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Volume 168(4);  2004 Dec

Perspectives

Edward B. Lewis, 1918–2004
James F. Crow, Welcome Bender
Genetics. 2004 Dec; 168(4): 1773–1783. doi: 10.1093/genetics/168.4.1773
PMCID:
PMC1448758
Article PDF–270K
Did Demerec Discover Intragenic Recombination in 1928?
Edward B. Lewis
Genetics. 2004 Dec; 168(4): 1785–1786. doi: 10.1093/genetics/168.4.1785
PMCID:
PMC1448741
Article PDF–43K

Investigations

Bile-Induced DNA Damage in Salmonella enterica
Ana I. Prieto, Francisco Ramos-Morales, Josep Casadesús
Genetics. 2004 Dec; 168(4): 1787–1794. doi: 10.1534/genetics.104.031062
PMCID:
PMC1448704
Abstract Article PDF–128K
Patterns of Sequence Divergence in 5′ Intergenic Spacers and Linked Coding Regions in 10 Species of Pathogenic Bacteria Reveal Distinct Recombinational Histories
Austin L. Hughes, Robert Friedman
Genetics. 2004 Dec; 168(4): 1795–1803. doi: 10.1534/genetics.104.032979
PMCID:
PMC1448726
Abstract Article PDF–100K
Competing Crossover Pathways Act During Meiosis in Saccharomyces cerevisiae
Juan Lucas Argueso, Jennifer Wanat, Zekeriyya Gemici, Eric Alani
Genetics. 2004 Dec; 168(4): 1805–1816. doi: 10.1534/genetics.104.032912
PMCID:
PMC1448724
Abstract Article PDF–163K
Spontaneous Mutations in Diploid Saccharomyces cerevisiae: More Beneficial Than Expected
Sarah B. Joseph, David W. Hall
Genetics. 2004 Dec; 168(4): 1817–1825. doi: 10.1534/genetics.104.033761
PMCID:
PMC1448740
Abstract Article PDF–114K
Genetic Analysis of Yeast Yip1p Function Reveals a Requirement for Golgi-Localized Rab Proteins and Rab-Guanine Nucleotide Dissociation Inhibitor
Catherine Z. Chen, Monica Calero, Carol J. DeRegis, Matthew Heidtman, Charles Barlowe, Ruth N. Collins
Genetics. 2004 Dec; 168(4): 1827–1841. doi: 10.1534/genetics.104.032888
PMCID:
PMC1448722
Abstract Article PDF–589K
In Vivo Activation of Protein Kinase A in Schizosaccharomyces pombe Requires Threonine Phosphorylation at Its Activation Loop and Is Dependent on PDK1
Yi Tang, Maureen McLeod
Genetics. 2004 Dec; 168(4): 1843–1853. doi: 10.1534/genetics.104.032466
PMCID:
PMC1448717
Abstract Article PDF–273K
Examination of the Roles of Sgs1 and Srs2 Helicases in the Enforcement of Recombination Fidelity in Saccharomyces cerevisiae
Rachelle Miller Spell, Sue Jinks-Robertson
Genetics. 2004 Dec; 168(4): 1855–1865. doi: 10.1534/genetics.104.032771
PMCID:
PMC1448721
Abstract Article PDF–155K
Differential Activation of eIF2 Kinases in Response to Cellular Stresses in Schizosaccharomyces pombe
Ke Zhan, Jana Narasimhan, Ronald C. Wek
Genetics. 2004 Dec; 168(4): 1867–1875. doi: 10.1534/genetics.104.031443
PMCID:
PMC1448706
Abstract Article PDF–292K
Genetic and Biochemical Interactions Among Yar1, Ltv1 and RpS3 Define Novel Links Between Environmental Stress and Ribosome Biogenesis in Saccharomyces cerevisiae
Jesse W. Loar, Robert M. Seiser, Alexandra E. Sundberg, Holly J. Sagerson, Nasreen Ilias, Pamela Zobel-Thropp, Elizabeth A. Craig, Deborah E. Lycan
Genetics. 2004 Dec; 168(4): 1877–1889. doi: 10.1534/genetics.104.032656
PMCID:
PMC1448719
Abstract Article PDF–429K
Swi5 Acts in Meiotic DNA Joint Molecule Formation in Schizosaccharomyces pombe
Chad Ellermeier, Henning Schmidt, Gerald R. Smith
Genetics. 2004 Dec; 168(4): 1891–1898. doi: 10.1534/genetics.104.034280
PMCID:
PMC1448720
Abstract Article PDF–112K
Role of the Unfolded Protein Response Pathway in Secretory Stress and Regulation of INO1 Expression in Saccharomyces cerevisiae
Hak J. Chang, Stephen A. Jesch, Maria L. Gaspar, Susan A. Henry
Genetics. 2004 Dec; 168(4): 1899–1913. doi: 10.1534/genetics.104.032961
PMCID:
PMC1448725
Abstract Article PDF–377K
Haploidy, Diploidy and Evolution of Antifungal Drug Resistance in Saccharomyces cerevisiae
James B. Anderson, Caroline Sirjusingh, Nicole Ricker
Genetics. 2004 Dec; 168(4): 1915–1923. doi: 10.1534/genetics.104.033266
PMCID:
PMC1448728
Abstract Article PDF–209K
DNA Methylation Affects Meiotic trans-sensing, Not Meiotic Silencing, in Neurospora
Robert J. Pratt, Dong W. Lee, Rodolfo Aramayo
Genetics. 2004 Dec; 168(4): 1925–1935. doi: 10.1534/genetics.104.031526
PMCID:
PMC1448707
Abstract Article PDF–234K
The L-Type Cyclin CYL-1 and the Heat-Shock-Factor HSF-1 Are Required for Heat-Shock-Induced Protein Expression in Caenorhabditis elegans
Yvonne M. Hajdu-Cronin, Wen J. Chen, Paul W. Sternberg
Genetics. 2004 Dec; 168(4): 1937–1949. doi: 10.1534/genetics.104.028423
PMCID:
PMC1448743
Abstract Article PDF–397K
The Caenorhabditis elegans Ror RTK CAM-1 Inhibits EGL-20/Wnt Signaling in Cell Migration
Wayne C. Forrester, Changsung Kim, Gian Garriga
Genetics. 2004 Dec; 168(4): 1951–1962. doi: 10.1534/genetics.104.031781
PMCID:
PMC1448710
Abstract Article PDF–320K
Effects of Population Structure and Sex on Association Between Serotonin Receptors and Drosophila Heart Rate
Naruo Nikoh, April Duty, Greg Gibson
Genetics. 2004 Dec; 168(4): 1963–1974. doi: 10.1534/genetics.104.028712
PMCID:
PMC1448745
Abstract Article PDF–232K
Inferring the Population Structure and Demography of Drosophila ananassae From Multilocus Data
Aparup Das, Sujata Mohanty, Wolfgang Stephan
Genetics. 2004 Dec; 168(4): 1975–1985. doi: 10.1534/genetics.104.031567
PMCID:
PMC1448708
Abstract Article PDF–352K
The Role of Natural Selection in Genetic Differentiation of Worldwide Populations of Drosophila ananassae
John F. Baines, Aparup Das, Sylvain Mousset, Wolfgang Stephan
Genetics. 2004 Dec; 168(4): 1987–1998. doi: 10.1534/genetics.104.027482
PMCID:
PMC1448739
Abstract Article PDF–382K
Population Genetics of the Developmental Gene optomotor-blind (omb) in Drosophila polymorpha: Evidence for a Role in Abdominal Pigmentation Variation
Jennifer A. Brisson, Alan R. Templeton, Ian Duncan
Genetics. 2004 Dec; 168(4): 1999–2010. doi: 10.1534/genetics.104.032078
PMCID:
PMC1448714
Abstract Article PDF–190K
Drosophila melanogaster Prat, a Purine de Novo Synthesis Gene, Has a Pleiotropic Maternal-Effect Phenotype
Nicolas Malmanche, Denise V. Clark
Genetics. 2004 Dec; 168(4): 2011–2023. doi: 10.1534/genetics.104.033134
PMCID:
PMC1448727
Abstract Article PDF–424K
The cryptochrome (cry) Gene and a Mating Isolation Mechanism in Tephritid Fruit Flies
Xin An, Molly Tebo, Sunmi Song, Marianne Frommer, Kathryn A. Raphael
Genetics. 2004 Dec; 168(4): 2025–2036. doi: 10.1534/genetics.104.028399
PMCID:
PMC1448742
Abstract Article PDF–800K
The Changing Tails of a Novel Short Interspersed Element in Aedes aegypti: Genomic Evidence for Slippage Retrotransposition and the Relationship Between 3′ Tandem Repeats and the poly(dA) Tail
Zhijian Tu, Song Li, Chunhong Mao
Genetics. 2004 Dec; 168(4): 2037–2047. doi: 10.1534/genetics.104.032045
PMCID:
PMC1448713
Abstract Article PDF–180K
Decreased Diversity but Increased Substitution Rate in Host mtDNA as a Consequence of Wolbachia Endosymbiont Infection
D. DeWayne Shoemaker, Kelly A. Dyer, Mike Ahrens, Kevin McAbee, John Jaenike
Genetics. 2004 Dec; 168(4): 2049–2058. doi: 10.1534/genetics.104.030890
PMCID:
PMC1448746
Abstract Article PDF–121K
The Drosophila U1-70K Protein Is Required for Viability, but Its Arginine-Rich Domain Is Dispensable
Helen K. Salz, Ricardo S. Y. Mancebo, Alexis A. Nagengast, Olga Speck, Mitchell Psotka, Stephen M. Mount
Genetics. 2004 Dec; 168(4): 2059–2065. doi: 10.1534/genetics.104.032532
PMCID:
PMC1448718
Abstract Article PDF–245K
End-Joining Repair of Double-Strand Breaks in Drosophila melanogaster Is Largely DNA Ligase IV Independent
Mitch McVey, Dora Radut, Jeff J. Sekelsky
Genetics. 2004 Dec; 168(4): 2067–2076. doi: 10.1534/genetics.104.033902
PMCID:
PMC1448732
Abstract Article PDF–136K
Expression Level of sarah, a Homolog of DSCR1, Is Critical for Ovulation and Female Courtship Behavior in Drosophila melanogaster
Aki Ejima, Manabu Tsuda, Satomi Takeo, Kunimasa Ishii, Takashi Matsuo, Toshiro Aigaki
Genetics. 2004 Dec; 168(4): 2077–2087. doi: 10.1534/genetics.104.029934
PMCID:
PMC1448750
Abstract Article PDF–204K
Evidence for Genetic Control of Adult Weight Plasticity in the Snail Helix aspersa
Mathieu Ros, Daniel Sorensen, Rasmus Waagepetersen, Mathilde Dupont-Nivet, Magali SanCristobal, Jean-Claude Bonnet, Jacques Mallard
Genetics. 2004 Dec; 168(4): 2089–2097. doi: 10.1534/genetics.104.032672
PMCID:
PMC1448757
Abstract Article PDF–174K
Oligosyndactylism Mice Have an Inversion of Chromosome 8
Thomas L. Wise, Dimitrina D. Pravtcheva
Genetics. 2004 Dec; 168(4): 2099–2112. doi: 10.1534/genetics.104.031914
PMCID:
PMC1448711
Abstract Article PDF–472K
Genetic Determination of Susceptibility to Estrogen-Induced Mammary Cancer in the ACI Rat: Mapping of Emca1 and Emca2 to Chromosomes 5 and 18
Karen A. Gould, Martin Tochacek, Beverly S. Schaffer, Tanya M. Reindl, Clare R. Murrin, Cynthia M. Lachel, Eric A. VanderWoude, Karen L. Pennington, Lisa A. Flood, Kimberly K. Bynote, Jane L. Meza, Michael A. Newton, James D. Shull
Genetics. 2004 Dec; 168(4): 2113–2125. doi: 10.1534/genetics.104.033878
PMCID:
PMC1448731
Abstract Article PDF–191K
High-Resolution Fine Mapping and Fluorescence in Situ Hybridization Analysis of sun, a Locus Controlling Tomato Fruit Shape, Reveals a Region of the Tomato Genome Prone to DNA Rearrangements
E. van der Knaap, A. Sanyal, S. A. Jackson, S. D. Tanksley
Genetics. 2004 Dec; 168(4): 2127–2140. doi: 10.1534/genetics.104.031013
PMCID:
PMC1448703
Abstract Article PDF–417K
The Genetic Architecture of Response to Long-Term Artificial Selection for Oil Concentration in the Maize Kernel
Cathy C. Laurie, Scott D. Chasalow, John R. LeDeaux, Robert McCarroll, David Bush, Brian Hauge, Chaoqiang Lai, Darryl Clark, Torbert R. Rocheford, John W. Dudley
Genetics. 2004 Dec; 168(4): 2141–2155. doi: 10.1534/genetics.104.029686
PMCID:
PMC1448749
Abstract Article PDF–183K
Deletion of a Disease Resistance Nucleotide-Binding-Site Leucine-Rich- Repeat-like Sequence Is Associated With the Loss of the Phytophthora Resistance Gene Rps4 in Soybean
Devinder Sandhu, Hongyu Gao, Silvia Cianzio, Madan K. Bhattacharyya
Genetics. 2004 Dec; 168(4): 2157–2167. doi: 10.1534/genetics.104.032037
PMCID:
PMC1448712
Abstract Article PDF–303K
Genetic Architecture of Flowering Time in Maize As Inferred From Quantitative Trait Loci Meta-analysis and Synteny Conservation With the Rice Genome
Fabien Chardon, Bérangère Virlon, Laurence Moreau, Matthieu Falque, Johann Joets, Laurent Decousset, Alain Murigneux, Alain Charcosset
Genetics. 2004 Dec; 168(4): 2169–2185. doi: 10.1534/genetics.104.032375
PMCID:
PMC1448716
Abstract Article PDF–339K
Fine Mapping of a Grain-Weight Quantitative Trait Locus in the Pericentromeric Region of Rice Chromosome 3
Jiming Li, Michael Thomson, Susan R. McCouch
Genetics. 2004 Dec; 168(4): 2187–2195. doi: 10.1534/genetics.104.034165
PMCID:
PMC1448733
Abstract Article PDF–295K
Fitness Costs of Mutations Affecting the Systemic Acquired Resistance Pathway in Arabidopsis thaliana
Andrew J. Heidel, Joseph D. Clarke, Janis Antonovics, Xinnian Dong
Genetics. 2004 Dec; 168(4): 2197–2206. doi: 10.1534/genetics.104.032193
PMCID:
PMC1448715
Abstract Article PDF–126K
The Effect of Sequence Divergence on Recombination Between Direct Repeats in Arabidopsis
Roy Opperman, Eyal Emmanuel, Avraham A. Levy
Genetics. 2004 Dec; 168(4): 2207–2215. doi: 10.1534/genetics.104.032896
PMCID:
PMC1448723
Abstract Article PDF–217K
Organ-Specific Silencing of Duplicated Genes in a Newly Synthesized Cotton Allotetraploid
Keith L. Adams, Ryan Percifield, Jonathan F. Wendel
Genetics. 2004 Dec; 168(4): 2217–2226. doi: 10.1534/genetics.104.033522
PMCID:
PMC1448729
Abstract Article PDF–187K
A Separation-of-Timescales Approach to the Coalescent in a Continuous Population
Jon F. Wilkins
Genetics. 2004 Dec; 168(4): 2227–2244. doi: 10.1534/genetics.103.022830
PMCID:
PMC1448753
Abstract Article PDF–302K
Intragenic Spatial Patterns of Codon Usage Bias in Prokaryotic and Eukaryotic Genomes
Hong Qin, Wei Biao Wu, Josep M. Comeron, Martin Kreitman, Wen-Hsiung Li
Genetics. 2004 Dec; 168(4): 2245–2260. doi: 10.1534/genetics.104.030866
PMCID:
PMC1448744
Abstract Article PDF–735K
A Pseudohitchhiking Model of X vs. Autosomal Diversity
Andrea J. Betancourt, Yuseob Kim, H. Allen Orr
Genetics. 2004 Dec; 168(4): 2261–2269. doi: 10.1534/genetics.104.030999
PMCID:
PMC1448734
Abstract Article PDF–119K
The Population Genetic Theory of Hidden Variation and Genetic Robustness
Joachim Hermisson, Günter P. Wagner
Genetics. 2004 Dec; 168(4): 2271–2284. doi: 10.1534/genetics.104.029173
PMCID:
PMC1448756
Abstract Article PDF–144K
Selective Phenotyping for Increased Efficiency in Genetic Mapping Studies
Chunfang Jin, Hong Lan, Alan D. Attie, Gary A. Churchill, Dursun Bulutuglo, Brian S. Yandell
Genetics. 2004 Dec; 168(4): 2285–2293. doi: 10.1534/genetics.104.027524
PMCID:
PMC1448737
Abstract Article PDF–124K
Direct Estimation of Genetic Principal Components: Simplified Analysis of Complex Phenotypes
Mark Kirkpatrick, Karin Meyer
Genetics. 2004 Dec; 168(4): 2295–2306. doi: 10.1534/genetics.104.029181
PMCID:
PMC1448747
Abstract Article PDF–188K
An Efficient Resampling Method for Assessing Genome-Wide Statistical Significance in Mapping Quantitative Trait Loci
Fei Zou, Jason P. Fine, Jianhua Hu, D. Y. Lin
Genetics. 2004 Dec; 168(4): 2307–2316. doi: 10.1534/genetics.104.031427
PMCID:
PMC1448705
Abstract Article PDF–105K
Polyandry, Life-History Trade-Offs and the Evolution of Imprinting at Mendelian Loci
Walter Mills, Tom Moore
Genetics. 2004 Dec; 168(4): 2317–2327. doi: 10.1534/genetics.104.030098
Correction in:
Genetics. 2005 Nov; 171(3): 1443.
PMCID:
PMC1448752
Abstract Article PDF–197K
Robust Transmission/Disequilibrium Test for Incomplete Family Genotypes
Paola Sebastiani, Maria M. Abad, Gülhan Alpargu, Marco F. Ramoni
Genetics. 2004 Dec; 168(4): 2329–2337. doi: 10.1534/genetics.103.025841
PMCID:
PMC1448738
Abstract Article PDF–200K
Association Test Algorithm Between a Qualitative Phenotype and a Haplotype or Haplotype Set Using Simultaneous Estimation of Haplotype Frequencies, Diplotype Configurations and Diplotype-Based Penetrances
Toshikazu Ito, Eisuke Inoue, Naoyuki Kamatani
Genetics. 2004 Dec; 168(4): 2339–2348. doi: 10.1534/genetics.103.024653
PMCID:
PMC1448736
Abstract Article PDF–132K
Testing for Hardy-Weinberg Equilibrium in Samples With Related Individuals
Catherine Bourgain, Mark Abney, Daniel Schneider, Carole Ober, Mary Sara McPeek
Genetics. 2004 Dec; 168(4): 2349–2361. doi: 10.1534/genetics.104.031617
PMCID:
PMC1448754
Abstract Article PDF–152K
The Probability and Chromosomal Extent of trans-specific Polymorphism
Carsten Wiuf, Keyan Zhao, Hideki Innan, Magnus Nordborg
Genetics. 2004 Dec; 168(4): 2363–2372. doi: 10.1534/genetics.104.029488
PMCID:
PMC1448748
Abstract Article PDF–277K
Reconstituting the Frequency Spectrum of Ascertained Single-Nucleotide Polymorphism Data
Rasmus Nielsen, Melissa J. Hubisz, Andrew G. Clark
Genetics. 2004 Dec; 168(4): 2373–2382. doi: 10.1534/genetics.104.031039
PMCID:
PMC1448751
Abstract Article PDF–326K
A Mechanistic Model for Genetic Machinery of Ontogenetic Growth
Rongling Wu, Zuoheng Wang, Wei Zhao, James M. Cheverud
Genetics. 2004 Dec; 168(4): 2383–2394. doi: 10.1534/genetics.104.034447
PMCID:
PMC1448735
Abstract Article PDF–164K
Quantifying the Relationship Between Gene Expressions and Trait Values in General Pedigrees
Yan Lu, Peng-Yuan Liu, Yong-Jun Liu, Fu-Hua Xu, Hong-Wen Deng
Genetics. 2004 Dec; 168(4): 2395–2405. doi: 10.1534/genetics.104.031666
PMCID:
PMC1448709
Abstract Article PDF–109K
Using Temporally Spaced Sequences to Simultaneously Estimate Migration Rates, Mutation Rate and Population Sizes in Measurably Evolving Populations
Greg Ewing, Geoff Nicholls, Allen Rodrigo
Genetics. 2004 Dec; 168(4): 2407–2420. doi: 10.1534/genetics.104.030411
PMCID:
PMC1448755
Abstract Article PDF–206K

Note

Does Chromosome Size Affect Map Distance and Genetic Interference in Budding Yeast?
Dana Turney, Teresa de los Santos, Nancy M. Hollingsworth
Genetics. 2004 Dec; 168(4): 2421–2424. doi: 10.1534/genetics.104.033555
PMCID:
PMC1448730
Abstract Article PDF–103K
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