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GENETICS A PERIODICAL RECORD OF INVESTIGATIONS BEARING ON HEREDITY AND VARIATION Founded in 1916 and published by The Genetics Society of America VOLUME 179, MAY–AUGUST 2008 GENETICS VOLUME 179, MAY–AUGUST 2008 EDITORIAL BOARD Elizabeth W. Jones, Editor-in-Chief Carnegie Mellon University Mark Johnston, Acting Editor-in-Chief Washington University School of Medicine Montserrat Aguade´ Kent Golic Rasmus Nielsen Universitat de Barcelona University of Utah University of Copenhagen, Centre for Bioinformatics Eric E. Alani Susan Gottesman Cornell University National Institutes of Health-NCI Michael Nonet Washington University School of Medicine Kathryn V. Anderson David I. Greenstein Sloan-Kettering Institute University of Minnesota Magnus Nordborg University of Southern California Brenda J. Andrews David Jonah Grunwald University of Utah University of Toronto Peter J. Oefner hris aley Robert R. H. Anholt C H Stanford University Roslin Institute (Edinburgh) North Carolina State University Andrew Paterson ichael ampsey Elja Arjas M H University of Georgia University of Helsinki Robert Wood Johnson Medical School-UMDNJ David Rand orman rnheim Brown University N A awrence arshman University of Southern California L G. H University of Nebraska, Lincoln Eric J. Richards onnie artel Washington University B B ancy ollingsworth Rice University N H Stony Brook University Mark D. Rose David Begun afri umayun Princeton University University of California, Davis M. Z H UMDNJ-New Jersey Medical School Paul Russell ames irchler J A. B ancy enkins The Scripps Research Institute University of Missouri N A. J National Cancer Institute-FCRDC Matthew S. Sachs arl roman K W. B homas aufman Texas A&M University University of Wisconsin, Madison T C. K Indiana University uti avolainen homas rutnell O S T P. B Scott Keeney University of Oulu Boyce Thompson Institute Sloan-Kettering Institute Trudi Schu¨pbach Edward Buckler Kenneth J. Kemphues Princeton University Cornell University Cornell University ichael immons Deborah Charlesworth effrey awrence M J. S J L University of Minnesota University of Edinburgh University of Pittsburgh inda iracusa Orna Cohen-Fix avid each L S D L Thomas Jefferson University NIDDK, National Institutes of Health University of Edinburgh nna i ienzo erald mith A D R Tony Long G R. S University of Chicago University of California, Fred Hutchinson Cancer Center oerge Irvine R. W. D Hamish Gordon Spencer Purdue University A. Javier Lopez University of Otago o nne ngebrecht Carnegie Mellon University J A E Franklin W. Stahl University of California, Davis Terry R. Magnuson University of Oregon aurent xcoffier University of North Carolina, L E atthew tephens University of Bern Chapel Hill M S arbara eyer University of Chicago Marcus W. Feldman B J. M Stanford University University of California, Berkeley Gary Stormo Washington University School of tanley ields Aaron P. Mitchell S F Medicine University of Washington Columbia University pencer use Venkatesan Sundaresan Yun-Xin Fu S M University of California, Davis University of Texas, Houston North Carolina State University aoyuki akahata William M. Gelbart Michael Nachman N T Harvard University University of Arizona Graduate University for Advanced Studies Gregory C. Gibson Alain Nicolas John Tamkun University of Queensland Institut Curie University of California, Santa Cruz Marcy K. Uyenoyama Daniel F. Voytas Ned Wingreen Duke University Iowa State University Princeton University Michel A. Veuille J. Bruce Walsh Meng-Chao Yao Ecole Pratique des Hautes Etudes, Paris University of Arizona Fred Hutchinson Cancer Research Center Anne M. Villeneuve Detlef Weigel Stanford University School of Medicine Max Planck Institute James F. Crow, Perspectives Editor University of Wisconsin, Madison William F. Dove, Perspectives Editor University of Wisconsin, Madison Patricia J. Pukkila, Genetics Education Editor University of North Carolina Allan C. Spradling, Reviews Editor Carnegie Institution Board of Senior Editors Jef Boeke Johns Hopkins School of Medicine Susan Dutcher Washington University School of Medicine R. Scott Hawley Stowers Institute for Medical Research Charles H. Langley University of California, Davis Ruth Lehmann Skirball Institute of Biomolecular Medicine Lauren M. McIntyre University of Florida John Wakeley Harvard University Fred Winston Harvard Medical School Tracey DePellegrin Connelly, Managing Editor Published at Baltimore, Maryland by the Genetics Society of America Pre-publication services and printing by Dartmouth Journal Services VOLUME CONTENTS to Volume 179, May–August, 2008 Abney,Mark, Identity-by-descent estimation and mapping of qualitative traits in large, complex pedigrees ........................................................................................................................ 1577—1590 Achaz,Guillaume, Testing for neutrality in samples with sequencing errors ........................ 1409—1424 Ahuja,Abha, and Rama S. Singh, Variation and evolution of male sex combs in drosophila: Nature of selection response and theories of genetic variation for sexual traits ...................... 503—509 Allen,Desiree E., and Michael Lynch, Both costs and benefits of sex correlate with relative frequency of asexual reproduction in cyclically parthenogenic Daphnia pulicaria populations 1497—1502 Amaral,Andreia J., Hendrik-Jan Megens,Richard P. M. A. Crooijmans,Henri C. M. Heuven and Martien A. M. Groenen, Linkage disequilibrium decay and haplotype block structure in the pig ........................................................................................................................ 569—579 Ames,Darren,Nick Murphy,Tim Helentjaris,Nina Sun and Vicki Chandler, Comparative analyses of human single- and multilocus tandem repeats .................................. 1693—1704 Andersen,Erik C., Adam M. Saffer and H. Robert Horvitz, Multiple levels of redundant processes inhibit Caenorhabditis elegans vulval cell fates .............................................................. 2001—2012 Andersen,Marguerite P., Zara W. Nelson,Elizabeth D. Hetrick and Daniel E. Gottschling, A genetic screen for increased loss of heterozygosity in Saccharomyces cerevisiae 1179—1195 Au,Wei-Chun,Matthew J. Crisp,Steven Z. DeLuca,Oliver J. Rando and Munira A. Basrai, Altered dosage and mislocalization of histone H3 and Cse4p lead to chromosome loss in Saccharomyces cerevisiae ............................................................................................................... 263—275 Bachtrog,Doris, The temporal dynamics of processes underlying Y chromosome de- generation ...................................................................................................................................... 1513—1525 Backstro¨m,Niclas,Nikoletta Karaiskou,Erica H. Leder,Lars Gustafsson,Craig R. Primmer,Anna Qvarnstro¨m and Hans Ellegren, A gene-based genetic linkage map of the collared flycatcher (Ficedula albicollis) reveals extensive synteny and gene-order conservation during 100 million years of avian evolution ................................................................................ 1479—1495 Banerjee,Samprit,Brian S. Yandell and Nengjun Yi, Bayesian quantitative trait loci mapping for multiple traits .......................................................................................................... 2275—2289 Barazesh,Solmaz, and Paula McSteen, Barren Inflorescence1 functions in organogenesis during vegetative and inflorescence development in maize ...................................................... 389—401 Barton,Arnold B., Michael R. Pekosz,Rohini S. Kurvathi and David B. Kaback, Meiotic recombination at the ends of chromosomes in Saccharomyces cerevisiae ..................................... 1221—1235 Bedford,Trevor,Ilan Wapinski and Daniel L. Hartl, Overdispersion of the molecular clock varies between yeast, Drosophila and mammals ................................................................ 977—984 Bellone,Rebecca R., Samantha A. Brooks,Lynne Sandmeyer,Barbara A. Murphy, George Forsyth,Sheila Archer,Ernest Bailey and Bruce Grahn, Differential gene expression of TRPM1, the potential cause of congenital stationary night blindness and coat spotting patterns (LP) in the Appaloosa horse (Equus caballus) ................................................ 1861—1870 Bhutkar,Arjun,Stephen W. Schaeffer,Susan M. Russo,Mu Xu,Temple F. Smith and William M. Gelbart, Chromosomal rearrangement inferred from comparisons of 12 Drosophila genomes ..................................................................................................................... 1657—1680 Bollback,Jonathan P., Thomas L. York and Rasmus Nielsen, Estimation of 2Nes from temporal allele frequency data ..................................................................................................... 497—502 Breakey,Kate M., Daniel Levin,Ian Miller and Kathryn E. Hentges, The use of scenario-based-learning interactive software to create custom virtual laboratory scenarios for teaching genetics ........................................................................................................................... 1151—1155 Bruinsma,Janelle J., Daniel L. Schneider,Diana E. Davis and Kerry Kornfeld, Identification of mutations in Caenorhabditis elegans that cause resistance to high levels of dietary zinc and analysis using a genomewide map of single nucleotide polymorphisms scored by pyrosequencing ........................................................................................................................