Founded in 2001, the Department of Neurobiology at the University of Massachusetts Medical School has evolved into a unique and integrated hub of investigators addressing fundamental problems in neurobiology, from single molecules to behavior, primarily using invertebrate model organisms. Combining cell biological, physiological and behavioral analyses with a critical interventionist angle afforded by cutting-edge genetic approaches, the Department aims to understand the complexity of brain development and function. This collection showcases journal articles and other publications and presentations written by faculty and researchers of the Department of Neurobiology.

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Publications from 2016

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Memory-Relevant Mushroom Body Output Synapses Are Cholinergic, Oliver Barnstedt, David Owald, Johannes Felsenberg, Ruth Brain, John-Paul Moszynski, Clifford B. Talbot, Paola N. Perrat, and Scott Waddell

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Corrigendum: FIB/SEM technology and high-throughput 3D reconstruction of dendritic spines and synapses in GFP-labeled adult-generated neurons, Carles Bosch, Albert Martinez, Nuria Masachs, Catia M. Teixeira, Isabel Fernaud, Fausto Ulloa, Esther Perez-Martinez, Carlos Lois, Joan X. Comella, Javier DeFelipe, Angel Merchan-Perez, and Eduardo Soriano

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Extracellular vesicles round off communication in the nervous system, Vivian Budnik, Catalina Ruiz-Canada, and Franz Wendler

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Drosophila Vision Depends on Carcinine Uptake by an Organic Cation Transporter, Ratna Chaturvedi, Zhuo Luan, Peiyi Guo, and Hong-Sheng Li

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The Genetic Basis of Natural Variation in Caenorhabditis elegans Telomere Length, Daniel E. Cook, Stefan Zdraljevic, Robyn E. Tanny, Beomseok Seo, David D. Riccardi, Luke M. Noble, Matthew V. Rockman, Mark J. Alkema, Christian Braendle, Jan E. Kammenga, John Wang, Leonid Kruglyak, Marie-Anne Felix, Junho Lee, and Erik C. Andersen

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Dendrites actively restrain axon outgrowth and regeneration, Michael M. Francis and Marc R. Freeman

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Microglia: Architects of the Developing Nervous System, Jeffrey L. Frost and Dorothy P. Schafer

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Circadian rhythms identified in Caenorhabditis elegans by in vivo long-term monitoring of a bioluminescent reporter, Maria Eugenia Goya, Andres Romanowski, Carlos S. Caldart, Claire Y. Benard, and Diego A. Golombek

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Prevalent presence of periodic actin-spectrin-based membrane skeleton in a broad range of neuronal cell types and animal species, Jiang He, Ruobo Zhou, Zhuhao Wu, Monica A. Carrasco, Peri T. Kurshan, Jonathan E. Farley, David J. Simon, Guiping Wang, Boran Han, Junjie Hao, Evan Heller, Marc R. Freeman, Kang Shen, Tom Maniatis, Marc Tessier-Lavigne, and Xiaowei Zhuang

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Attenuated traumatic axonal injury and improved functional outcome after traumatic brain injury in mice lacking Sarm1, Nils Henninger, James P. Bouley, Elif M. Sikoglu, Jiyan An, Constance M. Moore, Jean A. King, Robert Bowser, Marc R. Freeman, and Robert H. Brown Jr.

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Monitoring cell-cell contacts in vivo in transgenic animals, Ting-Hao Huang, Tarciso Velho, and Carlos Lois

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Using Drosophila models of Huntington's disease as a translatable tool, Elizabeth A. Lewis and Gaynor A. Smith

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Lamin Mutations Accelerate Aging via Defective Export of Mitochondrial mRNAs through Nuclear Envelope Budding, Yihang Li, Linda Hassinger, Travis Thomson, Baojin Ding, James A. Ashley, William Hassinger, and Vivian Budnik

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Genomic Access to Monarch Migration Using TALEN and CRISPR/Cas9-Mediated Targeted Mutagenesis, Matthew J. Markert, Ying Zhang, Metewo Selase Enuameh, Steven M. Reppert, Scot A. Wolfe, and Christine Merlin

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Neuromodulators signal through astrocytes to alter neural circuit activity and behaviour, Zhiguo Ma, Tobias Stork, Dwight E. Bergles, and Marc R. Freeman

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Single-Cell Transcriptional Analysis Reveals Novel Neuronal Phenotypes and Interaction Networks Involved in the Central Circadian Clock, James Park, Haisun Zhu, Sean O'Sullivan, Babatunde A. Ogunnaike, David R. Weaver, James S. Schwaber, and Rajanikanth Vadigepalli

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Emerging Technologies in the Analysis of C. elegans Nicotinic Acetylcholine Receptors, Alison Philbrook and Michael M. Francis

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Neurobiology of Monarch Butterfly Migration, Steven M. Reppert, Patrick A. Guerra, and Christine Merlin

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Microglia contribute to circuit defects in Mecp2 null mice independent of microglia-specific loss of Mecp2 expression, Dorothy P. Schafer, Christopher T. Heller, Georgia Gunner, Molly Heller, Christopher Gordon, Timothy Hammond, Yochai Wolf, Steffen Jung, and Beth Stevens

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Neural Integration Underlying a Time-Compensated Sun Compass in the Migratory Monarch Butterfly, Eli Shlizerman, James Phillips-Portillo, Daniel B. Forger, and Steven M. Reppert

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Pan-neuronal imaging in roaming Caenorhabditis elegans, Vivek Venkatachalam, Ni Ji, Xian Wang, Christopher M. Clark, James Kameron Mitchell, Mason Klein, Christopher J. Tabone, Jeremy Florman, Hongfei Ji, Joel Greenwood, Andrew D. Chisholm, Jagan Srinivasan, Mark J. Alkema, Mei Zhen, and Aravinthan D.T. Samuel

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Introduction to Circadian Rhythms and Mechanisms of Circadian Oscillations, David R. Weaver

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Dye-Sensitized Core/Active Shell Upconversion Nanoparticles for Optogenetics and Bioimaging Applications, Xiang Wu, Yuanwei Zhang, Kendra Takle, Osman Bilsel, Zhan Jun Li, Hyungseok Lee, Carlos Lois, Yang Xiang, and Gang Han

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miR-124 Regulates the Phase of Drosophila Circadian Locomotor Behavior, Yong Zhang, Pallavi Lamba, Peiyi Guo, and Patrick Emery

Publications from 2015

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In the proper context: Neuropeptide regulation of behavioral transitions during food searching, Raja Bhattacharya and Michael M. Francis

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Glypican Is a Modulator of Netrin-Mediated Axon Guidance, Cassandra Blanchette, Paola N. Perrat, Andrea Thackeray, and Claire Y. Benard

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FIB/SEM technology and high-throughput 3D reconstruction of dendritic spines and synapses in GFP-labeled adult-generated neurons, Carles Bosch, Albert Martinez, Nuria Masachs, Catia M. Teixeira, Isabel Fernaud, Fausto Ulloa, Esther Perez-Martinez, Carlos Lois, Joan X. Comella, Javier DeFelipe, Angel Merchan-Perez, and Eduardo Soriano

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An enhanced gene targeting toolkit for Drosophila: Golic+, Hui-Min Chen, Ya-ling Huang, Barret D. Pfeiffer, Xiaohao Yao, and Tzumin Lee

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Connecting Circadian Genes to Neurodegenerative Pathways in Fruit Flies, Patrick Emery

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Letting Go of JuNK by Disassembly of Adhesive Complexes, Jonathan E. Farley and Marc R. Freeman

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Drosophila Central Nervous System Glia, Marc R. Freeman

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The NCA sodium leak channel is required for persistent motor circuit activity that sustains locomotion, Shangbang Gao, Lin Xie, Taizo Kawano, Michelle D. Po, Sihui Guan, Mei Zhen, Jennifer K. Pirri, and Mark J. Alkema

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Sensory basis of lepidopteran migration: focus on the monarch butterfly, Patrick A. Guerra and Steven M. Reppert

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Drosophila TRPA1 isoforms detect UV light via photochemical production of H2O2, Ananya R. Guntur, Pengyu Gu, Kendra Takle, Jingyi Chen, Yang Xiang, and Chung-Hui Yang

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Transcriptional Control of Synaptic Remodeling through Regulated Expression of an Immunoglobulin Superfamily Protein, Siwei He, Alison Philbrook, Rebecca McWhirter, Christopher V. Gabel, Daniel G. Taub, Maximilian H. Carter, Isabella M. Hanna, Michael M. Francis, and David M. Miller 3rd

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Sweet taste and nutrient value subdivide rewarding dopaminergic neurons in Drosophila, Wolf Huetteroth, Emmanuel Perisse, Suewei Lin, Martin Klappenbach, Christopher J. Burke, and Scott Waddell

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Tachykinin acts upstream of autocrine Hedgehog signaling during nociceptive sensitization in Drosophila, Seol Hee Im, Kendra Takle, Juyeon Jo, Daniel T. Babcock, Zhiguo Ma, Yang Xiang, and Michael J. Galko

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Using Drosophila models of Huntington's disease as a translatable tool, Elizabeth A. Lewis and Gaynor A. Smith

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The putative Na(+)/Cl(-)-dependent neurotransmitter/osmolyte transporter inebriated in the Drosophila hindgut is essential for the maintenance of systemic water homeostasis, Zhuo Luan, Caitlin Quigley, and Hong-Sheng Li

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Mesoscopic patterns of neural activity support songbird cortical sequences, Jeffrey E. Markowitz, William A. Liberti III, Grigori Guitchounts, Tarciso Velho, Carlos Lois, and Timothy J. Gardner

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Caenorhabditis elegans exhibit a coupling between the defecation motor program and directed locomotion, Stanislav Nagy, Yung-Chi Huang, Mark J. Alkema, and David Biron

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Presynaptic BK channel localization is dependent on the hierarchical organization of alpha-catulin and dystrobrevin and fine-tuned by CaV2 calcium channels, Kelly H. Oh, Linu S. Abraham, Chandler Gegg, Christian Silvestri, Yung-Chi Huang, Mark J. Alkema, Jacob Furst, Daniela Raicu, and Hongkyun Kim

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Nucleus to Synapse Nesprin1 Railroad Tracks Direct Synapse Maturation through RNA Localization, Mary Packard, Vahbiz Jokhi, Baojin Ding, Catalina Ruiz-Canada, James A. Ashley, and Vivian Budnik

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A Change in the Ion Selectivity of Ligand-Gated Ion Channels Provides a Mechanism to Switch Behavior, Jennifer K. Pirri, Diego Rayes, and Mark J. Alkema

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Genes Required for Wallerian Degeneration Also Govern Dendrite Degeneration: A Dissertation, Timothy M. Rooney

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Brains, Blood, and Guts: MeCP2 Regulates Microglia, Monocytes, and Peripheral Macrophages, Dorothy P. Schafer and Beth Stevens

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Microglia Function in Central Nervous System Development and Plasticity, Dorothy P. Schafer and Beth Stevens

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Age-Dependent TDP-43-Mediated Motor Neuron Degeneration Requires GSK3, hat-trick, and xmas-2, Jemeen Sreedharan, Lukas J. Neukomm, Robert H. Brown Jr., and Marc R. Freeman

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The molecular ticks of the Drosophila circadian clock, Ozgur Tataroglu and Patrick Emery

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Calcium and SOL Protease Mediate Temperature Resetting of Circadian Clocks, Ozgur Tataroglu, Xiaohu Zhao, Ania Busza, Jinli Ling, John S. O'Neill, and Patrick Emery

Publications from 2014

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A conserved dopamine-cholecystokinin signaling pathway shapes context-dependent Caenorhabditis elegans behavior, Raja Bhattacharya, Denis Touroutine, Belinda Barbagallo, Jason Climer, Christopher M. Lambert, Christopher M. Clark, Mark J. Alkema, and Michael M. Francis

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Neuroscience. Astrocytes eyeball axonal mitochondria, Thomas C. Burdett and Marc R. Freeman

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Long-distance mechanism of neurotransmitter recycling mediated by glial network facilitates visual function in Drosophila, Ratna Chaturvedi, Keith Reddig, and Hong-Sheng Li

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Drosophila learn opposing components of a compound food stimulus, Gaurav Das, Martin Klappenbach, Eleftheria Vrontou, Emmanuel Perisse, Christopher M. Clark, Christopher J. Burke, and Scott Waddell

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The hepatic circadian clock modulates xenobiotic metabolism in mice, Jason P. DeBruyne, David R. Weaver, and Robert Dallmann

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PI3K signaling and Stat92E converge to modulate glial responsiveness to axonal injury, Johnna E. Doherty, Amy E. Sheehan, Rachel Bradshaw, A. Nicole Fox, Tsai-yi Lu, and Marc R. Freeman

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Signaling mechanisms regulating Wallerian degeneration, Marc R. Freeman

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A magnetic compass aids monarch butterfly migration, Patrick A. Guerra, Robert J. Gegear, and Steven M. Reppert

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Glial wingless/Wnt regulates glutamate receptor clustering and synaptic physiology at the Drosophila neuromuscular junction, Kimberly S. Kerr, Yuly F. Fuentes Medel, Cassandra Brewer, Romina Barria, James A. Ashley, Katharine C. Abruzzi, Amy E. Sheehan, Ozge E. Tasdemir, Marc R. Freeman, and Vivian Budnik

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The Anaphase-Promoting Complex (APC) ubiquitin ligase regulates GABA transmission at the C. elegans neuromuscular junction, Jennifer R. Kowalski, Hitesh Dube, Denis Touroutine, Kristen M. Rush, Patricia R. Goodwin, Marc Carozza, Zachary Didier, Michael M. Francis, and Peter Juo

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Morning and evening oscillators cooperate to reset circadian behavior in response to light input, Pallavi Lamba, Diana Wentworth, Patrick Emery, and Yong Zhang

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Adult neurogenesis and its promise as a hope for brain repair, Carlos Lois and Wolfgang Kelsch

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Loss of Na(+)/K(+)-ATPase in Drosophila photoreceptors leads to blindness and age-dependent neurodegeneration, Zhuo Luan, Keith Reddig, and Hong-Sheng Li

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DRK/DOS/SOS Converge with Crk/Mbc/dCed-12 to Activate Rac1 during Glial Engulfment of Axonal Debris, Tsai-yi Lu, Johnna E. Doherty, and Marc R. Freeman

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Activity-dependent regulation of astrocyte GAT levels during synaptogenesis, Allie Muthukumar, Tobias Stork, and Marc R. Freeman

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Rapid in vivo forward genetic approach for identifying axon death genes in Drosophila, Lukas J. Neukomm, Thomas C. Burdett, Michael A. Gonzalez, Stephan Zuchner, and Marc R. Freeman

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Diverse cellular and molecular modes of axon degeneration, Lukas J. Neukomm and Marc R. Freeman

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Optimized CRISPR/Cas tools for efficient germline and somatic genome engineering in Drosophila, Fillip Port, Hui-Min Chen, Tzumin Lee, and Simon L. Bullock

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Drosophila models of neuronal injury, Timothy M. Rooney and Marc R. Freeman

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Simultaneous optogenetic manipulation and calcium imaging in freely moving C. elegans, Frederick B. Shipley, Christopher M. Clark, Mark J. Alkema, and Andrew M. Leifer

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Neuron-glia interactions through the Heartless FGF receptor signaling pathway mediate morphogenesis of Drosophila astrocytes, Tobias Stork, Amy E. Sheehan, Ozge E. Tasdemir-Yilmaz, and Marc R. Freeman

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Neuronal regeneration in C. elegans requires subcellular calcium release by ryanodine receptor channels and can be enhanced by optogenetic stimulation, Lin Sun, James Shay, Melissa McLoed, Kevin Roodhouse, Samuel H. Chung, Christopher M. Clark, Jennifer K. Pirri, Mark J. Alkema, and Christopher V. Gabel

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Astrocytes engage unique molecular programs to engulf pruned neuronal debris from distinct subsets of neurons, Ozge E. Tasdemir-Yilmaz and Marc R. Freeman

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Studying circadian rhythms in Drosophila melanogaster, Ozgur Tataroglu and Patrick Emery

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Generation of transgenic zebra finches with replication-deficient lentiviruses, Tarciso Velho and Carlos Lois

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Trim9 regulates activity-dependent fine-scale topography in Drosophila, Limin Yang, Ruonan Li, Takuya Kaneko, Kendra Takle, Rei K. Morikawa, Laura Essex, Xin Wang, Jie Zhou, Kazuo Emoto, Yang Xiang, and Bing Ye

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The genetics of monarch butterfly migration and warning colouration, Shuai Zhan, Wei Zhang, Kristjan Niitepold, Jeremy Hsu, Juan Fernandez Haeger, Myron P. Zalucki, Sonia Altizer, Jacobus C. de Roode, Steven M. Reppert, and Marcus R. Kronforst

Publications from 2013

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Post-translational modification by cysteine protects Cu/Zn-superoxide dismutase from oxidative damage, Jared R. Auclair, Joshua L. Johnson, Qian Liu, Joseph P. Salisbury, Melissa S. Rotunno, Gregory A. Petsko, Dagmar Ringe, Robert H. Brown Jr., Daryl A. Bosco, and Jeffrey N. Agar

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Targeted expression of human folylpolyglutamate synthase for selective enhancement of methotrexate chemotherapy in osteosarcoma cells, K. Bienemann, M. S. Staege, S. J. Howe, Miguel Sena-Esteves, H. Hanenberg, and C. M. Kramm

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A rare presentation of hypertrophic olivary degeneration secondary to primary central nervous system lymphoma, David Cachia, Saef Izzy, Thomas W. Smith, and Carolina Ionete

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Cell biology in neuroscience: Architects in neural circuit design: glia control neuron numbers and connectivity, Megan M. Corty and Marc R. Freeman

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Probing the enigma: unraveling glial cell biology in invertebrates, Jaeda Coutinho-Budd and Marc R. Freeman

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Monoaminergic orchestration of motor programs in a complex C. elegans behavior, Jamie L. Donnelly, Christopher M. Clark, Andrew M. Leifer, Jennifer K. Pirri, Marian Haburcak, Michael M. Francis, Aravinthan D. T. Samuel, and Mark J. Alkema

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A large-scale behavioral screen to identify neurons controlling motor programs in the Drosophila brain, Thomas F. Flood, Michael Gorczyca, Benjamin H. White, Kei Ito, and Motojiro Yoshihara

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A single pair of interneurons commands the Drosophila feeding motor program, Thomas F. Flood, Shinya Iguchi, Michael Gorczyca, Benjamin White, Kei Ito, and Motojiro Yoshihara

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Evolving concepts of gliogenesis: a look way back and ahead to the next 25 years, Marc R. Freeman and David H. Rowitch

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Coldness triggers northward flight in remigrant monarch butterflies, Patrick A. Guerra and Steven M. Reppert

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Anatomical basis of sun compass navigation II: The neuronal composition of the central complex of the monarch butterfly, Stanley Heinze, Jeremy Florman, Surainder Asokaraj, Basil el Jundi, and Steven M. Reppert

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Identification of distinct tyraminergic and octopaminergic neurons innervating the central complex of the desert locust, Schistocerca gregaria, Uwe Homberg, Jutta Seyfarth, Ulrike Binkle, Maria Monastirioti, and Mark J. Alkema

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Torsin mediates primary envelopment of large ribonucleoprotein granules at the nuclear envelope, Vahbiz Jokhi, James A. Ashley, John J. Nunnari, Akiko Noma, Naoto ito, Noriko Wakabayashi-Ito, Melissa J. Moore, and Vivian Budnik

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The circadian clock gates the intestinal stem cell regenerative state, Phillip Karpowicz, Yong Zhang, John B. Hogenesch, Patrick Emery, and Norbert Perrimon

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Regulation of postsynaptic retrograde signaling by presynaptic exosome release, Ceren Korkut, Yihang Li, Kate Koles, Cassandra Brewer, James A. Ashley, Motojiro Yoshihara, and Vivian Budnik

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Extremes of lineage plasticity in the Drosophila brain, Suewei Lin, Elizabeth C. Marin, Ching-Po Yang, Chih-Fei Kao, Bettye A. Apenteng, Yaling Huang, Michael B. O'Connor, James W. Truman, and Tzumin Lee

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The c-Jun kinase signaling cascade promotes glial engulfment activity through activation of draper and phagocytic function, Jennifer M. MacDonald, Johnna E. Doherty, Rachel Hackett, and Marc R. Freeman

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Efficient targeted mutagenesis in the monarch butterfly using zinc finger nucleases, Christine Merlin, Lauren E. Beaver, Orley R. Taylor, Scot A. Wolfe, and Steven M. Reppert

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Deletions within its subcellular targeting domain enhance the axon protective capacity of Nmnat2 in vivo, Stefan Milde, A. Nicole Fox, Marc R. Freeman, and Michael P. Coleman

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Circadian clock proteins regulate neuronal redox homeostasis and neurodegeneration, Erik S. Musiek, David R. Weaver, David M. Holtzman, and Garret A. Fitzgerald

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Are monarch butterflies true navigators? The jury is still out, Karen S. Oberhauser, Orley R. Taylor, Steven M. Reppert, Hugh Dingle, Kelly R. Nail, Robert M. Pyle, and Carl Stenoien

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Shocking revelations and saccharin sweetness in the study of Drosophila olfactory memory, Emmanuel Perisse, Christopher J. Burke, Wolf Huetteroth, and Scott Waddell

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Different kenyon cell populations drive learned approach and avoidance in Drosophila, Emmanuel Perisse, Yan Yin, Andrew C. Lin, Suewei Lin, Wolf Huetteroth, and Scott Waddell