Comparative RNAi screening identifies a conserved core metazoan actinome by phenotype

RNAi screens in Drosophila and human cells for novel actin regulators revealed conserved roles for proteins involved in nuclear actin export, RNA splicing, and ubiquitination.

[1]  M. Vartiainen,et al.  Nuclear actin dynamics – From form to function , 2008, FEBS letters.

[2]  H. Handa,et al.  Drosophila FACT contributes to Hox gene expression through physical and functional interactions with GAGA factor. , 2003, Genes & development.

[3]  Norbert Perrimon,et al.  Parallel Chemical Genetic and Genome-Wide RNAi Screens Identify Cytokinesis Inhibitors and Targets , 2004, PLoS biology.

[4]  P. Wade,et al.  Paf1p, an RNA polymerase II-associated factor in Saccharomyces cerevisiae, may have both positive and negative roles in transcription , 1996, Molecular and cellular biology.

[5]  A. Genevière,et al.  A new subfamily of high molecular mass CDC2-related kinases with PITAI/VRE motifs. , 2000, Biochemical and biophysical research communications.

[6]  P. Wappner,et al.  Occurrence of a putative SCF ubiquitin ligase complex in Drosophila. , 2001, Biochemical and biophysical research communications.

[7]  A. Genevière,et al.  CDK13/CDC2L5 interacts with L-type cyclins and regulates alternative splicing. , 2007, Biochemical and biophysical research communications.

[8]  Nir Hacohen,et al.  Minimizing the risk of reporting false positives in large-scale RNAi screens , 2006, Nature Methods.

[9]  F. Giancotti,et al.  Merlin/NF-2 mediates contact inhibition of growth by suppressing recruitment of Rac to the plasma membrane , 2005, The Journal of cell biology.

[10]  F. Cvrčková,et al.  Evolutionarily conserved modules in actin nucleation: lessons from Dictyostelium discoideum and plants , 2004, Protoplasma.

[11]  E. Derivery,et al.  Free Brick1 Is a Trimeric Precursor in the Assembly of a Functional Wave Complex , 2008, PloS one.

[12]  Jonathan A. Cooper,et al.  Merlin/NF2 Suppresses Tumorigenesis by Inhibiting the E3 Ubiquitin Ligase CRL4DCAF1 in the Nucleus , 2010, Cell.

[13]  T. Jacks,et al.  The Nf2 tumor suppressor, merlin, functions in Rac-dependent signaling. , 2001, Developmental cell.

[14]  Bassem A. Hassan,et al.  JCB: REPORT , 2009 .

[15]  A. Guichet,et al.  Overexpression of Partner of Numb Induces Asymmetric Distribution of the PI4P 5-Kinase Skittles in Mitotic Sensory Organ Precursor Cells in Drosophila , 2008, PloS one.

[16]  Steven E Brenner,et al.  Genome-wide analysis reveals an unexpected function for the Drosophila splicing factor U2AF50 in the nuclear export of intronless mRNAs. , 2004, Molecular cell.

[17]  I. Cózar-Castellano,et al.  hIscA: a protein implicated in the biogenesis of iron-sulfur clusters. , 2004, Biochimica et biophysica acta.

[18]  J. Ahringer,et al.  Cell Polarity in Eggs and Epithelia: Parallels and Diversity , 2010, Cell.

[19]  N. Barbosa-Morais,et al.  Diversity of human U2AF splicing factors , 2006, The FEBS journal.

[20]  M. Bissell,et al.  Depletion of nuclear actin is a key mediator of quiescence in epithelial cells , 2011, Journal of Cell Science.

[21]  Norbert Perrimon,et al.  Matter Arising: Off-Targets and Genome-Scale RNAi Screens in Drosophila , 2007, Fly.

[22]  Thomas D. Pollard,et al.  Actin, a Central Player in Cell Shape and Movement , 2009, Science.

[23]  R. Vale,et al.  Molecular requirements for actin-based lamella formation in Drosophila S2 cells , 2003, The Journal of cell biology.

[24]  E. Kremmer,et al.  Formin-like 1 (FMNL1) Is Regulated by N-terminal Myristoylation and Induces Polarized Membrane Blebbing* , 2009, The Journal of Biological Chemistry.

[25]  B. Baum,et al.  PDGF/VEGF signaling controls cell size in Drosophila , 2009, Genome Biology.

[26]  A. Coulson,et al.  A functional genomic analysis of cell morphology using RNA interference , 2003, Journal of biology.

[27]  A. Ishimoto,et al.  Identification and Characterization of a Novel Line ofDrosophila Schneider S2 Cells That Respond to Wingless Signaling* , 1998, The Journal of Biological Chemistry.

[28]  Jean-Paul Vincent,et al.  Characterization of the interface between normal and transformed epithelial cells , 2009, Nature Cell Biology.

[29]  Y. Even,et al.  CDC2L5, a Cdk‐like kinase with RS domain, interacts with the ASF/SF2‐associated protein p32 and affects splicing in vivo , 2006, Journal of cellular biochemistry.

[30]  W. Simonds,et al.  The parafibromin tumor suppressor protein interacts with actin-binding proteins actinin-2 and actinin-3 , 2008, Molecular Cancer.

[31]  C. Bakal,et al.  Quantitative Morphological Signatures Define Local Signaling Networks Regulating Cell Morphology , 2007, Science.

[32]  G. Draetta,et al.  Characterization of the BUD31 gene of Saccharomyces cerevisiae. , 2004, Biochemical and biophysical research communications.

[33]  D. Gutmann,et al.  Research updateMerlin: hanging tumor suppression on the Rac , 2001 .

[34]  P. Kubes,et al.  Integrin-induced PIP5K1C kinase polarization regulates neutrophil polarization, directionality, and in vivo infiltration. , 2010, Immunity.

[35]  H. Higgs,et al.  Bi-modal Regulation of a Formin by srGAP2* , 2010, The Journal of Biological Chemistry.

[36]  Kari-Pekka Skarp,et al.  Actin on DNA—An ancient and dynamic relationship , 2010, Cytoskeleton.

[37]  Cornelia Schönbauer,et al.  Systematic genetic analysis of muscle morphogenesis and function in Drosophila , 2010, Nature.

[38]  S. Gygi,et al.  Purification and architecture of the ubiquitous Wave complex. , 2004, Proceedings of the National Academy of Sciences of the United States of America.

[39]  M. Katoh,et al.  Identification and characterization of human FMNL1, FMNL2 and FMNL3 genes in silico. , 2003, International journal of oncology.

[40]  J. Rohn,et al.  Tao-1 is a negative regulator of microtubule plus-end growth , 2010, Journal of Cell Science.

[41]  U. Hoffmann‐Rohrer,et al.  Nuclear myosin I acts in concert with polymeric actin to drive RNA polymerase I transcription. , 2008, Genes & development.

[42]  P. Janmey,et al.  Phosphoinositide regulation of the actin cytoskeleton. , 2003, Annual review of physiology.

[43]  A. Shilatifard,et al.  Parafibromin, a Component of the Human PAF Complex, Regulates Growth Factors and Is Required for Embryonic Development and Survival in Adult Mice , 2008, Molecular and Cellular Biology.

[44]  I. Gibbons,et al.  A family of dynein genes in Drosophila melanogaster. , 1994, Molecular biology of the cell.

[45]  A. Coulson,et al.  Full-genome RNAi profiling of early embryogenesis in Caenorhabditis elegans , 2005, Nature.

[46]  F. Schöck,et al.  Zasp is required for the assembly of functional integrin adhesion sites , 2007, The Journal of cell biology.

[47]  M. Pagano,et al.  Deregulated proteolysis by the F-box proteins SKP2 and β-TrCP: tipping the scales of cancer , 2008, Nature Reviews Cancer.

[48]  Cheng-Ting Chien,et al.  Distinct protein degradation mechanisms mediated by Cul1 and Cul3 controlling Ci stability in Drosophila eye development. , 2002, Genes & development.

[49]  M. Noureddine,et al.  Targeted disruption of Drosophila Roc1b reveals functional differences in the Roc subunit of Cullin-dependent E3 ubiquitin ligases. , 2004, Molecular biology of the cell.

[50]  P. O’Farrell,et al.  Terminal Cytokinesis Events Uncovered after an RNAi Screen , 2004, Current Biology.

[51]  M. Eck,et al.  Mechanism and function of formins in the control of actin assembly. , 2007, Annual review of biochemistry.

[52]  G. de Vries,et al.  Nucleoplasmic β-actin exists in a dynamic equilibrium between low-mobility polymeric species and rapidly diffusing populations , 2006, The Journal of cell biology.

[53]  G. Orphanides,et al.  FACT Facilitates Transcription-Dependent Nucleosome Alteration , 2003, Science.

[54]  E. Hartmann,et al.  Exportin 6: a novel nuclear export receptor that is specific for profilin·actin complexes , 2003, The EMBO journal.

[55]  Kozo Kaibuchi,et al.  [Neuronal polarity]. , 2008, Tanpakushitsu kakusan koso. Protein, nucleic acid, enzyme.

[56]  Andrea Disanza,et al.  Abi1 is essential for the formation and activation of a WAVE2 signalling complex , 2004, Nature Cell Biology.

[57]  J. Testa,et al.  p21-activated Kinase Links Rac/Cdc42 Signaling to Merlin* , 2002, The Journal of Biological Chemistry.

[58]  C. Bakal,et al.  Genomic screening with RNAi: results and challenges. , 2010, Annual review of biochemistry.

[59]  G. Gabbiani,et al.  The role of cytoskeletal and cytocontractile elements in pathologic processes. , 1983, The American journal of pathology.

[60]  Cheng-Ting Chien,et al.  F-box proteins: the key to protein degradation. , 2006, Journal of biomedical science.

[61]  T. Bergman,et al.  Nuclear actin is associated with a specific subset of hnRNP A/B-type proteins. , 2002, Nucleic acids research.

[62]  D. Gutmann,et al.  Merlin: hanging tumor suppression on the Rac. , 2001, Trends in cell biology.

[63]  M. Noureddine,et al.  Drosophila Roc1a encodes a RING-H2 protein with a unique function in processing the Hh signal transducer Ci by the SCF E3 ubiquitin ligase. , 2002, Developmental cell.

[64]  R. Deshaies SCF and Cullin/Ring H2-based ubiquitin ligases. , 1999, Annual review of cell and developmental biology.

[65]  S. M. Abmayr,et al.  Asymmetric Mbc, active Rac1 and F-actin foci in the fusion-competent myoblasts during myoblast fusion in Drosophila , 2011, Development.

[66]  J. Gurdon,et al.  Nuclear actin polymerization is required for transcriptional reprogramming of Oct4 by oocytes. , 2011, Genes & development.

[67]  G. Struhl,et al.  Regulation of the Hedgehog and Wingless signalling pathways by the F-box/WD40-repeat protein Slimb , 1998, Nature.

[68]  M. Boutros,et al.  Clustering phenotype populations by genome-wide RNAi and multiparametric imaging , 2010, Molecular systems biology.

[69]  Dennis J. Hazelett,et al.  act up Controls Actin Polymerization to Alter Cell Shape and Restrict Hedgehog Signaling in the Drosophila Eye Disc , 2000, Cell.

[70]  Thomas D Pollard,et al.  Regulation of actin filament assembly by Arp2/3 complex and formins. , 2007, Annual review of biophysics and biomolecular structure.

[71]  J. Carpten,et al.  HRPT2, encoding parafibromin, is mutated in hyperparathyroidism–jaw tumor syndrome , 2002, Nature Genetics.

[72]  Subra Suresh,et al.  Shape and Biomechanical Characteristics of Human Red Blood Cells in Health and Disease , 2010, MRS bulletin.

[73]  N. Perrimon,et al.  A cyclase-associated protein regulates actin and cell polarity during Drosophila oogenesis and in yeast , 2000, Current Biology.

[74]  N. Loh,et al.  Parafibromin is a nuclear protein with a functional monopartite nuclear localization signal , 2007, Oncogene.

[75]  J. Rohn,et al.  Actin and cellular architecture at a glance , 2010, Journal of Cell Science.

[76]  M. Giovannini,et al.  Merlin/neurofibromatosis type 2 suppresses growth by inhibiting the activation of Ras and Rac. , 2007, Cancer research.

[77]  J. Chen,et al.  VprBP targets Merlin to the Roc1-Cul4A-DDB1 E3 ligase complex for degradation , 2008, Oncogene.

[78]  B. Baum,et al.  Abi, Sra1, and Kette Control the Stability and Localization of SCAR/WAVE to Regulate the Formation of Actin-Based Protrusions , 2003, Current Biology.

[79]  W. Welch,et al.  Morphological study of the mammalian stress response: characterization of changes in cytoplasmic organelles, cytoskeleton, and nucleoli, and appearance of intranuclear actin filaments in rat fibroblasts after heat-shock treatment , 1985, The Journal of cell biology.

[80]  S. Blystone,et al.  The formin FRL1 (FMNL1) is an essential component of macrophage podosomes , 2010, Cytoskeleton.

[81]  N. Perrimon,et al.  High-throughput RNAi screening in cultured cells: a user's guide , 2006, Nature Reviews Genetics.

[82]  R. Berro,et al.  CDK13, a New Potential Human Immunodeficiency Virus Type 1 Inhibitory Factor Regulating Viral mRNA Splicing , 2008, Journal of Virology.

[83]  David Sims,et al.  FLIGHT: database and tools for the integration and cross-correlation of large-scale RNAi phenotypic datasets , 2005, Nucleic Acids Res..

[84]  R. Duronio,et al.  Identifying Determinants of Cullin Binding Specificity Among the Three Functionally Different Drosophila melanogaster Roc Proteins via Domain Swapping , 2008, PloS one.

[85]  A. Guichet,et al.  Phosphatidylinositol 4,5-bisphosphate Directs Spermatid Cell Polarity and Exocyst Localization in Drosophila , 2010, Molecular biology of the cell.

[86]  T. Lecuit,et al.  Cell surface mechanics and the control of cell shape, tissue patterns and morphogenesis , 2007, Nature Reviews Molecular Cell Biology.

[87]  A. Kiger,et al.  Pak3 inhibits local actin filament formation to regulate global cell polarity , 2009, HFSP journal.

[88]  J. Jaehning,et al.  The Paf1 complex: platform or player in RNA polymerase II transcription? , 2010, Biochimica et biophysica acta.

[89]  D. Barbash,et al.  Functioning of the Drosophila integral U1/U2 protein Snf independent of U1 and U2 small nuclear ribonucleoprotein particles is revealed by snf(+) gene dose effects. , 1999, Proceedings of the National Academy of Sciences of the United States of America.

[90]  E. Derivery,et al.  Clathrin is required for Scar/Wave-mediated lamellipodium formation , 2011, Journal of Cell Science.

[91]  R. A. Igal Stearoyl-CoA desaturase-1: a novel key player in the mechanisms of cell proliferation, programmed cell death and transformation to cancer. , 2010, Carcinogenesis.