n1p44.pdf
Clough, J.E., J.A. Foster, M. Barnett, and H.A.
Wichman. (1996) Computer simulation of transposable element
evolution: random template and strict master models. J. Mol. Evol. 42:52-58.
http://link.springer-ny.com/link/service/journals/00239/papers/42n1p52.pdf
Edwards, A.R., R.A. Van Den Bussche, H.A. Wichman,
and C.S. Orser. (1994) Unusual pattern of bacterial ice
nucleation gene evolution. Mol. Biol. Evol.11:911-920.
http://mbe.oupjournals.org/cgi/reprint/11/6/911.pdf
Bradley, R., and H.A. Wichman. (1994) Rapidly
evolving repetitive DNA in a conservative genome: A test of factors
that affect chromosomal evolution. Chromosome Res. 2:354-360.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=7981939&dopt=Abstract
Van Den Bussche, R.A., R.J. Baker, H.A. Wichman,
and M.J. Hamilton. (1993) Molecular phylogenetics of
Stenodermatini genera: Congruence of data from nuclear and
mitochondrial DNA. Mol. Biol. Evol. 10:944-959.
http://mbe.oupjournals.org/cgi/reprint/10/5/944.pdf
Janecek, L.L., J.L. Longmire, H.A. Wichman, and
R.J. Baker. (1993) Organization of repetitive elements in the
genome of the white-footed mouse, Peromyscus leucopus. Mamm.
Genome 4:374-381.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=8395263&dopt=Abstract
Wichman, H.A., and R.A. Van Den Bussche. (1992) In
search of retrotransposons: Testing the potential of the polymerase
chain reaction. BioTechniques 13:258-263.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=1382466&dopt=Abstract
Hamilton, M.J., G. Hong and H.A. Wichman. (1992) Intragenomic movement and concerted evolution of satellite DNA in
Peromyscus: Evidence from in situ hybridization. Cytogenet.
Cell Genet. 60:40-44.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=1582258&dopt=Abstract
Wichman, H.A., R.A. Van Den Bussche, M.J.
Hamilton and R.J. Baker. (1992) Transposable elements and the
evolution of genome organization in mammals. Genetica 86:287-293.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=1334913&dopt=Abstract
Simmons, A.D., J.L. Longmire, T.W. Reeder, H.A.
Wichman, and R.J. Baker. (1992) Restriction fragment length
polymorphisms in heterochromatic DNA that distinguish chromosomal
races of Peromyscus leucopus. Mol. Ecol. 1:251-254.
Wichman, H.A. and C.B. Lynch. (1991) Genetic variation
for seasonal adaptation in Peromyscus leucopus: Non-reciprocal
maternal effects in a population cross. J. Hered.
82:197-204.
Wichman, H.A., C.T. Payne, O.A. Ryder, M.J.
Hamilton, M. Maltbie, and R.J. Baker. (1991) Genomic
distribution of heterochromatic sequences in equids: implications to
rapid chromosomal evolution. J. Hered. 82:367-377.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=1658126&dopt=Abstract
Baker, R.J. and H.A. Wichman. (1990) Retrotransposon
mys
is concentrated on the sex chromosomes: implications for copy number
containment. Evolution 44:2083-2088.
Wichman, H.A., S.S. Potter, and D.S. Pine. (1985)
Mys, a family of mammalian transposable elements isolated by a
phylogenetic screening procedure. Nature 317:77-81.
http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&list_uids=2993916&dopt=Abstract
Gram, W.D., H.W. Heath, H.A. Wichman, and G.R. Lynch (1982)
Geographic variation in Peromyscus leucopus: Short day induced
regression and spontaneous recrudescence. Biol. Reprod.
27:369-373.
Lynch, G.R., and H.A. Wichman (1981) Reproduction and
thermoregulation in Peromyscus: Effects of chronic short days.
Physiol. Behav. 26:201-205.
Bintz, G.L, H. Wichman Roesbery, and L.B. Bintz
(1979) Glycogen levels in field and laboratory-acclimated Richardson
ground squirrels. Comp. Biochem. Physiol. 62A:339-342.
Bintz, G.L., and H. Wichman Roesbery (1978) Evaporative
water loss by control and starved laboratory rats and Spermophilus
richardsoni. Comp. Biochem. Physiol. 59A:275-278.
Book chapters:
Joyce, P., L. Fox, N.C. Casavant, and H.A. Wichman.
(1999) Linear estimators for the evolution of transposable elements.
Pp. 207-220 in Statistics in Molecular Biology and Genetics.
Seillier-Moiseiwitsch, F., ed. Institute of Mathematical Statistics,
Hayward CA.
Baker, R.J., B. Albin, R.D. Bradley, J.J. Bull, J.
Burns, K.A. Clark, G. Edson, R.E. Estrada, E. Farley, C.B. Fedler,
B.M. Gharaibeh, R.L. Hammer, C. Jones, R. Monk, J.T. Montford, G.
Moore, N.C. Parker, J. Rawlings, A. Sansom, D.J. Schmidly, R.W.
Sims, H. Wichman, and F.D. Yancey. (1996) Natural science databases:
resource management and public health. Pp. 10-20 in
Organization of Fish and Wildlife Information Managers: Proceedings
of the 4th Annual Conference.
Martin, S.L., and H.A. Wichman. (1993) Molecular
approaches to mammalian retrotransposon isolation. Pp. 309-322 in
Methods in Enzymology, Vol 224. Molecular Evolution: Producing the
Biochemical Data. Zimmer, E.A., T.J. White, R.L. Cann, and A.C.
Wilson, eds. Academic Press.
Wichman, H.A., R.A. Van den Bussche, M.J. Hamilton,
and R.J. Baker. (1993) Transposable elements and the evolution of
genome organization in mammals. Pp. 149-155 and Discussion.
Wichman, pp 156-157 in Transposable Elements and Evolution.
McDonald, J.F., ed. Sinauer Assoc. Inc., Sunderland MA.
Wichman, H.A., C.T. Payne, and T.W. Reeder. (1990)
Intrageneric variation in repetitive sequences isolated by
phylogenetic screening of mammalian genomes. Pp. 153-160 in
Molecular Evolution. Clegg, M.T., and S.J. O'Brien, eds. Wiley-Liss,
New York.
Other publications:
Bull, J.J. and H.A. Wichman. (1998) A revolution in evolution.
Editorial. Science 1998:1959.
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