August 2008

Neuropsychiatric disorders such as depression and psychosis affect 1/4 of all individuals during their lifetime, and despite efforts to improve the selectivity of psychoactive drugs, all are associated with side effects. Using a genome-wide chemogenomic assay, the authors found that these medications perturbed many evolutionarily conserved genes and cellular pathways (see Ericson et al., doi:10.1371/journal.pgen.1000151).

Image Credit: Trine Giaever

Interview

Sweating the Details: An Interview with Jamie Thomson

Jane Gitschier

PLOS Genetics: published August 29, 2008 | https://doi.org/10.1371/journal.pgen.1000182

Perspectives

Rise of the Machines

David Gresham, Leonid Kruglyak

PLOS Genetics: published August 1, 2008 | https://doi.org/10.1371/journal.pgen.1000134

A Tribute to Evgenii V. Ananiev, 1947–2008

Sergei M. Mirkin

PLOS Genetics: published August 29, 2008 | https://doi.org/10.1371/journal.pgen.1000122

Research Articles

Efficient Genetic Method for Establishing Drosophila Cell Lines Unlocks the Potential to Create Lines of Specific Genotypes

Amanda Simcox, Sayan Mitra, Sharon Truesdell, Litty Paul, Ting Chen, Jonathan P. Butchar, Steven Justiniano

PLOS Genetics: published August 1, 2008 | https://doi.org/10.1371/journal.pgen.1000142

FHY1 Mediates Nuclear Import of the Light-Activated Phytochrome A Photoreceptor

Thierry Genoud, Fabian Schweizer, Anke Tscheuschler, Dimitry Debrieux, Jorge J. Casal, Eberhard Schäfer, Andreas Hiltbrunner, Christian Fankhauser

PLOS Genetics: published August 1, 2008 | https://doi.org/10.1371/journal.pgen.1000143

Patterns of Positive Selection in Six Mammalian Genomes

Carolin Kosiol, Tomáš Vinař, Rute R. da Fonseca, Melissa J. Hubisz, Carlos D. Bustamante, Rasmus Nielsen, Adam Siepel

PLOS Genetics: published August 1, 2008 | https://doi.org/10.1371/journal.pgen.1000144

Antagonism between DNA and H3K27 Methylation at the Imprinted Rasgrf1 Locus

Anders M. Lindroth, Yoon Jung Park, Chelsea M. McLean, Gregoriy A. Dokshin, Jenna M. Persson, Herry Herman, Diego Pasini, Xavier Miró, Mary E. Donohoe, Jeannie T. Lee, Kristian Helin, Paul D. Soloway

PLOS Genetics: published August 1, 2008 | https://doi.org/10.1371/journal.pgen.1000145

Unveiling Novel RecO Distant Orthologues Involved in Homologous Recombination

Stéphanie Marsin, Aurélie Mathieu, Thierry Kortulewski, Raphaël Guérois, J. Pablo Radicella

PLOS Genetics: published August 1, 2008 | https://doi.org/10.1371/journal.pgen.1000146

Linkage Disequilibrium-Based Quality Control for Large-Scale Genetic Studies

Paul Scheet, Matthew Stephens

PLOS Genetics: published August 1, 2008 | https://doi.org/10.1371/journal.pgen.1000147

High-Precision, Whole-Genome Sequencing of Laboratory Strains Facilitates Genetic Studies

Anjana Srivatsan, Yi Han, Jianlan Peng, Ashley K. Tehranchi, Richard Gibbs, Jue D. Wang, Rui Chen

PLOS Genetics: published August 1, 2008 | https://doi.org/10.1371/journal.pgen.1000139

Evolutionary Convergence on Highly-Conserved 3′ Intron Structures in Intron-Poor Eukaryotes and Insights into the Ancestral Eukaryotic Genome

Manuel Irimia, Scott William Roy

PLOS Genetics: published August 8, 2008 | https://doi.org/10.1371/journal.pgen.1000148

High-Resolution Mapping of Gene Expression Using Association in an Outbred Mouse Stock

Anatole Ghazalpour, Sudheer Doss, Hyun Kang, Charles Farber, Ping-Zi Wen, Alec Brozell, Ruth Castellanos, Eleazar Eskin, Desmond J. Smith, Thomas A. Drake, Aldons J. Lusis

PLOS Genetics: published August 8, 2008 | https://doi.org/10.1371/journal.pgen.1000149

Mitochondrial Targeting Adaptation of the Hominoid-Specific Glutamate Dehydrogenase Driven by Positive Darwinian Selection

Lia Rosso, Ana C. Marques, Andreas S. Reichert, Henrik Kaessmann

PLOS Genetics: published August 8, 2008 | https://doi.org/10.1371/journal.pgen.1000150

Off-Target Effects of Psychoactive Drugs Revealed by Genome-Wide Assays in Yeast

Elke Ericson, Marinella Gebbia, Lawrence E. Heisler, Jan Wildenhain, Mike Tyers, Guri Giaever, Corey Nislow

PLOS Genetics: published August 8, 2008 | https://doi.org/10.1371/journal.pgen.1000151

E2F and p53 Induce Apoptosis Independently during Drosophila Development but Intersect in the Context of DNA Damage

Nam-Sung Moon, Luisa Di Stefano, Erick J. Morris, Reena Patel, Kristin White, Nicholas J. Dyson

PLOS Genetics: published August 8, 2008 | https://doi.org/10.1371/journal.pgen.1000153

Genetic Evidence of Serum Phosphate-Independent Functions of FGF-23 on Bone

Despina Sitara, Somi Kim, Mohammed S. Razzaque, Clemens Bergwitz, Takashi Taguchi, Christiane Schüler, Reinhold G. Erben, Beate Lanske

PLOS Genetics: published August 8, 2008 | https://doi.org/10.1371/journal.pgen.1000154

The Identification of Zebrafish Mutants Showing Alterations in Senescence-Associated Biomarkers

Shuji Kishi, Peter E. Bayliss, Junzo Uchiyama, Eriko Koshimizu, Jie Qi, Purushothama Nanjappa, Shintaro Imamura, Asiful Islam, Donna Neuberg, Adam Amsterdam, Thomas M. Roberts

PLOS Genetics: published August 15, 2008 | https://doi.org/10.1371/journal.pgen.1000152

Double Strand Breaks Can Initiate Gene Silencing and SIRT1-Dependent Onset of DNA Methylation in an Exogenous Promoter CpG Island

Heather M. O'Hagan, Helai P. Mohammad, Stephen B. Baylin

PLOS Genetics: published August 15, 2008 | https://doi.org/10.1371/journal.pgen.1000155

Three SRA-Domain Methylcytosine-Binding Proteins Cooperate to Maintain Global CpG Methylation and Epigenetic Silencing in Arabidopsis

Hye Ryun Woo, Travis A. Dittmer, Eric J. Richards

PLOS Genetics: published August 15, 2008 | https://doi.org/10.1371/journal.pgen.1000156

Selective Constraints in Experimentally Defined Primate Regulatory Regions

Daniel J. Gaffney, Ran Blekhman, Jacek Majewski

PLOS Genetics: published August 15, 2008 | https://doi.org/10.1371/journal.pgen.1000157

Mutant Screen Distinguishes between Residues Necessary for Light-Signal Perception and Signal Transfer by Phytochrome B

Yoshito Oka, Tomonao Matsushita, Nobuyoshi Mochizuki, Peter H. Quail, Akira Nagatani

PLOS Genetics: published August 15, 2008 | https://doi.org/10.1371/journal.pgen.1000158

Context Differences Reveal Insulator and Activator Functions of a Su(Hw) Binding Region

Alexey A. Soshnev, Xingguo Li, Misty D. Wehling, Pamela K. Geyer

PLOS Genetics: published August 15, 2008 | https://doi.org/10.1371/journal.pgen.1000159

Genetic Variation in an Individual Human Exome

Pauline C. Ng, Samuel Levy, Jiaqi Huang, Timothy B. Stockwell, Brian P. Walenz, Kelvin Li, Nelson Axelrod, Dana A. Busam, Robert L. Strausberg, J. Craig Venter

PLOS Genetics: published August 15, 2008 | https://doi.org/10.1371/journal.pgen.1000160

Delayed and Accelerated Aging Share Common Longevity Assurance Mechanisms

Björn Schumacher, Ingrid van der Pluijm, Michael J. Moorhouse, Theodore Kosteas, Andria Rasile Robinson, Yousin Suh, Timo M. Breit, Harry van Steeg, Laura J. Niedernhofer, Wilfred van IJcken, Andrzej Bartke, Stephen R. Spindler, Jan H. J. Hoeijmakers, Gijsbertus T. J. van der Horst, George A. Garinis

PLOS Genetics: published August 15, 2008 | https://doi.org/10.1371/journal.pgen.1000161

Genic and Global Functions for Paf1C in Chromatin Modification and Gene Expression in Arabidopsis

Sookyung Oh, Sunchung Park, Steven van Nocker

PLOS Genetics: published August 22, 2008 | https://doi.org/10.1371/journal.pgen.1000077

An Sp1/Sp3 Binding Polymorphism Confers Methylation Protection

Yanis A. Boumber, Yutaka Kondo, Xuqi Chen, Lanlan Shen, Yi Guo, Carmen Tellez, Marcos R. H. Estécio, Saira Ahmed, Jean-Pierre J. Issa

PLOS Genetics: published August 22, 2008 | https://doi.org/10.1371/journal.pgen.1000162

Deep Sequencing Analysis of Small Noncoding RNA and mRNA Targets of the Global Post-Transcriptional Regulator, Hfq

Alexandra Sittka, Sacha Lucchini, Kai Papenfort, Cynthia M. Sharma, Katarzyna Rolle, Tim T. Binnewies, Jay C. D. Hinton, Jörg Vogel

PLOS Genetics: published August 22, 2008 | https://doi.org/10.1371/journal.pgen.1000163

Identification and Functional Analysis of Light-Responsive Unique Genes and Gene Family Members in Rice

Ki-Hong Jung, Jinwon Lee, Chris Dardick, Young-Su Seo, Peijian Cao, Patrick Canlas, Jirapa Phetsom, Xia Xu, Shu Ouyang, Kyungsook An, Yun-Ja Cho, Geun-Cheol Lee, Yoosook Lee, Gynheung An, Pamela C. Ronald

PLOS Genetics: published August 22, 2008 | https://doi.org/10.1371/journal.pgen.1000164

Divergent Evolution of CHD3 Proteins Resulted in MOM1 Refining Epigenetic Control in Vascular Plants

Marian Čaikovski, Chotika Yokthongwattana, Yoshiki Habu, Taisuke Nishimura, Olivier Mathieu, Jerzy Paszkowski

PLOS Genetics: published August 22, 2008 | https://doi.org/10.1371/journal.pgen.1000165

Genome-Wide Scan on Total Serum IgE Levels Identifies FCER1A as Novel Susceptibility Locus

Stephan Weidinger, Christian Gieger, Elke Rodriguez, Hansjörg Baurecht, Martin Mempel, Norman Klopp, Henning Gohlke, Stefan Wagenpfeil, Markus Ollert, Johannes Ring, Heidrun Behrendt, Joachim Heinrich, Natalija Novak, Thomas Bieber, Ursula Krämer, Dietrich Berdel, Andrea von Berg, Carl Peter Bauer, Olf Herbarth, Sibylle Koletzko, Holger Prokisch, Divya Mehta, Thomas Meitinger, Martin Depner, Erika von Mutius, Liming Liang, Miriam Moffatt, William Cookson, Michael Kabesch, H.-Erich Wichmann, Thomas Illig

PLOS Genetics: published August 22, 2008 | https://doi.org/10.1371/journal.pgen.1000166

C. elegans Nucleostemin Is Required for Larval Growth and Germline Stem Cell Division

Michelle M. Kudron, Valerie Reinke

PLOS Genetics: published August 22, 2008 | https://doi.org/10.1371/journal.pgen.1000181

Resolving Individuals Contributing Trace Amounts of DNA to Highly Complex Mixtures Using High-Density SNP Genotyping Microarrays

Nils Homer, Szabolcs Szelinger, Margot Redman, David Duggan, Waibhav Tembe, Jill Muehling, John V. Pearson, Dietrich A. Stephan, Stanley F. Nelson, David W. Craig

PLOS Genetics: published August 29, 2008 | https://doi.org/10.1371/journal.pgen.1000167

Repeated Adaptive Introgression at a Gene under Multiallelic Balancing Selection

Vincent Castric, Jesper Bechsgaard, Mikkel H. Schierup, Xavier Vekemans

PLOS Genetics: published August 29, 2008 | https://doi.org/10.1371/journal.pgen.1000168

The Evolution of Epigenetic Regulators CTCF and BORIS/CTCFL in Amniotes

Timothy A. Hore, Janine E. Deakin, Jennifer A. Marshall Graves

PLOS Genetics: published August 29, 2008 | https://doi.org/10.1371/journal.pgen.1000169

WDR55 Is a Nucleolar Modulator of Ribosomal RNA Synthesis, Cell Cycle Progression, and Teleost Organ Development

Norimasa Iwanami, Tomokazu Higuchi, Yumi Sasano, Toshinobu Fujiwara, Vu Q. Hoa, Minoru Okada, Sadiqur R. Talukder, Sanae Kunimatsu, Jie Li, Fumi Saito, Chitralekha Bhattacharya, Angabin Matin, Takashi Sasaki, Nobuyoshi Shimizu, Hiroshi Mitani, Heinz Himmelbauer, Akihiro Momoi, Hisato Kondoh, Makoto Furutani-Seiki, Yousuke Takahama

PLOS Genetics: published August 29, 2008 | https://doi.org/10.1371/journal.pgen.1000171

Cover

Using yeast to understand the side effects of psychoactive drugs.

Interview

Perspectives

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