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  • 1
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    Phenotypic robustness conferred by apparently redundant transcriptional enhancers (2010)
    Nature Publishing Group (NPG)
    Details
    Publication Date: 2010-06-01
    Description: Genes include cis-regulatory regions that contain transcriptional enhancers. Recent reports have shown that developmental genes often possess multiple discrete enhancer modules that drive transcription in similar spatio-temporal patterns: primary enhancers located near the basal promoter and secondary, or 'shadow', enhancers located at more remote positions. It has been proposed that the seemingly redundant activity of primary and secondary enhancers contributes to phenotypic robustness. We tested this hypothesis by generating a deficiency that removes two newly discovered enhancers of shavenbaby (svb, a transcript of the ovo locus), a gene encoding a transcription factor that directs development of Drosophila larval trichomes. At optimal temperatures for embryonic development, this deficiency causes minor defects in trichome patterning. In embryos that develop at both low and high extreme temperatures, however, absence of these secondary enhancers leads to extensive loss of trichomes. These temperature-dependent defects can be rescued by a transgene carrying a secondary enhancer driving transcription of the svb cDNA. Finally, removal of one copy of wingless, a gene required for normal trichome patterning, causes a similar loss of trichomes only in flies lacking the secondary enhancers. These results support the hypothesis that secondary enhancers contribute to phenotypic robustness in the face of environmental and genetic variability.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2909378/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2909378/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Frankel, Nicolas -- Davis, Gregory K -- Vargas, Diego -- Wang, Shu -- Payre, Francois -- Stern, David L -- GM063622-06A1/GM/NIGMS NIH HHS/ -- R01 GM063622/GM/NIGMS NIH HHS/ -- R01 GM063622-09/GM/NIGMS NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2010 Jul 22;466(7305):490-3. doi: 10.1038/nature09158. Epub 2010 May 30.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Howard Hughes Medical Institute and Department of Ecology and Evolutionary Biology, Princeton University, Princeton, New Jersey 08544, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/20512118" target="_blank"〉PubMed〈/a〉
    Keywords: Animal Structures/anatomy & histology/embryology ; Animals ; DNA-Binding Proteins/*genetics ; Drosophila Proteins/*genetics ; Drosophila melanogaster/anatomy & histology/*embryology/*genetics/growth & ; development ; Enhancer Elements, Genetic/*genetics ; *Gene Expression Regulation, Developmental ; Larva/anatomy & histology/genetics/growth & development ; Models, Genetic ; *Phenotype ; Temperature ; Transcription Factors/*genetics ; Transcription, Genetic/*genetics ; Transgenes/genetics
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Published by Nature Publishing Group (NPG)
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  • 2
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    Small peptides switch the transcriptional activity of Shavenbaby during Drosophila embryogenesis (2010)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 2010-07-22
    Description: A substantial proportion of eukaryotic transcripts are considered to be noncoding RNAs because they contain only short open reading frames (sORFs). Recent findings suggest, however, that some sORFs encode small bioactive peptides. Here, we show that peptides of 11 to 32 amino acids encoded by the polished rice (pri) sORF gene control epidermal differentiation in Drosophila by modifying the transcription factor Shavenbaby (Svb). Pri peptides trigger the amino-terminal truncation of the Svb protein, which converts Svb from a repressor to an activator. Our results demonstrate that during Drosophila embryogenesis, Pri sORF peptides provide a strict temporal control to the transcriptional program of epidermal morphogenesis.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Kondo, T -- Plaza, S -- Zanet, J -- Benrabah, E -- Valenti, P -- Hashimoto, Y -- Kobayashi, S -- Payre, F -- Kageyama, Y -- New York, N.Y. -- Science. 2010 Jul 16;329(5989):336-9. doi: 10.1126/science.1188158.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Okazaki Institute for Integrative Bioscience, National Institute for Basic Biology (NIBB), National Institutes of Natural Sciences, 5-1 Myodaiji-Higashiyama, Okazaki 444-8787, Japan.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/20647469" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Cell Differentiation ; Cell Nucleus/metabolism ; DNA-Binding Proteins/chemistry/genetics/*metabolism ; Drosophila Proteins/chemistry/genetics/*metabolism ; Drosophila melanogaster/embryology/*genetics/metabolism ; Embryo, Nonmammalian/cytology/*metabolism ; Embryonic Development ; Epidermis/cytology/metabolism ; *Gene Expression Regulation, Developmental ; Genes, Insect ; Mutation ; Open Reading Frames ; Peptides/genetics/*metabolism ; Protein Isoforms/chemistry/genetics/metabolism ; Protein Processing, Post-Translational ; Protein Structure, Tertiary ; RNA, Untranslated/genetics ; Recombinant Fusion Proteins/metabolism ; Transcription Factors/chemistry/genetics/*metabolism ; *Transcription, Genetic
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science (AAAS)
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  • 3
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    Morphological evolution caused by many subtle-effect substitutions in regulatory DNA (2011)
    Nature Publishing Group (NPG)
    Details
    Publication Date: 2011-07-02
    Description: Morphology evolves often through changes in developmental genes, but the causal mutations, and their effects, remain largely unknown. The evolution of naked cuticle on larvae of Drosophila sechellia resulted from changes in five transcriptional enhancers of shavenbaby (svb), a transcript of the ovo locus that encodes a transcription factor that governs morphogenesis of microtrichiae, hereafter called 'trichomes'. Here we show that the function of one of these enhancers evolved through multiple single-nucleotide substitutions that altered both the timing and level of svb expression. The consequences of these nucleotide substitutions on larval morphology were quantified with a novel functional assay. We found that each substitution had a relatively small phenotypic effect, and that many nucleotide changes account for this large morphological difference. In addition, we observed that the substitutions had non-additive effects. These data provide unprecedented resolution of the phenotypic effects of substitutions and show how individual nucleotide changes in a transcriptional enhancer have caused morphological evolution.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3170772/" target="_blank"〉〈img src="https://static.pubmed.gov/portal/portal3rc.fcgi/4089621/img/3977009" border="0"〉〈/a〉   〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3170772/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Frankel, Nicolas -- Erezyilmaz, Deniz F -- McGregor, Alistair P -- Wang, Shu -- Payre, Francois -- Stern, David L -- F32 GM 83546-02/GM/NIGMS NIH HHS/ -- GM063622-06A1/GM/NIGMS NIH HHS/ -- R01 GM063622/GM/NIGMS NIH HHS/ -- R01 GM063622-09/GM/NIGMS NIH HHS/ -- Howard Hughes Medical Institute/ -- England -- Nature. 2011 Jun 29;474(7353):598-603. doi: 10.1038/nature10200.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Howard Hughes Medical Institute and Department of Ecology and Evolutionary Biology, Princeton University, Princeton, New Jersey 08544, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21720363" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Base Sequence ; *Biological Evolution ; DNA-Binding Proteins/genetics/metabolism ; Drosophila/*anatomy & histology/embryology/*genetics ; Drosophila Proteins/genetics/metabolism ; Drosophila melanogaster/anatomy & histology/embryology/genetics ; Embryo, Nonmammalian ; Enhancer Elements, Genetic/*genetics ; Female ; *Gene Expression Regulation, Developmental ; Larva ; Male ; Phenotype ; Sequence Alignment ; Sequence Homology, Nucleic Acid ; Transcription Factors/genetics/metabolism
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
    Published by Nature Publishing Group (NPG)
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  • 4
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    Pri sORF peptides induce selective proteasome-mediated protein processing (2015)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 2015-09-19
    Description: A wide variety of RNAs encode small open-reading-frame (smORF/sORF) peptides, but their functions are largely unknown. Here, we show that Drosophila polished-rice (pri) sORF peptides trigger proteasome-mediated protein processing, converting the Shavenbaby (Svb) transcription repressor into a shorter activator. A genome-wide RNA interference screen identifies an E2-E3 ubiquitin-conjugating complex, UbcD6-Ubr3, which targets Svb to the proteasome in a pri-dependent manner. Upon interaction with Ubr3, Pri peptides promote the binding of Ubr3 to Svb. Ubr3 can then ubiquitinate the Svb N terminus, which is degraded by the proteasome. The C-terminal domains protect Svb from complete degradation and ensure appropriate processing. Our data show that Pri peptides control selectivity of Ubr3 binding, which suggests that the family of sORF peptides may contain an extended repertoire of protein regulators.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Zanet, J -- Benrabah, E -- Li, T -- Pelissier-Monier, A -- Chanut-Delalande, H -- Ronsin, B -- Bellen, H J -- Payre, F -- Plaza, S -- Howard Hughes Medical Institute/ -- New York, N.Y. -- Science. 2015 Sep 18;349(6254):1356-8. doi: 10.1126/science.aac5677.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Centre de Biologie du Developpement, Universite de Toulouse III-Paul Sabatier, Batiment 4R3, 118 route de Narbonne, F-31062 Toulouse, France. CNRS, UMR5547, Centre de Biologie du Developpement, F-31062 Toulouse, France. ; Program in Developmental Biology, Baylor College of Medicine, Houston, TX 77030, USA. ; Program in Developmental Biology, Baylor College of Medicine, Houston, TX 77030, USA. Department of Molecular and Human Genetics, Howard Hughes Medical Institute, Neurological Research Institute, Baylor College of Medicine, Houston, TX 77030, USA. ; Centre de Biologie du Developpement, Universite de Toulouse III-Paul Sabatier, Batiment 4R3, 118 route de Narbonne, F-31062 Toulouse, France. CNRS, UMR5547, Centre de Biologie du Developpement, F-31062 Toulouse, France. francois.payre@univ-tlse3.fr serge.plaza@univ-tlse3.f.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/26383956" target="_blank"〉PubMed〈/a〉
    Keywords: Amino Acid Sequence ; Animals ; DNA-Binding Proteins/chemistry/genetics/*metabolism ; Drosophila Proteins/chemistry/genetics/*metabolism ; Drosophila melanogaster/enzymology/genetics/*metabolism ; Gene Expression Regulation ; Molecular Sequence Data ; Open Reading Frames ; Peptides/genetics/*metabolism ; Proteasome Endopeptidase Complex/*metabolism ; Protein Structure, Tertiary ; *Proteolysis ; RNA Interference ; Transcription Factors/chemistry/genetics/*metabolism ; Ubiquitin-Conjugating Enzymes/metabolism ; Ubiquitin-Protein Ligases/metabolism ; Ubiquitination
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science (AAAS)
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  • 5
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    RNA. Small peptides control heart activity (2016)
    American Association for the Advancement of Science (AAAS)
    Details
    Publication Date: 2016-01-28
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Payre, Francois -- Desplan, Claude -- New York, N.Y. -- Science. 2016 Jan 15;351(6270):226-7. doi: 10.1126/science.aad9873.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Centre de Biologie du Developpement, CNRS UMR5547, Universite Paul Sabatier, Toulouse, France. ; Department of Biology, New York University, New York, NY, USA. claude.desplan@nyu.edu.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/26816363" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Humans ; *Muscle Contraction ; Muscle, Skeletal/*metabolism ; Myocytes, Cardiac/*metabolism ; Peptides/*metabolism ; Sarcoplasmic Reticulum Calcium-Transporting ATPases/*metabolism
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science (AAAS)
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  • 6
    Electronic Resource
    Electronic Resource
    Finger proteins and DNA-specific recognition: Distinct patterns of conserved amino acids suggest different evolutionary modes
    Amsterdam : Elsevier
    FEBS Letters 234 (1988), S. 245-250 
    Details
    ISSN: 0014-5793
    Keywords: DNA binding ; Finger protein ; TFIIIA ; Transcription activator ; Zn^2^+ chelation
    Source: Elsevier Journal Backfiles on ScienceDirect 1907 - 2002
    Topics: Biology , Chemistry and Pharmacology , Physics
    Type of Medium: Electronic Resource
    URL: http://linkinghub.elsevier.com/retrieve/pii/0014-5793(88)80091-7
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    Paper (German National Licenses)
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  • 7
    Electronic Resource
    Electronic Resource
    Serendipity delta, a Drosophila zinc finger protein present in embryonic nuclei at the onset of zygotic gene transcription
    Amsterdam : Elsevier
    Developmental Biology 136 (1989), S. 469-480 
    Details
    ISSN: 0012-1606
    Source: Elsevier Journal Backfiles on ScienceDirect 1907 - 2002
    Topics: Biology
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1016/0012-1606(89)90272-8
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  • 8
    Electronic Resource
    Electronic Resource
    cis-Regulatory elements of the Drosophila blastoderm-specific serendipity α gene: Ectopic activation in the embryonic PNS promoted by the deletion of an upstream region
    Amsterdam : Elsevier
    Developmental Biology 136 (1989), S. 181-193 
    Details
    ISSN: 0012-1606
    Source: Elsevier Journal Backfiles on ScienceDirect 1907 - 2002
    Topics: Biology
    Type of Medium: Electronic Resource
    URL: http://dx.doi.org/10.1016/0012-1606(89)90140-1
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  • 9
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    Small Peptides Switch the Transcriptional Activity of Shavenbaby During Drosophila Embryogenesis (2010)
    American Association for the Advancement of Science
    Details
    Publication Date: 2010-07-15
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
    Published by American Association for the Advancement of Science
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  • 10
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    Genomic targets of the serendipity beta and delta zinc finger proteins and their respective DNA recognition sites. (1991)
    EMBO Press
    Details
    Publication Date: 1991-09-01
    Print ISSN: 0261-4189
    Electronic ISSN: 1460-2075
    Topics: Biology , Medicine
    Published by EMBO Press on behalf of European Molecular Biology Organization.
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