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Table of Contents: June 2014

COVER

First farmers arrived to the European continent by sea.

Image Credit: Miquel Molist, SAPPO/UAB (Seminar on the Near East Prehistoric Archaeology/Universitat Autònoma de Barcelona)
Issue Image

Mitochondrial DNA analyses of 15 Neolithic human skeletons from the Fertile Crescent suggest that the first expansions that brought the Neolithic into Europe took place by seafaring through Cyprus and Crete.

The image shows the skeleton of a child recovered from house 4H of the Middle Euphrates Pre-pottery Neolithic site Tell Halula (7500-7300 cal BC). Skeletons were found in a seated, flexed position inside sealed pits that were excavated in the floor of the houses. These conditions might have contributed to the preservation of DNA. See Fernández et al.

Perspective

Inflammation: Gone with Translation

Carola G. Vinuesa, Thomas Preiss

Research Articles

Meiosis-Specific Cohesin Component, Stag3 Is Essential for Maintaining Centromere Chromatid Cohesion, and Required for DNA Repair and Synapsis between Homologous Chromosomes

Jessica Hopkins, Grace Hwang, Justin Jacob, Nicklas Sapp, Rick Bedigian, Kazuhiro Oka, Paul Overbeek, Steve Murray, Philip W. Jordan

Reviving the Dead: History and Reactivation of an Extinct L1

Lei Yang, John Brunsfeld, LuAnn Scott, Holly Wichman

Regulation of Gene Expression in Autoimmune Disease Loci and the Genetic Basis of Proliferation in CD4+ Effector Memory T Cells

Xinli Hu, Hyun Kim, Towfique Raj, Patrick J. Brennan, Gosia Trynka, Nikola Teslovich, Kamil Slowikowski, Wei-Min Chen, Suna Onengut, Clare Baecher-Allan, Philip L. De Jager, Stephen S. Rich, Barbara E. Stranger, Michael B. Brenner, Soumya Raychaudhuri

Accurate, Model-Based Tuning of Synthetic Gene Expression Using Introns in S. cerevisiae

Ido Yofe, Zohar Zafrir, Rachel Blau, Maya Schuldiner, Tamir Tuller, Ehud Shapiro, Tuval Ben-Yehezkel

Aberrant Autolysosomal Regulation Is Linked to The Induction of Embryonic Senescence: Differential Roles of Beclin 1 and p53 in Vertebrate Spns1 Deficiency

Tomoyuki Sasaki, Shanshan Lian, Jie Qi, Peter E. Bayliss, Christopher E. Carr, Jennifer L. Johnson, Sujay Guha, Patrick Kobler, Sergio D. Catz, Matthew Gill, Kailiang Jia, Daniel J. Klionsky, Shuji Kishi

Speciation and Introgression between Mimulus nasutus and Mimulus guttatus

Yaniv Brandvain, Amanda M. Kenney, Lex Flagel, Graham Coop, Andrea L. Sweigart

ATRA-Induced Cellular Differentiation and CD38 Expression Inhibits Acquisition of BCR-ABL Mutations for CML Acquired Resistance

Zhiqiang Wang, Zheng Liu, Xiwei Wu, Su Chu, Jinhui Wang, Hongfeng Yuan, Mendel Roth, Yate-Ching Yuan, Ravi Bhatia, WenYong Chen

Rasa3 Controls Megakaryocyte Rap1 Activation, Integrin Signaling and Differentiation into Proplatelet

Patricia Molina-Ortiz, Séléna Polizzi, Eve Ramery, Stéphanie Gayral, Céline Delierneux, Cécile Oury, Shintaro Iwashita, Stéphane Schurmans

Hecate/Grip2a Acts to Reorganize the Cytoskeleton in the Symmetry-Breaking Event of Embryonic Axis Induction

Xiaoyan Ge, Danielle Grotjahn, Elaine Welch, Jamie Lyman-Gingerich, Christiana Holguin, Eva Dimitrova, Elliot W. Abrams, Tripti Gupta, Florence L. Marlow, Taijiro Yabe, Anna Adler, Mary C. Mullins, Francisco Pelegri

BLMP-1/Blimp-1 Regulates the Spatiotemporal Cell Migration Pattern in C. elegans

Tsai-Fang Huang, Chun-Yi Cho, Yi-Ting Cheng, Jheng-Wei Huang, Yun-Zhe Wu, Athena Yi-Chun Yeh, Kiyoji Nishiwaki, Shih-Chung Chang, Yi-Chun Wu

Transport of Magnesium by a Bacterial Nramp-Related Gene

Jung-Ho Shin, Catherine A. Wakeman, Jonathan R. Goodson, Dmitry A. Rodionov, Benjamin G. Freedman, Ryan S. Senger, Wade C. Winkler

Ex Uno Plures: Clonal Reinforcement Drives Evolution of a Simple Microbial Community

Margie Kinnersley, Jared Wenger, Evgueny Kroll, Julian Adams, Gavin Sherlock, Frank Rosenzweig

Caspase Inhibition in Select Olfactory Neurons Restores Innate Attraction Behavior in Aged Drosophila

Takahiro Chihara, Aki Kitabayashi, Michie Morimoto, Ken-ichi Takeuchi, Kaoru Masuyama, Ayako Tonoki, Ronald L. Davis, Jing W. Wang, Masayuki Miura

Recombination Accelerates Adaptation on a Large-Scale Empirical Fitness Landscape in HIV-1

Danesh Moradigaravand, Roger Kouyos, Trevor Hinkley, Mojgan Haddad, Christos J. Petropoulos, Jan Engelstädter, Sebastian Bonhoeffer

Mouse Y-Linked Zfy1 and Zfy2 Are Expressed during the Male-Specific Interphase between Meiosis I and Meiosis II and Promote the 2nd Meiotic Division

Nadège Vernet, Shantha K. Mahadevaiah, Yasuhiro Yamauchi, Fanny Decarpentrie, Michael J. Mitchell, Monika A. Ward, Paul S. Burgoyne

N-WASP Is Required for Structural Integrity of the Blood-Testis Barrier

Xiang Xiao, Dolores D. Mruk, Elizabeth I. Tang, R'ada Massarwa, Ka Wai Mok, Nan Li, Chris K. C. Wong, Will M. Lee, Scott B. Snapper, Ben-Zion Shilo, Eyal D. Schejter, C. Yan Cheng

Souffle/Spastizin Controls Secretory Vesicle Maturation during Zebrafish Oogenesis

Palsamy Kanagaraj, Amandine Gautier-Stein, Dietmar Riedel, Christoph Schomburg, Joan Cerdà, Nadine Vollack, Roland Dosch

The EJC Binding and Dissociating Activity of PYM Is Regulated in Drosophila

Sanjay Ghosh, Ales Obrdlik, Virginie Marchand, Anne Ephrussi

Abnormal Type I Collagen Post-translational Modification and Crosslinking in a Cyclophilin B KO Mouse Model of Recessive Osteogenesis Imperfecta

Wayne A. Cabral, Irina Perdivara, MaryAnn Weis, Masahiko Terajima, Angela R. Blissett, Weizhong Chang, Joseph E. Perosky, Elena N. Makareeva, Edward L. Mertz, Sergey Leikin, Kenneth B. Tomer, Kenneth M. Kozloff, David R. Eyre, Mitsuo Yamauchi, Joan C. Marini

Transcriptional Control of Steroid Biosynthesis Genes in the Drosophila Prothoracic Gland by Ventral Veins Lacking and Knirps

E. Thomas Danielsen, Morten E. Moeller, Elad Dorry, Tatsuya Komura-Kawa, Yoshinori Fujimoto, Jesper T. Troelsen, Rachel Herder, Michael B. O'Connor, Ryusuke Niwa, Kim F. Rewitz

Translational Regulation of Specific mRNAs Controls Feedback Inhibition and Survival during Macrophage Activation

Johanna Schott, Sonja Reitter, Janine Philipp, Katharina Haneke, Heiner Schäfer, Georg Stoecklin

Loss of UCP2 Attenuates Mitochondrial Dysfunction without Altering ROS Production and Uncoupling Activity

Alexandra Kukat, Sukru Anil Dogan, Daniel Edgar, Arnaud Mourier, Christoph Jacoby, Priyanka Maiti, Jan Mauer, Christina Becker, Katharina Senft, Rolf Wibom, Alexei P. Kudin, Kjell Hultenby, Ulrich Flögel, Stephan Rosenkranz, Daniel Ricquier, Wolfram S. Kunz, Aleksandra Trifunovic

Sgo1 Regulates Both Condensin and Ipl1/Aurora B to Promote Chromosome Biorientation

Karolina Peplowska, Andreas U. Wallek, Zuzana Storchova

CPF-Associated Phosphatase Activity Opposes Condensin-Mediated Chromosome Condensation

Vincent Vanoosthuyse, Pénélope Legros, Sjaak J. A. van der Sar, Gaël Yvert, Kenji Toda, Thierry Le Bihan, Yoshinori Watanabe, Kevin Hardwick, Pascal Bernard

Digital Genotyping of Macrosatellites and Multicopy Genes Reveals Novel Biological Functions Associated with Copy Number Variation of Large Tandem Repeats

Manisha Brahmachary, Audrey Guilmatre, Javier Quilez, Dan Hasson, Christelle Borel, Peter Warburton, Andrew J. Sharp

Phenotypic Dissection of Bone Mineral Density Reveals Skeletal Site Specificity and Facilitates the Identification of Novel Loci in the Genetic Regulation of Bone Mass Attainment

John P. Kemp, Carolina Medina-Gomez, Karol Estrada, Beate St Pourcain, Denise H. M. Heppe, Nicole M. Warrington, Ling Oei, Susan M. Ring, Claudia J. Kruithof, Nicholas J. Timpson, Lisa E. Wolber, Sjur Reppe, Kaare Gautvik, Elin Grundberg, Bing Ge, Bram van der Eerden, Jeroen van de Peppel, Matthew A. Hibbs, Cheryl L. Ackert-Bicknell, Kwangbom Choi, Daniel L. Koller, Michael J. Econs, Frances M. K. Williams, Tatiana Foroud, M. Carola Zillikens, Claes Ohlsson, Albert Hofman, André G. Uitterlinden, George Davey Smith, Vincent W. V. Jaddoe, Jonathan H. Tobias, Fernando Rivadeneira, David M. Evans

The POU Factor Ventral Veins Lacking/Drifter Directs the Timing of Metamorphosis through Ecdysteroid and Juvenile Hormone Signaling

CeCe Cheng, Amy Ko, Leila Chaieb, Takashi Koyama, Prioty Sarwar, Christen K. Mirth, Wendy A. Smith, Yuichiro Suzuki

A Novel Peptidoglycan Binding Protein Crucial for PBP1A-Mediated Cell Wall Biogenesis in Vibrio cholerae

Tobias Dörr, Hubert Lam, Laura Alvarez, Felipe Cava, Brigid M. Davis, Matthew K. Waldor

Introgression from Domestic Goat Generated Variation at the Major Histocompatibility Complex of Alpine Ibex

Christine Grossen, Lukas Keller, Iris Biebach, Daniel Croll , The International Goat Genome Consortium

The Epidermal Growth Factor Receptor Critically Regulates Endometrial Function during Early Pregnancy

Michael J. Large, Margeaux Wetendorf, Rainer B. Lanz, Sean M. Hartig, Chad J. Creighton, Michael A. Mancini, Ertug Kovanci, Kuo-Fen Lee, David W. Threadgill, John P. Lydon, Jae-Wook Jeong, Francesco J. DeMayo

Genetic Determinants of Long-Term Changes in Blood Lipid Concentrations: 10-Year Follow-Up of the GLACIER Study

Tibor V. Varga, Emily Sonestedt, Dmitry Shungin, Robert W. Koivula, Göran Hallmans, Stefan A. Escher, Inês Barroso, Peter Nilsson, Olle Melander, Marju Orho-Melander, Frida Renström, Paul W. Franks

Early Back-to-Africa Migration into the Horn of Africa

Jason A. Hodgson, Connie J. Mulligan, Ali Al-Meeri, Ryan L. Raaum

Loss of a Neural AMP-Activated Kinase Mimics the Effects of Elevated Serotonin on Fat, Movement, and Hormonal Secretions

Katherine A. Cunningham, Aude D. Bouagnon, Alexandre G. Barros, Lin Lin, Leandro Malard, Marco Aurélio Romano-Silva, Kaveh Ashrafi

JNK Controls the Onset of Mitosis in Planarian Stem Cells and Triggers Apoptotic Cell Death Required for Regeneration and Remodeling

María Almuedo-Castillo, Xenia Crespo, Florian Seebeck, Kerstin Bartscherer, Emili Salò, Teresa Adell

The HY5-PIF Regulatory Module Coordinates Light and Temperature Control of Photosynthetic Gene Transcription

Gabriela Toledo-Ortiz, Henrik Johansson, Keun Pyo Lee, Jordi Bou-Torrent, Kelly Stewart, Gavin Steel, Manuel Rodríguez-Concepción, Karen J. Halliday

The Transcription Factor TFII-I Promotes DNA Translesion Synthesis and Genomic Stability

Farjana J. Fattah, Kodai Hara, Kazi R. Fattah, Chenyi Yang, Nan Wu, Ross Warrington, David J. Chen, Pengbo Zhou, David A. Boothman, Hongtao Yu

Muscle Structure Influences Utrophin Expression in mdx Mice

Glen B. Banks, Ariana C. Combs, Guy L. Odom, Robert J. Bloch, Jeffrey S. Chamberlain

Rosa26-GFP Direct Repeat (RaDR-GFP) Mice Reveal Tissue- and Age-Dependence of Homologous Recombination in Mammals In Vivo

Michelle R. Sukup-Jackson, Orsolya Kiraly, Jennifer E. Kay, Li Na, Elizabeth A. Rowland, Kelly E. Winther, Danielle N. Chow, Takafumi Kimoto, Tetsuya Matsuguchi, Vidya S. Jonnalagadda, Vilena I. Maklakova, Vijay R. Singh, Dushan N. Wadduwage, Jagath Rajapakse, Peter T. C. So, Lara S. Collier, Bevin P. Engelward

Integrated Pathway-Based Approach Identifies Association between Genomic Regions at CTCF and CACNB2 and Schizophrenia

Dilafruz Juraeva, Britta Haenisch, Marc Zapatka, Josef Frank, Stephanie H. Witt, Thomas W. Mühleisen, Jens Treutlein, Jana Strohmaier, Sandra Meier, Franziska Degenhardt, Ina Giegling, Stephan Ripke, Markus Leber, Christoph Lange, Thomas G. Schulze, Rainald Mössner, Igor Nenadic, Heinrich Sauer, Dan Rujescu, Wolfgang Maier, Anders Børglum, Roel Ophoff, Sven Cichon, Markus M. Nöthen, Marcella Rietschel, Manuel Mattheisen, Benedikt Brors , GROUP Investigators, PSYCH-GEMS SCZ working group

Glycogen Synthase Kinase (GSK) 3β Phosphorylates and Protects Nuclear Myosin 1c from Proteasome-Mediated Degradation to Activate rDNA Transcription in Early G1 Cells

Aishe A. Sarshad, Martin Corcoran, Bader Al-Muzzaini, Laura Borgonovo-Brandter, Anne Von Euler, Douglas Lamont, Neus Visa, Piergiorgio Percipalle

PINK1-Mediated Phosphorylation of Parkin Boosts Parkin Activity in Drosophila

Kahori Shiba-Fukushima, Tsuyoshi Inoshita, Nobutaka Hattori, Yuzuru Imai

The Effects of Codon Context on In Vivo Translation Speed

Fabienne F. V. Chevance, Soazig Le Guyon, Kelly T. Hughes

Palaeosymbiosis Revealed by Genomic Fossils of Wolbachia in a Strongyloidean Nematode

Georgios Koutsovoulos, Benjamin Makepeace, Vincent N. Tanya, Mark Blaxter

Ancient DNA Analysis of 8000 B.C. Near Eastern Farmers Supports an Early Neolithic Pioneer Maritime Colonization of Mainland Europe through Cyprus and the Aegean Islands

Eva Fernández, Alejandro Pérez-Pérez, Cristina Gamba, Eva Prats, Pedro Cuesta, Josep Anfruns, Miquel Molist, Eduardo Arroyo-Pardo, Daniel Turbón

OsHUS1 Facilitates Accurate Meiotic Recombination in Rice

Lixiao Che, Kejian Wang, Ding Tang, Qiaoquan Liu, Xiaojun Chen, Yafei Li, Qing Hu, Yi Shen, Hengxiu Yu, Minghong Gu, Zhukuan Cheng

Microbial Succession in the Gut: Directional Trends of Taxonomic and Functional Change in a Birth Cohort of Spanish Infants

Yvonne Vallès, Alejandro Artacho, Alberto Pascual-García, Maria Loreto Ferrús, María José Gosalbes, Juan José Abellán, M. Pilar Francino

Sequence of a Complete Chicken BG Haplotype Shows Dynamic Expansion and Contraction of Two Gene Lineages with Particular Expression Patterns

Jan Salomonsen, John A. Chattaway, Andrew C. Y. Chan, Aimée Parker, Samuel Huguet, Denise A. Marston, Sally L. Rogers, Zhiguang Wu, Adrian L. Smith, Karen Staines, Colin Butter, Patricia Riegert, Olli Vainio, Line Nielsen, Bernd Kaspers, Darren K. Griffin, Fengtang Yang, Rima Zoorob, Francois Guillemot, Charles Auffray, Stephan Beck, Karsten Skjødt, Jim Kaufman

Defective i6A37 Modification of Mitochondrial and Cytosolic tRNAs Results from Pathogenic Mutations in TRIT1 and Its Substrate tRNA

John W. Yarham, Tek N. Lamichhane, Angela Pyle, Sandy Mattijssen, Enrico Baruffini, Francesco Bruni, Claudia Donnini, Alex Vassilev, Langping He, Emma L. Blakely, Helen Griffin, Mauro Santibanez-Koref, Laurence A. Bindoff, Ileana Ferrero, Patrick F. Chinnery, Robert McFarland, Richard J. Maraia, Robert W. Taylor

Genetic Background Drives Transcriptional Variation in Human Induced Pluripotent Stem Cells

Foad Rouhani, Natsuhiko Kumasaka, Miguel Cardoso de Brito, Allan Bradley, Ludovic Vallier, Daniel Gaffney

Corrections