Fly Labs and References

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Andor Udvardy Institute of Biochemistry, Hungarian Academy of Sciences, Szeged Lipinszki, Z., Klement, E., Hunyadi-Gulyas, E., Medzihradszky, K. F., Markus, R., Pal, M., Deak, P. and Udvardy, A. (2013). A novel interplay between the ubiquitin-proteasome system and serine proteases during Drosophila development. Biochem J. PubMed ID: 23805892 Nagy, O., Pal, M., Udvardy, A., Shirras, C. A., Boros, I., Shirras, A. D. and Deak, P. (2012). lemmingA encodes the Apc11 subunit of the APC/C in Drosophila melanogaster that forms a ternary complex with the E2-C type ubiquitin conjugating enzyme, Vihar and Morula/Apc2. Cell Div 7: 9. PubMed ID: 22417125 Lipinszki, Z., Kovacs, L., Deak, P. and Udvardy, A. (2012). Ubiquitylation of Drosophila p54/Rpn10/S5a regulates its interaction with the UBA-UBL polyubiquitin receptors. Biochemistry 51: 2461-2470. PubMed ID: 22364263 Lipinszki, Z., Pal, M., Nagy, O., Deak, P., Hunyadi-Gulyas, E. and Udvardy, A. (2011). Overexpression of Dsk2/dUbqln results in severe developmental defects and lethality in Drosophila melanogaster that can be rescued by overexpression of the p54/Rpn10/S5a proteasomal subunit. FEBS J 278: 4833-4844. PubMed ID: 21973017 Hitoshi Ueda Molecular Biology, Ikayama University Aly, H., Akagi, K. and Ueda, H. (2018). Proteasome activity determines pupation timing through the degradation speed of timer molecule Blimp-1. Dev Growth Differ 60(8): 502-508. PubMed ID: 30368781 Akagi, K., Sarhan, M., Sultan, A. R., Nishida, H., Koie, A., Nakayama, T. and Ueda, H. (2016). A biological timer in the fat body comprised of Blimp-1, betaFTZ-F1 and Shade regulates pupation timing in Drosophila melanogaster. Development. PubMed ID: 27226323 Doiguchi, M., Nakagawa, T., Imamura, Y., Yoneda, M., Higashi, M., Kubota, K., Yamashita, S., Asahara, H., Iida, M., Fujii, S., Ikura, T., Liu, Z., Nandu, T., Kraus, W. L., Ueda, H. and Ito, T. (2016). SMARCAD1 is an ATP-dependent stimulator of nucleosomal H2A acetylation via CBP, resulting in transcriptional regulation. Sci Rep 6: 20179. PubMed ID: 26888216 Sultan, A. R., Oish, Y. and Ueda, H. (2014). Function of the nuclear receptor FTZ-F1 during the pupal stage in Drosophila melanogaster. Dev Growth Differ [Epub ahead of print]. PubMed ID: 24611773 Akagi, K., Kageyama, Y., Kayashima, Y., Takakura, Y., Hirose, S. and Ueda, H. (2013). The binding of multiple nuclear receptors to a single regulatory region is important for the proper expression of EDG84A in Drosophila melanogaster. J Mol Biol 425: 71-81. PubMed ID: 23137796 Akagi, K. and Ueda, H. (2011). Regulatory mechanisms of ecdysone-inducible Blimp-1 encoding a transcriptional repressor that is important for the prepupal development in Drosophila. Dev Growth Differ 53: 697-703. PubMed ID: 21671917 Ryu Ueda Invertebrate Genetics Laboratory, National Institute of Genetics, Mishima, Shizuoka Kondo, S. and Ueda, R. (2013). Highly Improved Gene Targeting by Germline-Specific Cas9 Expression in Drosophila. Genetics. PubMed ID: 24002648 Aoyama, N., Yamakawa, T., Sasamura, T., Yoshida, Y., Ohori, M., Okubo, H., Iida, E., Sasaki, N., Ueda, R. and Matsuno, K. (2013). Loss- and gain-of-function analyses of vacuolar protein sorting 2 in Notch signaling of Drosophila melanogaster. Genes Genet Syst 88: 45-57. PubMed ID: 23676709 De Graeve, F. M., Van de Bor, V., Ghiglione, C., Cerezo, D., Jouandin, P., Ueda, R., Shashidhara, L. S. and Noselli, S. (2012). Drosophila apc regulates delamination of invasive epithelial clusters. Dev Biol 368: 76-85. PubMed ID: 22627290 Midorikawa, R., Yamamoto-Hino, M., Awano, W., Hinohara, Y., Suzuki, E., Ueda, R. and Goto, S. (2010). Autophagy-dependent rhodopsin degradation prevents retinal degeneration in Drosophila. J Neurosci 30: 10703-10719. PubMed ID: 20702701 Carlos Ueira-Vieira Laboratory of Genetics, Institute of Biotechnology, Federal University of Uberlandia, Brazil. da Costa Silva, J. R., Fujimura, P. T., Batista, L. L., Malta, S. M., Filho, R. M., Silva, M. H., de Souza, A. G., Silva, A. P. M., Borges, L. D. F., Bastos, V. A. F., Cossolin, J. F. S., Serrao, J. E., Bonetti, A. M., Junior, L. C. O. and Ueira-Vieira, C. (2022). Differential gene expression by RNA-seq during Alzheimer's disease-like progression in the Drosophila melanogaster model. Neurosci Res. PubMed ID: 35219723 Malta, S. M., Batista, L. L., Silva, H. C. G., Franco, R. R., Silva, M. H., Rodrigues, T. S., Correia, L. I. V., Martins, M. M., Venturini, G., Espindola, F. S., da Silva, M. V. and Ueira-Vieira, C. (2022). Identification of bioactive peptides from a Brazilian kefir sample, and their anti-Alzheimer potential in Drosophila melanogaster. Sci Rep 12(1): 11065. PubMed ID: 35773306 da Costa Silva, J. R., Fujimura, P. T., Batista, L. L., Malta, S. M., Filho, R. M., Silva, M. H., de Souza, A. G., Silva, A. P. M., Borges, L. D. F., Bastos, V. A. F., Cossolin, J. F. S., Serrao, J. E., Bonetti, A. M., Junior, L. C. O. and Ueira-Vieira, C. (2022). Differential gene expression by RNA-seq during Alzheimer's disease-like progression in the Drosophila melanogaster model. Neurosci Res 180: 1-12. PubMed ID: 35219723 Tadashi Uemura Graduate School of Biostudies, Kyoto Watada, M., Hayashi, Y., Watanabe, K., Mizutani, S., Mure, A., Hattori, Y. and Uemura, T. (2020). Divergence of Drosophila species: longevity and reproduction under different nutrient balances. Genes Cells. PubMed ID: 32594638 Onodera, K., Baba, S., Murakami, A., Uemura, T. and Usui, T. (2017). Small conductance Ca(2+)-activated K(+) channels induce the firing pause periods during the activation of Drosophila nociceptive neurons. Elife 6. PubMed ID: 29035200 Arata, M., Sugimura, K. and Uemura, T. (2017). Difference in Dachsous levels between migrating cells coordinates the direction of collective cell migration. Dev Cell 42(5): 479-497.e410. PubMed ID: 28898677 Tsuyama, T., Tsubouchi, A., Usui, T., Imamura, H. and Uemura, T. (2017). Mitochondrial dysfunction induces dendritic loss via eIF2α phosphorylation. J Cell Biol 216: 815-834. PubMed ID: 28209644 Watanabe, K., Furumizo, Y., Usui, T., Hattori, Y. and Uemura, T. (2016). Nutrient-dependent increased dendritic arborization of somatosensory neurons. Genes Cells [Epub ahead of print]. PubMed ID: 27868313 Terada, S. I., Matsubara, D., Onodera, K., Matsuzaki, M., Uemura, T. and Usui, T. (2016). Neuronal processing of noxious thermal stimuli mediated by dendritic Ca influx in somatosensory neurons. Elife 5. PubMed ID: 26880554 Takayama, Y., Itoh, R. E., Tsuyama, T. and Uemura, T. (2014). Age-dependent deterioration of locomotion in Drosophila melanogaster deficient in the homologue of amyotrophic lateral sclerosis 2. Genes Cells. PubMed ID: 24702731 Shimono, K., Fujishima, K., Nomura, T., Ohashi, M., Usui, T., Kengaku, M., Toyoda, A. and Uemura, T. (2014). An evolutionarily conserved protein CHORD regulates scaling of dendritic arbors with body size. Sci Rep 4: 4415. PubMed ID: 24643112 Hattori, Y., Usui, T., Satoh, D., Moriyama, S., Shimono, K., Itoh, T., Shirahige, K. and Uemura, T. (2013). Sensory-Neuron Subtype-Specific Transcriptional Programs Controlling Dendrite Morphogenesis: Genome-wide Analysis of Abrupt and Knot/Collier. Dev Cell. PubMed ID: 24290980 Mouri, K., Horiuchi, S. Y. and Uemura, T. (2012). Cohesin controls planar cell polarity by regulating the level of the seven-pass transmembrane cadherin Flamingo. Genes Cells 17: 509-524. PubMed ID: 22563761 Kohei Ueno Learning and Memory Project, Tokyo Metropolitan Institute of Medical Science, Japan. Saitoe, M., Naganos, S., Miyashita, T., Matsuno, M. and Ueno, K. (2021). A non-canonical on-demand dopaminergic transmission underlying olfactory aversive learning. Neurosci Res. PubMed ID: 34973292 Ueno, K., Suzuki, E., Naganos, S., Ofusa, K., Horiuchi, J. and Saitoe, M. (2017). Coincident postsynaptic activity gates presynaptic dopamine release to induce plasticity in Drosophila mushroom bodies. Elife 6. PubMed ID: 28117664 Naganos, S., Ueno, K., Horiuchi, J. and Saitoe, M. (2016). Learning defects in Drosophila growth restricted chico mutants are caused by attenuated adenylyl cyclase activity. Mol Brain 9: 37. PubMed ID: 27048332 Mirka Uhlirova Institute for Genetics, University of Cologne, Cologne, Germany. Kulshammer, E., Kilinc, M., Csordas, G., Bresser, T., Nolte, H. and Uhlirova, M. (2022). The mechanosensor Filamin A/Cheerio promotes tumourigenesis via specific interactions with components of the cell cortex. Febs J. PubMed ID: 35191183 Erkelenz, S., Stankovic, D., Mundorf, J., Bresser, T., Claudius, A. K., Boehm, V., Gehring, N. H. and Uhlirova, M. (2021). Ecd promotes U5 snRNP maturation and Prp8 stability. Nucleic Acids Res 49(3): 1688-1707. PubMed ID: 33444449 Csordas, G., Grawe, F. and Uhlirova, M. (2020). Eater cooperates with Multiplexin to drive the formation of hematopoietic compartments. Elife 9. PubMed ID: 33026342 Mundorf, J., Donohoe, C. D., McClure, C. D., Southall, T. D. and Uhlirova, M. (2019). Ets21c Governs Tissue Renewal, Stress Tolerance, and Aging in the Drosophila Intestine. Cell Rep 27(10): 3019-3033 e3015. PubMed ID: 31167145 Mirka Uhlirova Institute for Genetics, University of Cologne Erkelenz, S., Stankovic, D., Mundorf, J., Bresser, T., Claudius, A. K., Boehm, V., Gehring, N. H. and Uhlirova, M. (2021). Ecd promotes U5 snRNP maturation and Prp8 stability. Nucleic Acids Res. PubMed ID: 33444449 Csordas, G., Grawe, F. and Uhlirova, M. (2020). Eater cooperates with Multiplexin to drive the formation of hematopoietic compartments. Elife 9. PubMed ID: 33026342 Stankovic, D., Claudius, A. K., Schertel, T., Bresser, T. and Uhlirova, M. (2020). Drosophila model to study Retinitis pigmentosa pathology associated with mutations in the core splicing factor Prp8. Dis Model Mech. PubMed ID: 32424050 Mundorf, J., Donohoe, C. D., McClure, C. D., Southall, T. D. and Uhlirova, M. (2019). Ets21c Governs Tissue Renewal, Stress Tolerance, and Aging in the Drosophila Intestine. Cell Rep 27(10): 3019-3033.e3015. PubMed ID: 31167145 Donohoe, C. D., Csordas, G., Correia, A., Jindra, M., Klein, C., Habermann, B. and Uhlirova, M. (2018). Atf3 links loss of epithelial polarity to defects in cell differentiation and cytoarchitecture. PLoS Genet 14(3): e1007241. PubMed ID: 29494583 Kulshammer, E., Mundorf, J., Kilinc, M., Frommolt, P., Wagle, P. and Uhlirova, M. (2015). Interplay among Drosophila transcription factors Ets21c, Fos and Ftz-F1 drives JNK-mediated tumor malignancy. Dis Model Mech 8: 1279-1293. PubMed ID: 26398940 Claudius, A. K., Romani, P., Lamkemeyer, T., Jindra, M. and Uhlirova, M. (2014). Unexpected Role of the Steroid-Deficiency Protein Ecdysoneless in Pre-mRNA Splicing. PLoS Genet 10: e1004287. PubMed ID: 24722212 Kulshammer, E. and Uhlirova, M. (2012). The actin cross-linker Filamin/Cheerio mediates tumor malignancy downstream of JNK signaling. J Cell Sci. PubMed ID: 23239028 Rynes, J., Donohoe, C. D., Frommolt, P., Brodesser, S., Jindra, M. and Uhlirova, M. (2012). Activating transcription factor 3 regulates immune and metabolic homeostasis. Mol Cell Biol 32: 3949-3962. PubMed ID: 22851689 Wang, Q., Uhlirova, M. and Bohmann, D. (2010). Spatial restriction of FGF signaling by a matrix metalloprotease controls branching morphogenesis. Dev Cell 18: 157-164. PubMed ID: 20152186 Masato Umeda Department of Synthetic Chemistry and Biological Chemistry, Graduate School of Engineering, Kyoto University, Kyoto, Japan. Murakami, A., Nagao, K., Sakaguchi, R., Kida, K., Hara, Y., Mori, Y., Okabe, K., Harada, Y. and Umeda, M. (2022). Cell-autonomous control of intracellular temperature by unsaturation of phospholipid acyl chains. Cell Rep 38(11): 110487. PubMed ID: 35294880 Suito, T., Nagao, K., Juni, N., Hara, Y., Sokabe, T., Atomi, H. and Umeda, M. (2022). Regulation of thermoregulatory behavior by commensal bacteria in Drosophila. Biosci Biotechnol Biochem 86(8): 1060-1070. PubMed ID: 35671161 Murakami, A., Nagao, K., Sakaguchi, R., Kida, K., Hara, Y., Mori, Y., Okabe, K., Harada, Y. and Umeda, M. (2022). Cell-autonomous control of intracellular temperature by unsaturation of phospholipid acyl chains. Cell Rep 38(11): 110487. PubMed ID: 35294880 Shiomi, A., Nagao, K., Yokota, N., Tsuchiya, M., Kato, U., Juni, N., Hara, Y., Mori, M. X., Mori, Y., Ui-Tei, K., Murate, M., Kobayashi, T., Nishino, Y., Miyazawa, A., Yamamoto, A., Suzuki, R., Kaufmann, S., Tanaka, M., Tatsumi, K., Nakabe, K., Shintaku, H., Yesylevsky, S., Bogdanov, M. and Umeda, M. (2021). Extreme deformability of insect cell membranes is governed by phospholipid scrambling. Cell Rep 35(10): 109219. PubMed ID: 34107250 Daiki Umetsu Graduate School of Life Sciences, Tohuku University, Sendai, Japan Iijima, N., Sato, K., Kuranaga, E. and Umetsu, D. (2020). Differential cell adhesion implemented by Drosophila Toll corrects local distortions of the anterior-posterior compartment boundary. Nat Commun 11(1): 6320. PubMed ID: 33303753 Hoshika, S., Sun, X., Kuranaga, E. and Umetsu, D. (2020). Reduction of endocytic activity accelerates cell elimination during tissue remodeling of the Drosophila epidermal epithelium. Development. PubMed ID: 32156754 Tsuboi, A., Ohsawa, S., Umetsu, D., Sando, Y., Kuranaga, E., Igaki, T. and Fujimoto, K. (2018). Competition for Space Is Controlled by Apoptosis-Induced Change of Local Epithelial Topology. Curr Biol 28(13): 2115-2128 e2115. PubMed ID: 29910075 Tsuboi, A., Umetsu, D., Kuranaga, E. and Fujimoto, K. (2017). Inference of Cell Mechanics in Heterogeneous Epithelial Tissue Based on Multivariate Clone Shape Quantification. Front Cell Dev Biol 5: 68. PubMed ID: 28824908 Umetsu, D. and Kuranaga, E. (2017). Planar polarized contractile actomyosin networks in dynamic tissue morphogenesis. Curr Opin Genet Dev 45: 90-96. PubMed ID: 28419933 Rudolf, K., Umetsu, D., Aliee, M., Sui, L., Julicher, F. and Dahmann, C. (2015). A local difference in Hedgehog signal transduction increases mechanical cell bond tension and biases cell intercalations along the Drosophila anteroposterior compartment boundary. Development 142(22): 3845-3858. PubMed ID: 26577205 Robert Unckless Department of Molecular Biosciences, University of Kansas, Lawrence Chapman, J. R., Hill, T. and Unckless, R. L. (2019). Balancing selection drives the maintenance of genetic variation in Drosophila antimicrobial peptides. Genome Biol Evol. PubMed ID: 31504505 Akhund-Zade, J., Bergland, A. O., Crowe, S. O. and Unckless, R. L. (2016). The genetic basis of natural variation in Drosophila (Diptera: Drosophilidae) virgin egg retention. J Insect Sci [Epub ahead of print]. PubMed ID: 28042107 Unckless, R. L., Howick, V. M. and Lazzaro, B. P. (2016). Convergent Balancing Selection on an Antimicrobial Peptide in Drosophila. Curr Biol 26(2): 257-262. PubMed ID: 26776733 Unckless, R. L., Rottschaefer, S. M. and Lazzaro, B. P. (2015). The complex contributions of genetics and nutrition to immunity in Drosophila melanogaster. PLoS Genet 11(3): e1005030. PubMed ID: 25764027 Rolf Urbach Institut für Genetik, Johannes Gutenberg Universität Mainz Jussen, D., von Hilchen, J. and Urbach, R. (2016). Genetic regulation and function of epidermal growth factor receptor signalling in patterning of the embryonic Drosophila brain. Open Biol 6(12). PubMed ID: 27974623 Kraft, K.F., Massey, E.M., Kolb, D., Walldorf, U. and Urbach, R. (2016). Retinal homeobox promotes cell growth, proliferation and survival of mushroom body neuroblasts in the Drosophila brain. Mech Dev [Epub ahead of print]. PubMed ID: 27455861 Kraft, K. F. and Urbach, R. (2014). Analysis of Complete Neuroblast Cell Lineages in the Drosophila Embryonic Brain via DiI Labeling. Methods Mol Biol 1082: 37-56. PubMed ID: 24048925 Jussen, D. and Urbach, R. (2014). Non-fluorescent RNA In Situ Hybridization Combined with Antibody Staining to Visualize Multiple Gene Expression Patterns in the Embryonic Brain of Drosophila. Methods Mol Biol 1082: 19-35. PubMed ID: 24048924 Birkholz, O., Rickert, C., Berger, C., Urbach, R., Technau, G. M. (2013) Neuroblast pattern and identity in the Drosophila tail region and role of doublesex in the survival of sex-specific precursors. Development 140: 1830-1842. PubMed ID: 23533181 Kunz, T., Kraft, K. F., Technau, G. M. and Urbach, R. (2012). Origin of Drosophila mushroom body neuroblasts and generation of divergent embryonic lineages. Development 139: 2510-2522. PubMed ID: 22675205 Seibert, J. and Urbach, R. (2010). Role of en and novel interactions between msh, ind, and vnd in dorsoventral patterning of the Drosophila brain and ventral nerve cord. Dev Biol 346: 332-345. PubMed ID: 20673828 Seibert, J., Volland, D. and Urbach, R. (2009). Ems and Nkx6 are central regulators in dorsoventral patterning of the Drosophila brain. Development 136: 3937-3947. PubMed ID: 19906861

This listing of Fly Labs and References is a work in progress. Please contact Tom Brody ([email protected]) with your suggestions or corrections.

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