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<span class="facmedtitle">Research Interests</span>
      <p align="justify"> Although we work
on diverse areas of evolutionary genetics, the laboratory's main focus
is on the original problem raised by Darwin: the origin of species. Our
aim is to understand this process through the genetic patterns it
produces. By estimating the numbers, locations, and effects of genes
causing reproductive isolation in <i>Drosophila</i> (hybrid sterility,
mating discrimination, etc.), we hope to understand whether speciation
involves many or only a few genes, whether genetic drift plays a
significant role in the process, and whether the movement of
transposable elements causes hybrid sterility and inviability. Most of
our studies require classical genetic analysis involving crosses among
distinct species, but we also collaborate with other groups to
construct DNA-based phylogenies of these species, and to use molecular
markers for quantitative-trait-locus (QTL) mapping of genes causing
reproductive isolation and morphological differences between species.
We are also engaged
in a variety of other projects, including the dynamics of chromosome
evolution and various aspects of the ecological genetics of <i>Drosophila.</i>
      </p>
      <p align="justify">I am interested in
supervising projects on speciation, ecological and evolutionary
genetics, particularly if they involve <i>Drosophila. </i></p>

<!--p align="justify">
Although we work on diverse areas of evolutionary genetics, the
laboratory's main focus is on the original problem raised by Darwin: the
origin of species. Our aim is to understand this process through
the genetic patterns it produces. By estimating the numbers, locations, and
effects of genes causing reproductive isolation in Drosophila (hybrid
sterility, mating discrimination, etc.), we hope to
understand whether speciation involves many or only a few genes, whether
genetic drift plays a significant role in the process, and whether the
movement of transposable elements causes hybrid sterility
and inviability. Most of our studies require classical genetic analysis
involving crosses among distinct species, but we also collaborate with
other groups to construct DNA-based phylogenies of these
species.
</p>
<p align="justify">
A second focus of our lab is sperm competition in Drosophila. We are interested
in understanding the phenomenon of "second male precedence," whereby the
second (or last) male to copulate with a given female produces the vast
majority of her offspring.  This is an evolutionary pattern that is
widespread in animals,yet little is known about its dynamics.  Our work
studies not only the mechanistic basis of second-male precedence (it
appears to involve several complex mechanisms, including the inactivation
of first-male sperm), but also its evolutionary significance and its
effects on reproductive isolation when a female mates with both a
conspecific and heterospecific male.
</p>
<p align="justify">
We are also engaged in a variety of other projects, including the dynamics
of chromosome evolution, various aspects of the ecological genetics of
Drosophila, and the genetics of pheromonal differences among species that
cause sexual isolation.
</p>
<p align="justify">
I am interested in supervising projects on speciation, ecological and
evolutionary genetics, particularly if they involve Drosophila.
</p-->
<p>
<hr />
</p>

<p>
<span class="facmedtitle">Recent Publications</span>
</p>
<p>
<h3><b><a href="http://pondside.uchicago.edu/cluster/pdf/coyne/coyne_cv_and_pubs.pdf">Download Curriculum vitae and publications</a></h3></b>
</p>

<dl>
	<dl>
          <p align="justify"> <dt>Coyne, J.A.
and H.A. Orr. 1989.</dt>
          <dd>Patterns of speciation in <i>Drosophila. <br>
Evolution</i> 43: 362-381. <a
 href="http://pondside.uchicago.edu/cluster/pdf/coyne/Coyne&amp;Orr_1989.pdf">PDF</a><br>
          </dd>
          </p>
          <p align="justify"><dt>Coyne, A.J.
1994.</dt>
          <dd>Ernst Mayr and the origin of species.<br>
            <i>Evolution</i>, 51:
19-30. <a href="http://pondside.uchicago.edu/cluster/pdf/coyne/Coyne_1994.pdf">PDF</a><br>
          </dd>
          </p>
          <p align="justify"><dt>Coyne, A.J.
and H.A. Orr. 1997.</dt>
          <dd>"Patterns of speciation in <i>Drosophila" </i>Revisited.<i><br>
Evolution</i>, 51: 295-303. <a
 href="http://pondside.uchicago.edu/cluster/pdf/coyne/Coyne&amp;Orr_1997.pdf">PDF</a><br>
          </dd>
          </p>
          <p align="justify"><dt>Coyne, A.J.
and H.A. Orr. 1998.</dt>
          <dd>The evolutionary genetics of speciation.<br>
            <i>Phil. Trans. R. Soc. Lond.</i>
B: 287-305. <a
 href="http://pondside.uchicago.edu/cluster/pdf/coyne/Coyne&amp;Orr_1998.pdf">PDF</a><br>
          </dd>
          </p>
          <p align="justify"><dt>Coyne, A.J.
and T.D. Price. 2000.</dt>
          <dd>Little evidence for sympatric speciation in island birds.<br>
            <i>Evolution</i>, 54:
2166-2171. <a
 href="http://pondside.uchicago.edu/cluster/pdf/coyne/Coyne&amp;Price_2000.pdf">PDF</a><br>
          </dd>
          </p>
          <p align="justify"><dt>Price, C.S.C.,
C.H. Kim, J. Posluszny and J.A. Coyne. 2000.</dt>
          <dd>Mechanisms of conspecific sperm precedence in <i>Drosophila</i>.<br>
            <i>Evolution</i>, 54:
2028-2037. <a
 href="http://pondside.uchicago.edu/cluster/pdf/coyne/Price_et_al_2000.pdf">PDF</a><br>
          </dd>
          </p>
          <p align="justify"><dt>Price, C.S.C.,
C.H. Kim, C.J. Gronlund and J.A. Coyne. 2001.</dt>
          <dd>Cryptic reproductive isolation in the <i>Drosophila
simulans</i> species complex.<i> Evolution,</i>
55: 81-92. <a
 href="http://pondside.uchicago.edu/cluster/pdf/coyne/Price_et_al_2001.pdf">PDF</a><br>
          </dd>
          </p>
          <p align="justify"><dt>Turelli, M.,
N.H. Barton and J.A. Coyne. 2001.</dt>
          <dd>Theory and speciation.<br>
            <i>TRENDS in Ecology &amp;
Evolution</i>, 16: 330-343. <a
 href="http://pondside.uchicago.edu/cluster/pdf/coyne/Turelli_Barton_Coyne.pdf">PDF</a><br>
          </dd>
          </p>
          <p align="justify"><dt>Llopart, A.,
S. Elwyn, D. Lachaise and J.A. Coyne. 2002. </dt>
          <dd>Genetics of a difference in pigmentation between <i>Drosophila
yakuba</i> and <i>D. santomea.
Evolution,</i> 56: 2262-2277.&nbsp;<a
 href="http://pondside.uchicago.edu/cluster/pdf/coyne/Llopart_et_al.pdf">PDF</a> <br>
          </dd>
          </p>
          <p align="justify"> <dt>Hudson, R.D.
and J.A. Coyne. 2002. </dt>
          <dd>Mathematical consequences of the genealogical species
concept. <i>Evolution</i>, 56:
1557-1565.&nbsp;<a
 href="http://pondside.uchicago.edu/cluster/pdf/coyne/Hudson&amp;Coyne_2002.pdf">PDF</a> <br>
          </dd>
          </p>
          <p align="justify"> <dt>Llopart, A.,
S. Elwyn and J.A. Coyne. 2002. </dt>
          <dd>Pigmentation and mate choice in <i>Drosophila
melanogaster.<br>
Nature</i> 419: 360. </dd>
          </p>
          <p align="justify"> <dt>Coyne J.A.,
S.Y. Kim, A.S. Chang, D. Lachaise and S. Elwyn. 2002. </dt>
          <dd>Sexual isolation
between two siblings with overlapping ranges: <i>Drosophila santomea</i>
and <i>D. yakuba</i> <i>Evolution</i> 56:
2424-2434.&nbsp;<a
 href="http://pondside.uchicago.edu/cluster/pdf/coyne/Coyne_et_al_2002.pdf">PDF</a> <br>
          </dd>
          </p>
          <p align="justify"> <dt>Greenberg,
A.J., J.R. Moran, J.A. Coyne and C-I. Wu. 2003. </dt>
          <dd>Ecological adaptation during incipient speciation
revealed
by precise gene replacement. <i>Science</i> 302: 1754-1757. </dd>
          </p>
          <p align="justify"><dt>Moehring, A.J., J. Li, M.D. Schug, S. Smith, M. deAngelis, T.F.C. Mackay and J.A. Coyne. 2004.</dt>
          <dd>Quantitative trait loci for sexual isolation between <i>Drosophila</i>
and <i>D. mauritiana</i>. <i>Genetics</i> 167:1265-1274.<br>
		<a href="http://pondside.uchicago.edu/cluster/pdf/coyne/Moehring et al. 2004.pdf">PDF</a><br>
          </dd>
          </p>
          <p align="justify"><dt>Coyne, J.A., S. Elwyn, S.Y. Kim and A. Llopart. 2004.</dt>
          <dd>Genetic studies of two sister species in the <i>Drosophila
melanogaster </i>subgroup, <i>D. yakuba</i> and <i>D. santomea</i>. <br>
            <i>Genet. Res.</i>, 84: 11-26.
            <a href="http://pondside.uchicago.edu/cluster/pdf/coyne/Coyne et al. 2004 Genet. Res.pdf">PDF</a><br>
           </dd>
          </p>
          <p align="justify"><dt>Coyne, J.A. and H.A. Orr. 2004.</dt>
          <dd><i>Speciation.</i> Sinauer Associates, Sunderland, MA.<br>
          </dd>
	</p>
	<p align="justify">
		<dt>Carbone, M. A., A. Llopart, M DeAngelis, J. A. Coyne and T. F. C. Mackay. 2005.</dt>
		<dd>Quantitative trait loci affecting the difference in pigmentation between <i>Drosophila yakuba</i> and <i>D. santomea</i>. 
          <i> Genetics</i> 171: 211-225.<br>
          <a href="http://pondside.uchicago.edu/cluster/pdf/coyne/Carbone et al. 2005 Genetics.pdf">PDF</a><br>
          </dd>
          </p> 
           <p align="justify"><dt>Coyne, J. A., S. Elwyn, and E. Rolan-Alvarez. 2005.</dt>
          <dd>Sexual isolation between <i>Drosophila yakuba</i> and <i>D. santomea</i>: effects of environment and experimental design. <i> Evolution</i> 59: 2588-2601.<br>
          <a href="http://pondside.uchicago.edu/cluster/pdf/coyne/Coyne et al. Evol yak-sant 2005.pdf">PDF</a><br>
          </dd>
          </p>
          <p align="justify"><dt>Llopart, A., D. Lachaise, and J. A. Coyne.  2005.</dt>
          <dd>Multilocus analysis of introgression between two sympatric sister species of <i>Drosophila, D. yakuba</i> and <i>D. santomea</i>. <i>Genetics</i> 171:197-210.<br>
          <a href="http://pondside.uchicago.edu/cluster/pdf/coyne/Llopart et al. 2005 Genetics.pdf">PDF</a><br>
          </dd>
          </p>
          <p align="justify"><dt>Llopart, A., D. Lachaise, and J. A. Coyne. 2005.</dt>
          <dd> An anomalous hybrid zone in <i>Drosophila.</i> <i>Evolution</i> 59:2602-2607.<br>
          <a href="http://pondside.uchicago.edu/cluster/pdf/coyne/Llopart et al. evolution 2005.pdf">PDF</a><br>
          </dd>
          </p>
          <p align="justify"><dt>Coyne, J. A., and S. Elwyn. 2006.</dt>
          <dd>  Desaturase-2, environmental adaptation, and sexual isolation in <i>Drosophila melanogaster</i>. <i>Evolution</i> 60:626-627.<br>
          <a href="http://pondside.uchicago.edu/cluster/pdf/coyne/Coyne andf Elwyn 2006.pdf">PDF</a><br>
          </dd>
		  </p>
		  <p align="justify"><dt>Moehring, A. J., A. Llopart, S. Elwyn, J. A. Coyne, and T. F. C. Mackay. 2006. </dt>
          <dd>  The genetic basis of postzygotic reproductive isolation between <i>Drosophila yakuba</i> and <i>D. santomea</i> due to hybrid male sterility. <i>Genetics</i> 173:225-233.<br>
          <a href="http://pondside.uchicago.edu/cluster/pdf/coyne/Moehring et al. 2006 yak san sterility.pdf">PDF</a><br>
          </dd>
		  </p>
		  <p align="justify"><dt>Moehring, A. J., A. Llopart, S. Elwyn, J. A. Coyne, and T. F. C. Mackay. 2006. </dt>
          <dd> Genetic basis of prezygotic reproductive isolation between <i>Drosophila santomea</i> and <i>D. yakuba</i> due to mating preference. <i>Genetics</i> 173:215-223.<br>
          <a href="http://pondside.uchicago.edu/cluster/pdf/coyne/Moehring et al. 2006 yak san mating.pdf">PDF</a><br>
          </dd>
		  </p>
		  <p align="justify"><dt>Hoekstra, H. E. and J. A. Coyne. 2007. </dt>
          <dd> The locus of evolution: evo devo and the genetics of adaptation. <i>Evolution </i> 61: 995-1016.<br>
          <a href="http://pondside.uchicago.edu/cluster/pdf/coyne/Hoekstra & Coyne 2007.pdf">PDF</a><br>
          </dd>
		  </p>
</dl>
<!-- Start BOOK Section -->

          <span class="facmedtitle">Book
reviews and miscellaneous publications:</span>
          </dt>
          <dl>
          </p>
          <p align="justify"><dt>Coyne, J.A.
1996.</dt>
          <dd>God in the details. <i>Nature</i>,
383:227-228. <a href="http://pondside.uchicago.edu/cluster/pdf/coyne/Behe_review.pdf">PDF</a><br>
          </dd>
          </p>
          <p align="justify"><dt>Coyne., J.A.
1998.</dt>
          <dd>Not black and white. <i>Nature</i>,
396: 35-36. <a
 href="http://pondside.uchicago.edu/cluster/pdf/coyne/Majerus_review.pdf">PDF</a><br>
          </dd>
          </p>
          <p align="justify"><dt>Coyne, J.A.
1999.</dt>
          <dd>The self-centred meme. <i>Nature</i>,
398: 767-768. <a
 href="http://pondside.uchicago.edu/cluster/pdf/coyne/Blackmore_review.pdf">PDF</a><br>
          </dd>
          </p>
          <p align="justify"><dt>Coyne, J.A.
and A. Berry. 2000.</dt>
          <dd>Rape as an adaptation. <i>Nature</i>,
404: 121-122. <a
 href="http://pondside.uchicago.edu/cluster/pdf/coyne/Coyne&amp;Berry_2000.pdf">PDF</a><br>
          </dd>
          </p>
          <p align="justify"><dt>Coyne, J.A.
2001.</dt>
          <dd>Creationism by stealth. <i>Nature</i>,
410: 745-746. <a href="http://pondside.uchicago.edu/cluster/pdf/coyne/Wells_review.pdf">PDF</a><br>
          </dd>
          </p>
          <p align="justify"><dt>Coyne, J. A. 2005.  </dt>
          <dd>The faith that dares not speak its name:  The Case Against Intelligent Design. 
          <i>The New Republic</i>,  Aug. 22, 2005, pp. 21-33.
          <a href="http://pondside.uchicago.edu/cluster/pdf/coyne/New_Republic_ID.pdf">PDF</a><br>
          </dd>
          </p>
          <p align="justify"><dt>Coyne, J. A.  2007. </dt>
          <dd>The Great Mutator (Review of The Edge of Evolution, by Michael  J. Behe).
          <i>The New Republic</i>, June 18, 2007,  pp. 38-44.
          <a href="http://pondside.uchicago.edu/cluster/pdf/coyne/Behe, New Republic.pdf">PDF</a><br>
          </dd>
          </p>
        </dl>
      </dl>


<!--dl>
<dt />Coyne, J. A., and H. A. Orr. 1997.  
<dd />"Patterns of speciation in Drosophila"
revisited.  Evolution 51:295-303.

<dt />Coyne, J. A., N. H. Barton, and M. Turelli.  1997.  
<dd />A critique of Sewall
Wright's shifting balance theory of evolution.  Evolution 51:643-671.

<dt />Orr, H. A., L. D. Madden, J. A. Coyne, R. Goodwin, and R. S. Hawley.  1997.
<dd />The 	developmental genetics of hybrid inviability:  a mitotic defect in
Drosophila hybrids. Genetics 45:1031-1040.

<dt />Coyne, J. A. and B. Charlesworth.  1997.  
<dd />Genetics of a pheromonal
difference affecting 	sexual isolation between Drosophila mauritiana and
D. sechellia.  Genetics 45:1015-1030.

<dt />Coyne, J. A. and H. A. Orr.  1998.  
<dd />The evolutionary genetics of
speciation.  Phil. Trans. Roy. Soc. Lond. B 353: 287-305.

<dt />Coyne, J. A., S. Simeonedes, and P. J. Rooney.  1998.  
<dd />Relative paucity of
genes causing inviability in hybrids between D. melanogaster  and D.
simulans.  Genetics 150:1091-1103.

<dt />Coyne, J. A., C. Wicker-Thomas, and J.-M. Jallon.  1999.  
<dd />Localization of a
gene responsible for a pheromonal polymorphism in Drosophila melanogaster.
Genet. Res.  73:189-203

<dt />Price, C.S.C., J. A. Coyne, and K. A. Dyer.  1999. 
<dd />Sperm competition
between Drosophila males involves both displacement and incapacitation.
Nature 400:449-452
</dl-->

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