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 2014

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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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Layered Reward Signalling Through Octopamine and Dopamine in Drosophila: A Dissertation, Christopher J. Burke

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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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Transcriptional and Translational Mechanisms Controlling Circadian Rhythms in Drosophila: A Dissertation, Jinli Ling

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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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dSarm/Sarm1 Governs a Conserved Axon Death Program: A Dissertation, Jeannette M. Osterloh

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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

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Transposition-driven genomic heterogeneity in the Drosophila brain, Paola N. Perrat, Shamik DasGupta, Jie Wang, William E. Theurkauf, Zhiping Weng, Michael Rosbash, and Scott Waddell

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ACR-12 ionotropic acetylcholine receptor complexes regulate inhibitory motor neuron activity in Caenorhabditis elegans, Hilary A. Petrash, Alison Philbrook, Marian Haburcak, Belinda Barbagallo, and Michael M. Francis

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A tale of two receptors: Dual roles for ionotropic acetylcholine receptors in regulating motor neuron excitation and inhibition, Alison Philbrook, Belinda Barbagallo, and Michael M. Francis

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The Role of Ion Channels in Coordinating Neural Circuit Activity in Caenorhabditis elegans: A Dissertation, Jennifer K. Pirri

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Increased cell-intrinsic excitability induces synaptic changes in new neurons in the adult dentate gyrus that require npas4, Shuyin Sim, Salome Antolin, Chia-Wei Lin, Yingxi Lin, and Carlos Lois

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GW182 controls Drosophila circadian behavior and PDF-receptor signaling, Yong Zhang and Patrick Emery

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A role for Drosophila ATX2 in activation of PER translation and circadian behavior, Yong Zhang, Jinli Ling, Chunyan Yuan, Raphaelle Dubruille, and Patrick Emery

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MonarchBase: the monarch butterfly genome database, Shuai Zhan and Steven M. Reppert

Publications from 2012

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Wld(S) Prevents Axon Degeneration through Increased Mitochondrial Flux and Enhanced Mitochondrial Ca(2+) Buffering, Michelle A. Avery, Timothy M. Rooney, Jignesh D. Pandya, Thomas M. Wishart, Thomas H. Gillingwater, James W. Geddes, Patrick G. Sullivan, and Marc R. Freeman

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The Secreted Immunoglobulin Domain Proteins ZIG-5 and ZIG-8 Cooperate with L1CAM/SAX-7 to Maintain Nervous System Integrity, Claire Y. Benard, Cassandra Blanchette, Janine Recio, and Oliver Hobert

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Layered reward signalling through octopamine and dopamine in Drosophila, Christopher J. Burke, Wolf Huetteroth, David Owald, Emmanuel Perisse, Michael J. Krashes, Gaurav Das, Daryl Gohl, Marion Silies, Sarah Certel, and Scott Waddell

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Circadian rhythms: An electric jolt to the clock, Patrick Emery

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Role of Glia in Sculpting Synaptic Connections at the Drosophila Neuromuscular Junction: A Dissertation, Yuly F. Fuentes Medel

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Integration of a retrograde signal during synapse formation by glia-secreted TGF-beta ligand, Yuly F. Fuentes-Medel, James A. Ashley, Romina Barria, Rachel Maloney, Marc R. Freeman, and Vivian Budnik

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Whole Genome Sequencing and a New Bioinformatics Platform Allow for Rapid Gene Identification in D. melanogaster EMS Screens, Michael A. Gonzalez, Derek Van Booven, William Hulme, Rick H. Ulloa, Rafael F. Lebrigio Acosta, Jeannette M. Osterloh, Mary Logan, Marc R. Freeman, and Stephan Zuchner

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Discordant timing between antennae disrupts sun compass orientation in migratory monarch butterflies, Patrick A. Guerra, Christine Merlin, Robert J. Gegear, and Steven M. Reppert

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Anatomical basis of sun compass navigation I: the general layout of the monarch butterfly brain, Stanley Heinze and Steven M. Reppert

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Protein Gq modulates termination of phototransduction and prevents retinal degeneration, Wen Hu, Didi Wan, Xiaoming Yu, Jinguo Cao, Peiyi Guo, Hong-Sheng Li, and Junhai Han

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Wnt signaling regulates acetylcholine receptor translocation and synaptic plasticity in the adult nervous system, Michael Jensen, Frederic J. Hoerndli, Penelope J. Brockie, Rui Wang, Erica Johnson, Dane Maxfield, Michael M. Francis, David M. Madsen, and Andres V. Maricq

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Vesiclepedia: a compendium for extracellular vesicles with continuous community annotation, Hina Kalra, Vivian Budnik, and Suresh Mathivanan

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Circadian rhythm of temperature preference and its neural control in Drosophila, Haruna Kaneko, Lauren M. Head, Jinli Ling, Xin Tang, Yilin Liu, Paul E. Hardin, Patrick Emery, and Fumika N. Hamada

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Hierarchical deployment of factors regulating temporal fate in a diverse neuronal lineage of the Drosophila central brain, Chih-Fei Kao, Hung-Hsiang Yu, Yisheng He, Jui-Chun Kao, and Tzumin Lee

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Increasing heterogeneity in the organization of synaptic inputs of mature olfactory bulb neurons generated in newborn rats, Wolfgang Kelsch, Shuyin Sim, and Carlos Lois

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Genetic labeling of neuronal subsets through enhancer trapping in mice, Wolfgang Kelsch, Alberto Stolfi, and Carlos Lois

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Glial Control of Synapse Assembly at the Drosophila Neuromuscular Junction: A Dissertation, Kimberly S. Kerr

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Exosomes go with the Wnt, Kate Koles and Vivian Budnik

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Wnt Signaling in Neuromuscular Junction Development, Kate Koles and Vivian Budnik

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Mechanism of evenness interrupted (Evi)-exosome release at synaptic boutons, Kate Koles, John J. Nunnari, Ceren Korkut, Romina Barria, Cassandra Brewer, Yihang Li, John D. Leszyk, Bing Zhang, and Vivian Budnik

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Inhibitory control of synaptic and behavioral plasticity by octopaminergic signaling, Alex C. Koon and Vivian Budnik

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A Novel Communication Mechanism Between the Presynapse and Postsynapse Through Exosomes: A Dissertation, Ceren Korkut

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Antibodies for assessing circadian clock proteins in the rodent suprachiasmatic nucleus, Joseph Lesauter, Christopher M. Lambert, Margaret R. Robotham, Zina Model, Rae Silver, and David R. Weaver

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KAYAK-alpha modulates circadian transcriptional feedback loops in Drosophila pacemaker neurons, Jinli Ling, Raphaelle Dubruille, and Patrick Emery

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Lineage analysis of Drosophila lateral antennal lobe neurons reveals notch-dependent binary temporal fate decisions, Suewei Lin, Chih-Fei Kao, Hung-Hsiang Yu, Ya-ling Huang, and Tzumin Lee

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Generating neuronal diversity in the Drosophila central nervous system, Suewei Lin and Tzumin Lee

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Negative regulation of glial engulfment activity by Draper terminates glial responses to axon injury, Mary A. Logan, Rachel Hackett, Johnna E. Doherty, Amy E. Sheehan, Sean D. Speese, and Marc R. Freeman

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Genetics in non-genetic model systems, Carlos Lois and James O. Groves

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Inwardly rectifying potassium channels in Drosophila, Zhuo Luan and Hong-Sheng Li

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Coincident generation of pyramidal neurons and protoplasmic astrocytes in neocortical columns, Sanjay Magavi, Drew Friedmann, Garrett Banks, Alberto Stolfi, and Carlos Lois

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Unraveling navigational strategies in migratory insects, Christine Merlin, Stanley Heinze, and Steven M. Reppert

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Similarity of Visual Selectivity among Clonally Related Neurons in Visual Cortex, Gen Ohtsuki, Megumi Nishiyama, Takashi Yoshida, Tomonari Murakami, Mark Histed, Carlos Lois, and Kenichi Ohki

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dSarm/Sarm1 is required for activation of an injury-induced axon death pathway, Jeannette M. Osterloh, Jing Yang, Timothy M. Rooney, A. Nicole Fox, Robert Adalbert, Eric H. Powell, Amy E. Sheehan, Michelle A. Avery, Rachel Hackett, Mary A. Logan, Jennifer M. MacDonald, Jennifer S. Ziegenfuss, Stefan Milde, Ying-Ju Hou, Carl Nathan, Aihao Ding, Robert H. Brown Jr., Laura Comforti, Michael Coleman, Marc Tessier-Lavigne, Stephan Zuchner, and Marc R. Freeman

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Transposition Driven Genomic Heterogeneity in the Drosophila Brain: A Dissertation, Paola N. Perrat

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Maintaining the Balance: Coordinating Excitation and Inhibition in a Simple Motor Circuit: A Dissertation, Hilary A. Petrash

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The neuroethology of C. elegans escape, Jennifer K. Pirri and Mark J. Alkema

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Disruption of gene expression rhythms in mice lacking secretory vesicle proteins IA-2 and IA-2β, Sohan Punia, Kyle K. Rumery, Elizabeth A. Yu, Christopher M. Lambert, Abner L. Notkins, and David R. Weaver

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Intercellular calcium signaling in a gap junction-coupled cell network establishes asymmetric neuronal fates in C. elegans, Jennifer A. Schumacher, Yi-Wen Hsieh, Shiuhwei Chen, Jennifer K. Pirri, Mark J. Alkema, Wen-hong Li, Chieh Chang, and Chiou-Fen Chuang

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Wandering neuronal migration in the postnatal vertebrate forebrain, Benjamin B. Scott, Timothy Gardner, Ni Ji, Michale S. Fee, and Carlos Lois

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Molecular diversity of Dscam and self-recognition, Lei Shi and Tzumin Lee

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Nuclear envelope budding enables large ribonucleoprotein particle export during synaptic Wnt signaling, Sean D. Speese, James A. Ashley, Vahbiz Jokhi, John J. Nunnari, Romina Barria, Yihang Li, Bulent Ataman, Alex C. Koon, Young-Tae Chang, Qian Li, Melissa J. Moore, and Vivian Budnik

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Analysis of glial cell development and function in Drosophila, Tobias Stork, Rebecca Bernardos, and Marc R. Freeman

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Combining comparative proteomics and molecular genetics uncovers regulators of synaptic and axonal stability and degeneration in vivo, Thomas M. Wishart, Timothy M. Rooney, Douglas J. Lamont, Ann K. Wright, A. Jennifer Morgon, Mandy Jackson, Marc R. Freeman, and Thomas H. Gillingwater

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Acute genetic manipulation of neuronal activity for the functional dissection of neural circuits-a dream come true for the pioneers of behavioral genetics, Moto Yoshihara and Kei Ito

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Integrative gene regulatory network analysis reveals light-induced regional gene expression phase shift programs in the mouse suprachiasmatic nucleus, Haisun Zhu, Rajanikanth Vadigepalli, Rachel Rafferty, Gregory E. Gonye, David R. Weaver, and James S. Schwaber

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Eaters of the Dead: How Glial Cells Respond to and Engulf Degenerating Axons in the CNS: A Dissertation, Jennifer S. Ziegenfuss

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Distinct molecular pathways mediate glial activation and engulfment of axonal debris after axotomy, Jennifer S. Ziegenfuss, Johnna E. Doherty, and Marc R. Freeman

Publications from 2011

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Glia instruct developmental neuronal remodeling through TGF-beta signaling, Takeshi Awasaki, Ya-ling Huang, Michael B. O'Connor, and Tzumin Lee

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New tools for the analysis of glial cell biology in Drosophila, Takeshi Awasaki and Tzumin Lee

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Wnt signaling during synaptic development and plasticity, Vivian Budnik and Patricia C. Salinas

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Remembering nutrient quality of sugar in Drosophila, Christopher J. Burke and Scott Waddell

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A Drosophila metallophosphoesterase mediates deglycosylation of rhodopsin, Jinguo Cao, Yi Li, Wenjing Xia, Keith Reddig, Wen Hu, Wei Xie, Hong-Sheng Li, and Junhai Han

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Photic resetting and entrainment in CLOCK-deficient mice, Robert Dallmann, Jason P. DeBruyne, and David R. Weaver

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Cellular and Molecular Mechanisms Driving Glial Engulfment of Degenerating Axons: A Dissertation, Johnna E. Doherty

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Tyraminergic G Protein-Coupled Receptors Modulate Locomotion and Navigational Behavior In C. Elegans: A Dissertation, Jamie L. Donnelly

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From synapse to nucleus and back again--communication over distance within neurons, Mike Fainzilber, Vivian Budnik, Rosalind A. Segal, and Michael R. Kreutz

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Invertebrate glia. Introduction, David Featherstone and Marc R. Freeman

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Identification of a Command Neuron Directing the Expression of Feeding Behavior in Drosophila melanogaster: A Dissertation, Thomas F. Flood

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Human cryptochrome exhibits light-dependent magnetosensitivity, Lauren E. Foley, Robert J. Gegear, and Steven M. Reppert

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Sun compass integration of skylight cues in migratory monarch butterflies, Stanley Heinze and Steven M. Reppert

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Bringing fly brains in line, Wolf Huetteroth and Scott Waddell

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Hungry flies tune to vinegar, Wolf Huetteroth and Scott Waddell

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Autoregulatory and Paracrine Control of Synaptic and Behavioral Plasticity by Dual Modes of Octopaminergic Signaling: A Dissertation, Alex C. Koon

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Autoregulatory and paracrine control of synaptic and behavioral plasticity by octopaminergic signaling, Alex C. Koon, James A. Ashley, Romina Barria, Shamik DasGupta, Ruth Brain, Scott Waddell, Mark J. Alkema, and Vivian Budnik

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Drosophila appetitive olfactory conditioning, Michael Jonathan Krashes and Scott Waddell