Advertisement

Table of Contents: April 2018

Bar-headed geese are champions of high-altitude flight and are renowned for their trans-Himalayan migrations. In this issue, Natarajan et al. dissect the molecular basis of an adaptive change in bar-headed goose hemoglobin that contributes to their extreme hypoxia tolerance. See Natarajan et al.

Download April's cover page.

Image Credit: Coke Smith

Review

A genomic overview of the population structure of Salmonella

Nabil-Fareed Alikhan, Zhemin Zhou, Martin J. Sergeant, Mark Achtman

Research Articles

Role of heterotrimeric Gα proteins in maize development and enhancement of agronomic traits

Qingyu Wu, Michael Regan, Hiro Furukawa, David Jackson

Frequency and distribution of 152 genetic disease variants in over 100,000 mixed breed and purebred dogs

Jonas Donner, Heidi Anderson, Stephen Davison, Angela M. Hughes, Julia Bouirmane, Johan Lindqvist, Katherine M. Lytle, Balasubramanian Ganesan, Claudia Ottka, Päivi Ruotanen, Maria Kaukonen, Oliver P. Forman, Neale Fretwell, Cynthia A. Cole, Hannes Lohi

Glycolysis regulates pollen tube polarity via Rho GTPase signaling

Wei Chen, Pingping Gong, Jingzhe Guo, Hui Li, Ruizi Li, Weiman Xing, Zhenbiao Yang, Yuefeng Guan

Transcription and translation of the sigG gene is tuned for proper execution of the switch from early to late gene expression in the developing Bacillus subtilis spore

Elizabeth B. Mearls, Jacquelin Jackter, Jennifer M. Colquhoun, Veronica Farmer, Allison J. Matthews, Laura S. Murphy, Colleen Fenton, Amy H. Camp

High mutation rates limit evolutionary adaptation in Escherichia coli

Kathleen Sprouffske, José Aguilar-Rodríguez, Paul Sniegowski, Andreas Wagner

Global analysis of genetic circuitry and adaptive mechanisms enabling resistance to the azole antifungal drugs

Harley O’Connor Mount, Nicole M. Revie, Robert T. Todd, Kaitlin Anstett, Cathy Collins, Michael Costanzo, Charles Boone, Nicole Robbins, Anna Selmecki, Leah E. Cowen

Altered distribution of ATG9A and accumulation of axonal aggregates in neurons from a mouse model of AP-4 deficiency syndrome

Raffaella De Pace, Miguel Skirzewski, Markus Damme, Rafael Mattera, Jeffrey Mercurio, Arianne M. Foster, Loreto Cuitino, Michal Jarnik, Victoria Hoffmann, H. Douglas Morris, Tae-Un Han, Grazia M. S. Mancini, Andrés Buonanno, Juan S. Bonifacino

Gtr/Ego-independent TORC1 activation is achieved through a glutamine-sensitive interaction with Pib2 on the vacuolar membrane

Hirofumi Ukai, Yasuhiro Araki, Shintaro Kira, Yu Oikawa, Alexander I. May, Takeshi Noda

Non-canonical role of the SNARE protein Ykt6 in autophagosome-lysosome fusion

Szabolcs Takáts, Gábor Glatz, Győző Szenci, Attila Boda, Gábor V. Horváth, Krisztina Hegedűs, Attila L. Kovács, Gábor Juhász

Control of yeast retrotransposons mediated through nucleoporin evolution

Paul A. Rowley, Kurt Patterson, Suzanne B. Sandmeyer, Sara L. Sawyer

WUSCHEL-RELATED HOMEOBOX4 acts as a key regulator in early leaf development in rice

Yukiko Yasui, Yoshihiro Ohmori, Yumiko Takebayashi, Hitoshi Sakakibara, Hiro-Yuki Hirano

Intronic PAH gene mutations cause a splicing defect by a novel mechanism involving U1snRNP binding downstream of the 5’ splice site

Ainhoa Martínez-Pizarro, Maja Dembic, Belén Pérez, Brage S. Andresen, Lourdes R. Desviat

Unexpected cancer-predisposition gene variants in Cowden syndrome and Bannayan-Riley-Ruvalcaba syndrome patients without underlying germline PTEN mutations

Lamis Yehia, Ying Ni, Kaitlin Sesock, Farshad Niazi, Benjamin Fletcher, Hannah Jin Lian Chen, Thomas LaFramboise, Charis Eng

Supervised machine learning reveals introgressed loci in the genomes of Drosophila simulans and D. sechellia

Daniel R. Schrider, Julien Ayroles, Daniel R. Matute, Andrew D. Kern

One for all and all for One: Improving replication of genetic studies through network diffusion

Daniel Lancour, Adam Naj, Richard Mayeux, Jonathan L. Haines, Margaret A. Pericak-Vance, Gerard D. Schellenberg, Mark Crovella, Lindsay A. Farrer, Simon Kasif

Patterning mechanisms diversify neuroepithelial domains in the Drosophila optic placode

Abhishek Kumar Mishra, F. Javier Bernardo-Garcia, Cornelia Fritsch, Tim-Henning Humberg, Boris Egger, Simon G. Sprecher

Robustness encoded across essential and accessory replicons of the ecologically versatile bacterium Sinorhizobium meliloti

George C. diCenzo, Alex B. Benedict, Marco Fondi, Graham C. Walker, Turlough M. Finan, Alessio Mengoni, Joel S. Griffitts

Threshold-dependent repression of SPL gene expression by miR156/miR157 controls vegetative phase change in Arabidopsis thaliana

Jia He, Mingli Xu, Matthew R. Willmann, Kevin McCormick, Tieqiang Hu, Li Yang, Colby G. Starker, Daniel F. Voytas, Blake C. Meyers, R. Scott Poethig

Selection on the regulation of sympathetic nervous activity in humans and chimpanzees

Kang Seon Lee, Paramita Chatterjee, Eun-Young Choi, Min Kyung Sung, Jaeho Oh, Hyejung Won, Seong-Min Park, Youn-Jae Kim, Soojin V. Yi, Jung Kyoon Choi

Potential and limits for rapid genetic adaptation to warming in a Great Barrier Reef coral

Mikhail V. Matz, Eric A. Treml, Galina V. Aglyamova, Line K. Bay

Targeted next generation sequencing identifies functionally deleterious germline mutations in novel genes in early-onset/familial prostate cancer

Paula Paulo, Sofia Maia, Carla Pinto, Pedro Pinto, Augusta Monteiro, Ana Peixoto, Manuel R. Teixeira

Cytokinin stabilizes WUSCHEL by acting on the protein domains required for nuclear enrichment and transcription

Stephen A. Snipes, Kevin Rodriguez, Aaron E. DeVries, Kaori N. Miyawaki, Mariano Perales, Mingtang Xie, G. Venugopala Reddy

Synergistic co-regulation and competition by a SOX9-GLI-FOXA phasic transcriptional network coordinate chondrocyte differentiation transitions

Zhijia Tan, Ben Niu, Kwok Yeung Tsang, Ian G. Melhado, Shinsuke Ohba, Xinjun He, Yongheng Huang, Cheng Wang, Andrew P. McMahon, Ralf Jauch, Danny Chan, Michael Q. Zhang, Kathryn S. E. Cheah

Cyclic di-AMP regulation of osmotic homeostasis is essential in Group B Streptococcus

Laura Devaux, Dona Sleiman, Maria-Vittoria Mazzuoli, Myriam Gominet, Philippe Lanotte, Patrick Trieu-Cuot, Pierre-Alexandre Kaminski, Arnaud Firon

Phosphorelay through the bifunctional phosphotransferase PhyT controls the general stress response in an alphaproteobacterium

Lisa Gottschlich, Miriam Bortfeld-Miller, Christoph Gäbelein, Sebastian Dintner, Julia A. Vorholt

The UBR-1 ubiquitin ligase regulates glutamate metabolism to generate coordinated motor pattern in Caenorhabditis elegans

Jyothsna Chitturi, Wesley Hung, Anas M. Abdel Rahman, Min Wu, Maria A. Lim, John Calarco, Renee Baran, Xun Huang, James W. Dennis, Mei Zhen

Global characterization of copy number variants in epilepsy patients from whole genome sequencing

Jean Monlong, Simon L. Girard, Caroline Meloche, Maxime Cadieux-Dion, Danielle M. Andrade, Ron G. Lafreniere, Micheline Gravel, Dan Spiegelman, Alexandre Dionne-Laporte, Cyrus Boelman, Fadi F. Hamdan, Jacques L. Michaud, Guy Rouleau, Berge A. Minassian, Guillaume Bourque, Patrick Cossette

New insights into the transposition mechanisms of IS6110 and its dynamic distribution between Mycobacterium tuberculosis Complex lineages

Jesús Gonzalo-Asensio, Irene Pérez, Nacho Aguiló, Santiago Uranga, Ana Picó, Carlos Lampreave, Alberto Cebollada, Isabel Otal, Sofía Samper, Carlos Martín

Supramolecular assembly of the beta-catenin destruction complex and the effect of Wnt signaling on its localization, molecular size, and activity in vivo

Kristina N. Schaefer, Teresa T. Bonello, Shiping Zhang, Clara E. Williams, David M. Roberts, Daniel J. McKay, Mark Peifer

TGFβ signaling related genes are involved in hormonal mediation during termite soldier differentiation

Yudai Masuoka, Hajime Yaguchi, Kouhei Toga, Shuji Shigenobu, Kiyoto Maekawa

Effector gene birth in plant parasitic nematodes: Neofunctionalization of a housekeeping glutathione synthetase gene

Catherine J. Lilley, Abbas Maqbool, Duqing Wu, Hazijah B. Yusup, Laura M. Jones, Paul R. J. Birch, Mark J. Banfield, Peter E. Urwin, Sebastian Eves-van den Akker

A Distalless-responsive enhancer of the Hox gene Sex combs reduced is required for segment- and sex-specific sensory organ development in Drosophila

Sebnem Ece Eksi, Olga Barmina, Christopher L. McCallough, Artyom Kopp, Teresa Vales Orenic

Odorant binding protein 69a connects social interaction to modulation of social responsiveness in Drosophila

Assa Bentzur, Anat Shmueli, Liora Omesi, Julia Ryvkin, Jon-Michael Knapp, Moshe Parnas, Fred P. Davis, Galit Shohat-Ophir

Functional diversification accompanies gene family expansion of MED2 homologs in Candida albicans

Matthew J. Dunn, Griffin M. Kinney, Pamela M. Washington, Judith Berman, Matthew Z. Anderson

Massive lateral transfer of genes encoding plant cell wall-degrading enzymes to the mycoparasitic fungus Trichoderma from its plant-associated hosts

Irina S. Druzhinina, Komal Chenthamara, Jian Zhang, Lea Atanasova, Dongqing Yang, Youzhi Miao, Mohammad J. Rahimi, Marica Grujic, Feng Cai, Shadi Pourmehdi, Kamariah Abu Salim, Carina Pretzer, Alexey G. Kopchinskiy, Bernard Henrissat, Alan Kuo, Hope Hundley, Mei Wang, Andrea Aerts, Asaf Salamov, Anna Lipzen, Kurt LaButti, Kerrie Barry, Igor V. Grigoriev, Qirong Shen, Christian P. Kubicek

Genome-wide detection of conservative site-specific recombination in bacteria

Ognjen Sekulovic, Elizabeth Mathias Garrett, Jacob Bourgeois, Rita Tamayo, Aimee Shen, Andrew Camilli

Conditional mouse models support the role of SLC39A14 (ZIP14) in Hyperostosis Cranialis Interna and in bone homeostasis

Gretl Hendrickx, Vere M. Borra, Ellen Steenackers, Timur A. Yorgan, Christophe Hermans, Eveline Boudin, Jérôme J. Waterval, Ineke D. C. Jansen, Tolunay Beker Aydemir, Niels Kamerling, Geert J. Behets, Christine Plumeyer, Patrick C. D’Haese, Björn Busse, Vincent Everts, Martin Lammens, Geert Mortier, Robert J. Cousins, Thorsten Schinke, Robert J. Stokroos, Johannes J. Manni, Wim Van Hul

Comparison of phasing strategies for whole human genomes

Yongwook Choi, Agnes P. Chan, Ewen Kirkness, Amalio Telenti, Nicholas J. Schork

Identification and functional analysis of glycemic trait loci in the China Health and Nutrition Survey

Cassandra N. Spracklen, Jinxiu Shi, Swarooparani Vadlamudi, Ying Wu, Meng Zou, Chelsea K. Raulerson, James P. Davis, Monica Zeynalzadeh, Kayla Jackson, Wentao Yuan, Haifeng Wang, Weihua Shou, Ying Wang, Jingchun Luo, Leslie A. Lange, Ethan M. Lange, Barry M. Popkin, Penny Gordon-Larsen, Shufa Du, Wei Huang, Karen L. Mohlke

Distinct interactions of Sox5 and Sox10 in fate specification of pigment cells in medaka and zebrafish

Yusuke Nagao, Hiroyuki Takada, Motohiro Miyadai, Tomoko Adachi, Ryoko Seki, Yasuhiro Kamei, Ikuyo Hara, Yoshihito Taniguchi, Kiyoshi Naruse, Masahiko Hibi, Robert N. Kelsh, Hisashi Hashimoto

Genome-wide association studies reveal that members of bHLH subfamily 16 share a conserved function in regulating flag leaf angle in rice (Oryza sativa)

Haijiao Dong, Hu Zhao, Shuangle Li, Zhongmin Han, Gang Hu, Chang Liu, Gaiyu Yang, Gongwei Wang, Weibo Xie, Yongzhong Xing

Sexual dimorphism of sleep regulated by juvenile hormone signaling in Drosophila

Binbin Wu, Lingling Ma, Enyan Zhang, Juan Du, Suning Liu, Jeffrey Price, Sheng Li, Zhangwu Zhao

Degenerate Pax2 and Senseless binding motifs improve detection of low-affinity sites required for enhancer specificity

Arya Zandvakili, Ian Campbell, Lisa M. Gutzwiller, Matthew T. Weirauch, Brian Gebelein

Identification and characterization of wheat stem rust resistance gene Sr21 effective against the Ug99 race group at high temperature

Shisheng Chen, Wenjun Zhang, Stephen Bolus, Matthew N. Rouse, Jorge Dubcovsky

Molecular basis of hemoglobin adaptation in the high-flying bar-headed goose

Chandrasekhar Natarajan, Agnieszka Jendroszek, Amit Kumar, Roy E. Weber, Jeremy R. H. Tame, Angela Fago, Jay F. Storz

FIGL1 and its novel partner FLIP form a conserved complex that regulates homologous recombination

Joiselle Blanche Fernandes, Marine Duhamel, Mathilde Seguéla-Arnaud, Nicole Froger, Chloé Girard, Sandrine Choinard, Victor Solier, Nancy De Winne, Geert De Jaeger, Kris Gevaert, Philippe Andrey, Mathilde Grelon, Raphael Guerois, Rajeev Kumar, Raphaël Mercier

Natural allelic variation of the AZI1 gene controls root growth under zinc-limiting condition

Nadia Bouain, Santosh B. Satbhai, Arthur Korte, Chorpet Saenchai, Guilhem Desbrosses, Pierre Berthomieu, Wolfgang Busch, Hatem Rouached

High-throughput interaction screens illuminate the role of c-di-AMP in cyanobacterial nighttime survival

Benjamin E. Rubin, TuAnh Ngoc Huynh, David G. Welkie, Spencer Diamond, Ryan Simkovsky, Emily C. Pierce, Arnaud Taton, Laura C. Lowe, Jenny J. Lee, Scott A. Rifkin, Joshua J. Woodward, Susan S. Golden

Endocytic recycling via the TGN underlies the polarized hyphal mode of life

Miguel Hernández-González, Ignacio Bravo-Plaza, Mario Pinar, Vivian de los Ríos, Herbert N. Arst Jr., Miguel A. Peñalva

A high throughput, functional screen of human Body Mass Index GWAS loci using tissue-specific RNAi Drosophila melanogaster crosses

Thomas J. Baranski, Aldi T. Kraja, Jill L. Fink, Mary Feitosa, Petra A. Lenzini, Ingrid B. Borecki, Ching-Ti Liu, L. Adrienne Cupples, Kari E. North, Michael A. Province