Research Topics
Species | Richard MannSummaryAffiliation: Columbia University Country: USA Publications
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Publications
Extra specificity from extradenticle: the partnership between HOX and PBX/EXD homeodomain proteinsR S Mann
Department of Biochemistry and Molecular Biophysics, Columbia University, NY 10032, USA
Trends Genet 12:258-62. 1996....- Why are Hox genes clustered?R S Mann
Department of Biochemistry and Molecular Biophysics, Columbia University College of Physicians and Surgeons, New York, NY 10032, USA
Bioessays 19:661-4. 1997..Moreover, characterizing the activity of one of these mouse enhancers in Drosophila illustrates that despite many similarities, not all Hox clusters are built in the same way... - The developmental and molecular biology of genes that subdivide the body of DrosophilaR S Mann
Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, 701 West 168th Street, New York 10032, USA
Annu Rev Cell Dev Biol 16:243-71. 2000..Finally, we discuss experiments that address the molecular mechanisms by which selector and selector-like gene products function in the fly... - Molecular mechanisms of selector gene function and evolutionRichard S Mann
Department of Biochemistry and Molecular Biophysics, Columbia University, New York, New York 10032, USA
Curr Opin Genet Dev 12:592-600. 2002..Elucidation of the architecture of selector-regulated target gene enhancers and gene networks, and comparative studies of selector protein function are providing important insights into the evolution of development and morphology... 
Dissecting the functional specificities of two Hox proteinsRohit Joshi
Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, New York 10032, USA
Genes Dev 24:1533-45. 2010....- jing is required for wing development and to establish the proximo-distal axis of the leg in Drosophila melanogasterJoaquim Culi
Department of Biochemistry and Molecular Biophysics, Columbia University, New York, New York 10032, USA
Genetics 173:255-66. 2006..Together, our data suggest that jing encodes a transcriptional repressor that may participate in a subset of Pc-dependent activities during Drosophila appendage development... - Distinct functions of homeodomain-containing and homeodomain-less isoforms encoded by homothoraxBarbara Noro
Department of Biochemistry and Molecular Biophysics, Columbia University, New York, New York 10032, USA
Genes Dev 20:1636-50. 2006..We further demonstrate that the mouse ortholog of hth, Meis1, also encodes a HDless isoform, suggesting that homeodomain-less variants of this gene family are evolutionarily ancient... - A balance between two nuclear localization sequences and a nuclear export sequence governs extradenticle subcellular localizationKatherine E Stevens
Department of Genetics and Development, Columbia University, New York, New York 10032, USA
Genetics 175:1625-36. 2007..Surprisingly, although these Exd forms are functional, they do not phenocopy Hth overexpression. These findings suggest that Hth is required for Exd activity, not simply for inducing its nuclear localization... - Hox control of organ size by regulation of morphogen production and mobilityMichael A Crickmore
Department of Biological Sciences, Columbia University, New York, NY 10027, USA
Science 313:63-8. 2006..Because morphogens control tissue growth in many contexts, these findings provide a potentially general mechanism for how selector genes modify organ sizes... - Non-redundant selector and growth-promoting functions of two sister genes, buttonhead and Sp1, in Drosophila leg developmentCarlos Estella
Department of Biochemistry and Molecular Biophysics, Columbia University, New York, New York, United States of America
PLoS Genet 6:e1001001. 2010..These observations suggest that an ancient Sp8/Dlx gene cassette was used in an early metazoan for primitive limb-like outgrowths and that this cassette was co-opted multiple times for appendage formation in multiple animal phyla... - Lozenge directly activates argos and klumpfuss to regulate programmed cell deathJill Wildonger
Center for Neurobiology and Behavior, Howard Hughes Medical Institute, Columbia University Medical School, New York, NY 10032, USA
Genes Dev 19:1034-9. 2005..These results provide novel insights into the control of programmed cell death (PCD) by Lz during Drosophila eye development... - Differing strategies for the establishment and maintenance of teashirt and homothorax repression in the Drosophila wingJonathan D Zirin
Department of Biological Sciences, Columbia University, 701 West 168th Street, HHSC 1104, New York, NY 10032, USA
Development 131:5683-93. 2004..Thus, despite their overall similar expression patterns, tsh and hth repression in the wing disc is controlled by two very different mechanisms... - Direct integration of Hox and segmentation gene inputs during Drosophila developmentBrian Gebelein
Department of Biochemistry and Molecular Biophysics and Center for Neurobiology and Behavior, Columbia University, 701 West 168th Street, HHSC 1104, New York, New York 10032, USA
Nature 431:653-9. 2004..Our results suggest that these two classes of proteins may collaborate to directly control gene expression at many downstream target genes... - The origins of the Drosophila leg revealed by the cis-regulatory architecture of the Distalless geneDaniel J Mckay
Department of Biochemistry and Molecular Biophysics, Integrated Program in Cellular, Molecular, Structural and Genetic Studies, Columbia University, 701 W 168th Street, HHSC 1104, New York, NY 10032, USA
Development 136:61-71. 2009..Together, these findings provide a complete and high-resolution fate map of the Drosophila appendage primordia, linking the primary domains to specific cis-regulatory elements in Dll... - Requirement for two nearly identical TGIF-related homeobox genes in Drosophila spermatogenesisZhaohui Wang
Department of Biochemistry and Molecular Biophysics, Columbia University, 701 West 168th Street, HHSC 1104, New York, NY 10032, USA
Development 130:2853-65. 2003.... - Transcription factor choice in the Hippo signaling pathway: homothorax and yorkie regulation of the microRNA bantam in the progenitor domain of the Drosophila eye imaginal discH Wayne Peng
Department of Biochemistry and Molecular Biophysics, Columbia University Medical Center, New York, New York 10032, USA
Genes Dev 23:2307-19. 2009..In the eye disc, Hth and Tsh provide spatial information to this pathway, promoting cell proliferation and survival in the progenitor domain... - Specificity of Distalless repression and limb primordia development by abdominal Hox proteinsBrian Gebelein
Department of Biochemistry and Molecular Biophysics, Columbia University, 701 West 168th Street, HHSC 1104, New York, NY 10032, USA
Dev Cell 3:487-98. 2002..Instead, an additional alternatively spliced domain in Ubx is required for Distalless repression but not DNA binding. Thus, the functional specificities of Hox proteins depend on both DNA binding-dependent and -independent mechanisms... - Logic of Wg and Dpp induction of distal and medial fates in the Drosophila legCarlos Estella
Department of Biochemistry and Molecular Biophysics, Columbia University, 701 West 168th Street, HHSC 1104, New York, NY 10032, USA
Development 135:627-36. 2008..Based on these results, we present a model for how Dpp and Wg, which are present as dorsal and ventral gradients, respectively, induce nearly circular domains of gene expression along the PD axis... - Hox specificity unique roles for cofactors and collaboratorsRichard S Mann
Department of Biochemistry and Molecular Biophysics, Columbia University, New York, NY, USA
Curr Top Dev Biol 88:63-101. 2009.... - Nubbin and Teashirt mark barriers to clonal growth along the proximal-distal axis of the Drosophila wingJonathan D Zirin
Department of Biological Sciences, Columbia University, 701 West 168th Street, HHSC 1104, New York, NY 10032, USA
Dev Biol 304:745-58. 2007..Thus, like the vein/intervein divisions of the wing and mammalian rhombomeres, the Nub and Tsh domains share some of the attributes of classical compartments, but lack their stringent and immobile boundaries... - Regulation of Ubx expression by epigenetic enhancer silencing in response to Ubx levels and genetic variationMichael A Crickmore
Department of Biological Sciences, Columbia University, New York, New York, United States of America
PLoS Genet 5:e1000633. 2009..Together, these findings suggest that enhancer silencing may be used to maintain gene product levels within the correct range in response to natural genetic variation... - Functional specificity of a Hox protein mediated by the recognition of minor groove structureRohit Joshi
Department of Biochemistry and Molecular Biophysics, Columbia University, HHSC 1104, New York, NY 10032, USA
Cell 131:530-43. 2007..Our results suggest that these residues, which are conserved in a paralog-specific manner, confer specificity by recognizing a sequence-dependent DNA structure instead of directly reading a specific DNA sequence... - Target Explorer: An automated tool for the identification of new target genes for a specified set of transcription factorsAlona Sosinsky
Department of Biochemistry and Molecular Biophysics, Columbia University College of Physicians and Surgeons, New York, USA
Nucleic Acids Res 31:3589-92. 2003..It was specifically designed for the well-annotated Drosophila melanogaster genome, but most options can be used for sequences from other genomes as well. Target Explorer is available at http://trantor.bioc.columbia.edu/Target_Explorer/.. - Evidence that nervy, the Drosophila homolog of ETO/MTG8, promotes mechanosensory organ development by enhancing Notch signalingJill Wildonger
Center for Neurobiology and Behavior, Columbia University College of Physicians and Surgeons, New York, NY 10032, USA
Dev Biol 286:507-20. 2005..We propose a model in which nvy acts downstream of ac and sc to promote the SOP fate by transiently strengthening the Dl signal emanating from the SOP... - A piggyBac transposon gene trap for the analysis of gene expression and function in DrosophilaChristopher P Bonin
Department of Biochemistry and Molecular Biophysics, Columbia University, New York, New York 10032, USA
Genetics 167:1801-11. 2004..These experiments highlight the utility of the PBss system for expanding the functional genomics tools that are available in Drosophila... - Boca, an endoplasmic reticulum protein required for wingless signaling and trafficking of LDL receptor family members in DrosophilaJoaquim Culi
Department of Biochemistry and Molecular Biophysics, Center for Neurobiology and Behavior, Columbia University, 701 West 168th Street, HHSC 1104, New York, NY 10032, USA
Cell 112:343-54. 2003..Consequently, boca is an essential component of the Wingless pathway but is more generally required for the activities of multiple LDL receptor family members... - The t(8;21) translocation converts AML1 into a constitutive transcriptional repressorJill Wildonger
Center for Neurobiology and Behavior, Columbia University Medical School, New York, NY 10032, USA
Development 132:2263-72. 2005..Instead, our data suggest that AML1-ETO acts as a constitutive transcriptional repressor... - Electrostatic interactions between arginines and the minor groove in the nucleosomeSean M West
Howard Hughes Medical Institute, Center for Computational Biology and Bioinformatics, Department of Biochemistry and Molecular Biophysics, Columbia University, 1130 St Nicholas Avenue, New York, NY 10032, USA
J Biomol Struct Dyn 27:861-6. 2010..Our results extend and generalize our previous observation that the interaction of arginines with narrow minor grooves plays an important role in stabilizing the deformed DNA in the nucleosome... - Origins of specificity in protein-DNA recognitionRemo Rohs
Howard Hughes Medical Institute, Center for Computational Biology and Bioinformatics, Columbia University, New York, NY 10032, USA
Annu Rev Biochem 79:233-69. 2010.... 
A new chisel for sculpting Darwin's endless formsMichael Crickmore
Laboratory of Neurogenetics and Behavior, The Rockefeller University, New York, New York, USA
Nat Cell Biol 12:528-9. 2010..Pentagone has been identified as a secreted factor that controls the distribution of the morphogen Decapentaplegic (Dpp) in the Drosophila melanogaster wing...- Lineage and birth date specify motor neuron targeting and dendritic architecture in adult DrosophilaMyungin Baek
Department of Biological Sciences, Columbia University, New York, New York 10032, USA
J Neurosci 29:6904-16. 2009..Thus, although Drosophila uses a lineage-based method to generate leg motor neurons, individual lineages are not dedicated to generate neurons that target a single leg segment or muscle type... - The role of DNA shape in protein-DNA recognitionRemo Rohs
Howard Hughes Medical Institute, Center for Computational Biology and Bioinformatics, Department of Biochemistry and Molecular Biophysics, Columbia University, 1130 Saint Nicholas Avenue, New York, New York 10032, USA
Nature 461:1248-53. 2009.... - The control of size in animals: insights from selector genesMichael A Crickmore
Laboratory of Neurogenetics and Behavior, The Rockefeller University, New York, NY, USA
Bioessays 30:843-53. 2008..We integrate these results with other pathways known to regulate organ size in developing a comprehensive model for organ size control... - Molecular integration of wingless, decapentaplegic, and autoregulatory inputs into Distalless during Drosophila leg developmentCarlos Estella
Department of Biochemistry and Molecular Biophysics, Columbia University, New York, NY 10032, USA
Dev Cell 14:86-96. 2008..The "trigger-maintenance" model describes a mechanism by which secreted morphogens act combinatorially to induce the stable expression of target genes... - Boca-dependent maturation of beta-propeller/EGF modules in low-density lipoprotein receptor proteinsJoaquim Culi
Department of Biochemistry and Molecular Biophysics, Columbia University, New York, NY 10032, USA
EMBO J 23:1372-80. 2004..We also show that Boca-dependent beta-propeller/EGF modules are found not only throughout the LDLR family but also in the precursor to the mammalian EGF ligand... - Hox control of morphogen mobility and organ development through regulation of glypican expressionMichael A Crickmore
Department of Biological Sciences, Columbia University, New York, NY 10027, USA
Development 134:327-34. 2007..Our results suggest that Dpp mobility is biased towards cells with higher levels of Dally and that selector genes modulate organ development by regulating glypican levels... - A lexicon for homeodomain-DNA recognitionMarkus Affolter
Growth and Development, Biozentrum der Universitat Basel, Klingelbergstrasse 70, CH 4056 Basel, Switzerland
Cell 133:1133-5. 2008..2008) provides individual specificities for nearly all Drosophila and mouse homeodomains, key DNA-binding domains in many transcription factors. The data underscore the complexity of determining target specificities in vivo... - Comment on "Nervy links protein kinase A to plexin-mediated semaphorin repulsion"Ryan J Ice
Department of Biochemistry, Vanderbilt University School of Medicine, Nashville, TN 37232, USA
Science 309:558; author reply 558. 2005 - Two Pax are better than oneRichard S Mann
Nat Genet 36:10-1. 2004 - Engrailed cooperates with extradenticle and homothorax to repress target genes in DrosophilaMasatomo Kobayashi
Department of Microbiology and Immunology, Kimmel Cancer Institute, Thomas Jefferson University, Philadelphia, PA 19107, USA
Development 130:741-51. 2003..These studies expand the functional requirements for extradenticle and homothorax beyond the Hox proteins to a larger family of non-Hox homeodomain proteins... - Compartmental modulation of abdominal Hox expression by engrailed and sloppy-paired patterns the fly ectodermBrian Gebelein
Division of Developmental Biology, Cincinnati Children s Hospital, 3333 Burnet Ave, MLC 7007, Cincinnati, OH 45229, USA
Dev Biol 308:593-605. 2007.... - Combinatorial control of Drosophila eye development by eyeless, homothorax, and teashirtJose Bessa
Instituto de Biologia Molecular e Celular IBMC, 4150 180 Porto, Portugal
Genes Dev 16:2415-27. 2002..A key step in the transition from an immature proliferative state to a committed state in eye development is the repression of hth by the BMP-4 homolog Decapentaplegic (Dpp)... - Discovering transcriptional regulatory regions in Drosophila by a nonalignment method for phylogenetic footprintingAlona Sosinsky
Howard Hughes Medical Institute, Columbia University, New York, NY 10032, USA
Proc Natl Acad Sci U S A 104:6305-10. 2007..Our results demonstrate that comparative genomic analysis of multiple closely related species has substantial power to identify key functional elements without additional biological knowledge... - Developmental biology: signalling legaciesRichard S Mann
Nature 418:737-9. 2002 - Developmental biology: morphogens hitch a greasy rideRichard S Mann
Nature 435:30-3. 2005
Research Grants
- Development and function of an adult locomotion circuit in DrosophilaRichard S Mann; Fiscal Year: 2010....
- Proximo-distal patterning in the Drosophila appendagesRichard Mann; Fiscal Year: 2006..An understanding of their basic functions in fly development should therefore generate information that is relevant to leukemia, as well as to defects that can occur in vertebrate limb development. ..
- MOLECULAR GENETICS OF SEGMENT IDENTITYRichard Mann; Fiscal Year: 2007..Other proteins are hypothesized to act as Hox cofactors in these cells, and experiments are designed to identify and test the function of these putative cofactors in vivo. ..
- Integrated Approcahes to Find Hox-regulated DNA ElementsRichard Mann; Fiscal Year: 2007..Once these methods are worked out, they will be applicable to a wide variety of problems in biology. ..
- Proximo-distal Patterning inthe Drosophila appendegesRichard Mann; Fiscal Year: 2007....
- MOLECULAR GENETICS OF SEGMENT IDENTITYRichard Mann; Fiscal Year: 2009..Thus, a mechanistic understanding of how these transcription factors regulate their target genes will impact our understanding of many aspects of developmental and disease biology. ..
- Proximo-distal Patterning inthe Drosophila appendegesRichard S Mann; Fiscal Year: 2010..abstract_text> ..
- MOLECULAR GENETICS OF SEGMENT IDENTITYRichard S Mann; Fiscal Year: 2010..Thus, a mechanistic understanding of how these transcription factors regulate their target genes will impact our understanding of many aspects of developmental and disease biology. ..
- DISSECTION OF ONCOGENIC PATHWAYS USING DROSOPHILARichard Mann; Fiscal Year: 2004..The use of Drosophila genetics is proposed to help make connections between genetic functions that cannot be easily identified in mammalian experimental systems. ..
- MOLECULAR GENETICS OF SEGMENT IDENTITYRichard Mann; Fiscal Year: 1999..These experiments will determine if particular mutations affect Ultrabithorax functions by affecting their ability to bind DNA or by affecting some other property, such as specific protein-protein interactions. ..
- POSTTRANSCRIPTIONAL MECHANISMS CONTROLLING DEVELOPMENTRichard Mann; Fiscal Year: 2002..Characterizing these developmental mechanisms will shed light on how the vertebrate versions of these proteins, when altered, can cause cancer and human birth defects. ..
- Proximo-distal patterning in the Drosophila appendagesRichard Mann; Fiscal Year: 2003..An understanding of their basic functions in fly development should therefore generate information that is relevant to leukemia, as well as to defects that can occur in vertebrate limb development. ..