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  • 1
    Publication Date: 2001-07-21
    Description: Genetic variability of Plasmodium falciparum underlies its transmission success and thwarts efforts to control disease caused by this parasite. Genetic variation in antigenic, drug resistance, and pathogenesis determinants is abundant, consistent with an ancient origin of P. falciparum, whereas DNA variation at silent (synonymous) sites in coding sequences appears virtually absent, consistent with a recent origin of the parasite. To resolve this paradox, we analyzed introns and demonstrated that these are deficient in single-nucleotide polymorphisms, as are synonymous sites in coding regions. These data establish the recent origin of P. falciparum and further provide an explanation for the abundant diversity observed in antigen and other selected genes.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Volkman, S K -- Barry, A E -- Lyons, E J -- Nielsen, K M -- Thomas, S M -- Choi, M -- Thakore, S S -- Day, K P -- Wirth, D F -- Hartl, D L -- New York, N.Y. -- Science. 2001 Jul 20;293(5529):482-4.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉The Harvard-Oxford Malaria Genome Diversity Project, Department of Immunology and Infectious Diseases, Harvard School of Public Health, Boston, MA 02115, USA.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/11463913" target="_blank"〉PubMed〈/a〉
    Keywords: Africa ; Agriculture ; Alternative Splicing ; Animals ; Base Sequence ; *Biological Evolution ; Genes, Protozoan ; *Genetic Variation ; Humans ; *Introns ; Malaria, Falciparum/epidemiology/parasitology/transmission ; *Microsatellite Repeats ; Molecular Sequence Data ; Mutation ; Plasmodium/genetics ; Plasmodium falciparum/*genetics ; *Polymorphism, Single Nucleotide
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 2
    Publication Date: 2010-03-26
    Description: Exceptional genomic stability is one of the hallmarks of mouse embryonic stem (ES) cells. However, the genes contributing to this stability remain obscure. We previously identified Zscan4 as a specific marker for two-cell embryo and ES cells. Here we show that Zscan4 is involved in telomere maintenance and long-term genomic stability in ES cells. Only 5% of ES cells express Zscan4 at a given time, but nearly all ES cells activate Zscan4 at least once during nine passages. The transient Zscan4-positive state is associated with rapid telomere extension by telomere recombination and upregulation of meiosis-specific homologous recombination genes, which encode proteins that are colocalized with ZSCAN4 on telomeres. Furthermore, Zscan4 knockdown shortens telomeres, increases karyotype abnormalities and spontaneous sister chromatid exchange, and slows down cell proliferation until reaching crisis by passage eight. Together, our data show a unique mode of genome maintenance in ES cells.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC2851843/" 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/PMC2851843/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Zalzman, Michal -- Falco, Geppino -- Sharova, Lioudmila V -- Nishiyama, Akira -- Thomas, Marshall -- Lee, Sung-Lim -- Stagg, Carole A -- Hoang, Hien G -- Yang, Hsih-Te -- Indig, Fred E -- Wersto, Robert P -- Ko, Minoru S H -- ZIA AG000655-11/Intramural NIH HHS/ -- ZIA AG000656-11/Intramural NIH HHS/ -- ZIA AG000700-02/Intramural NIH HHS/ -- ZIA AG000706-02/Intramural NIH HHS/ -- England -- Nature. 2010 Apr 8;464(7290):858-63. doi: 10.1038/nature08882. Epub 2010 Mar 24.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Developmental Genomics and Aging Section, Laboratory of Genetics, NIH, Baltimore, Maryland 21224, USA〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/20336070" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Cell Line ; Cell Proliferation ; Chromosome Aberrations ; Embryonic Stem Cells/cytology/*metabolism/pathology ; Gene Expression Regulation ; Gene Knockdown Techniques ; *Genomic Instability ; Karyotyping ; Meiosis/genetics/physiology ; Mice ; Protein Transport ; Recombination, Genetic/genetics ; Sister Chromatid Exchange/genetics ; Telomere/*genetics/*metabolism ; Transcription Factors/deficiency/genetics/*metabolism ; Up-Regulation
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 3
    Publication Date: 2011-06-17
    Description: Gene targeting in embryonic stem cells has become the principal technology for manipulation of the mouse genome, offering unrivalled accuracy in allele design and access to conditional mutagenesis. To bring these advantages to the wider research community, large-scale mouse knockout programmes are producing a permanent resource of targeted mutations in all protein-coding genes. Here we report the establishment of a high-throughput gene-targeting pipeline for the generation of reporter-tagged, conditional alleles. Computational allele design, 96-well modular vector construction and high-efficiency gene-targeting strategies have been combined to mutate genes on an unprecedented scale. So far, more than 12,000 vectors and 9,000 conditional targeted alleles have been produced in highly germline-competent C57BL/6N embryonic stem cells. High-throughput genome engineering highlighted by this study is broadly applicable to rat and human stem cells and provides a foundation for future genome-wide efforts aimed at deciphering the function of all genes encoded by the mammalian genome.〈br /〉〈br /〉〈a href="https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3572410/" 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/PMC3572410/" target="_blank"〉This paper as free author manuscript - peer-reviewed and accepted for publication〈/a〉〈br /〉〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Skarnes, William C -- Rosen, Barry -- West, Anthony P -- Koutsourakis, Manousos -- Bushell, Wendy -- Iyer, Vivek -- Mujica, Alejandro O -- Thomas, Mark -- Harrow, Jennifer -- Cox, Tony -- Jackson, David -- Severin, Jessica -- Biggs, Patrick -- Fu, Jun -- Nefedov, Michael -- de Jong, Pieter J -- Stewart, A Francis -- Bradley, Allan -- 077188/Wellcome Trust/United Kingdom -- U01-HG004080/HG/NHGRI NIH HHS/ -- Wellcome Trust/United Kingdom -- England -- Nature. 2011 Jun 15;474(7351):337-42. doi: 10.1038/nature10163.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Wellcome Trust Sanger Institute, Wellcome Trust Genome Campus, Hinxton, Cambridge CB10 1SA, UK. skarnes@sanger.ac.uk〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/21677750" target="_blank"〉PubMed〈/a〉
    Keywords: Alleles ; Animals ; Computational Biology ; Embryonic Stem Cells/cytology/metabolism ; *Gene Deletion ; Gene Knockout Techniques/*methods ; Genes/*genetics ; Genes, Lethal/genetics ; Genetic Association Studies/*methods ; Genetic Vectors/genetics ; Genome/*genetics ; Genomics ; Genotype ; Humans ; Mice ; Mice, Inbred C57BL ; Mice, Knockout/*genetics ; Mutagenesis, Insertional/methods ; Phenotype ; Polymerase Chain Reaction ; Rats
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 4
    Publication Date: 2014-08-01
    Description: In BRAF(V600)-mutant tumours, most mechanisms of resistance to drugs that target the BRAF and/or MEK kinases rely on reactivation of the RAS-RAF-MEK-ERK mitogen-activated protein kinase (MAPK) signal transduction pathway, on activation of the alternative, PI(3)K-AKT-mTOR, pathway (which is ERK independent) or on modulation of the caspase-dependent apoptotic cascade. All three pathways converge to regulate the formation of the eIF4F eukaryotic translation initiation complex, which binds to the 7-methylguanylate cap (m(7)G) at the 5' end of messenger RNA, thereby modulating the translation of specific mRNAs. Here we show that the persistent formation of the eIF4F complex, comprising the eIF4E cap-binding protein, the eIF4G scaffolding protein and the eIF4A RNA helicase, is associated with resistance to anti-BRAF, anti-MEK and anti-BRAF plus anti-MEK drug combinations in BRAF(V600)-mutant melanoma, colon and thyroid cancer cell lines. Resistance to treatment and maintenance of eIF4F complex formation is associated with one of three mechanisms: reactivation of MAPK signalling, persistent ERK-independent phosphorylation of the inhibitory eIF4E-binding protein 4EBP1 or increased pro-apoptotic BCL-2-modifying factor (BMF)-dependent degradation of eIF4G. The development of an in situ method to detect the eIF4E-eIF4G interactions shows that eIF4F complex formation is decreased in tumours that respond to anti-BRAF therapy and increased in resistant metastases compared to tumours before treatment. Strikingly, inhibiting the eIF4F complex, either by blocking the eIF4E-eIF4G interaction or by targeting eIF4A, synergizes with inhibiting BRAF(V600) to kill the cancer cells. eIF4F not only appears to be an indicator of both innate and acquired resistance but also is a promising therapeutic target. Combinations of drugs targeting BRAF (and/or MEK) and eIF4F may overcome most of the resistance mechanisms arising in BRAF(V600)-mutant cancers.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Boussemart, Lise -- Malka-Mahieu, Helene -- Girault, Isabelle -- Allard, Delphine -- Hemmingsson, Oskar -- Tomasic, Gorana -- Thomas, Marina -- Basmadjian, Christine -- Ribeiro, Nigel -- Thuaud, Frederic -- Mateus, Christina -- Routier, Emilie -- Kamsu-Kom, Nyam -- Agoussi, Sandrine -- Eggermont, Alexander M -- Desaubry, Laurent -- Robert, Caroline -- Vagner, Stephan -- England -- Nature. 2014 Sep 4;513(7516):105-9. doi: 10.1038/nature13572. Epub 2014 Jul 27.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉1] Inserm UMR981, Villejuif F-94805, France [2] Universite Paris-Sud XI, Kremlin-Bicetre F-94276, France [3] Gustave Roussy, Dermato-Oncology, Villejuif F-94805, France [4]. ; 1] Inserm UMR981, Villejuif F-94805, France [2] Universite Paris-Sud XI, Kremlin-Bicetre F-94276, France [3]. ; 1] Inserm UMR981, Villejuif F-94805, France [2]. ; Inserm UMR981, Villejuif F-94805, France. ; 1] Inserm UMR981, Villejuif F-94805, France [2] Department of Surgical and Perioperative Sciences, Umea University, Umea SE-90187, Sweden (O.H.); CNRS UMR3348, Institut Curie, Orsay F-91405, France (S.V.). ; Gustave Roussy, Pathology Department, Villejuif F-94805, France. ; Gustave Roussy, Dermato-Oncology, Villejuif F-94805, France. ; CNRS-Strasbourg University, UMR7200, Illkirch F-67400, France. ; 1] Universite Paris-Sud XI, Kremlin-Bicetre F-94276, France [2] Gustave Roussy, Dermato-Oncology, Villejuif F-94805, France. ; 1] Inserm UMR981, Villejuif F-94805, France [2] Universite Paris-Sud XI, Kremlin-Bicetre F-94276, France [3] Gustave Roussy, Dermato-Oncology, Villejuif F-94805, France. ; 1] Inserm UMR981, Villejuif F-94805, France [2] Universite Paris-Sud XI, Kremlin-Bicetre F-94276, France [3] Gustave Roussy, Dermato-Oncology, Villejuif F-94805, France [4] Department of Surgical and Perioperative Sciences, Umea University, Umea SE-90187, Sweden (O.H.); CNRS UMR3348, Institut Curie, Orsay F-91405, France (S.V.).〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/25079330" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Antineoplastic Agents/pharmacology ; Cell Death/drug effects ; Cell Line, Tumor ; Colonic Neoplasms/pathology ; *Drug Resistance, Neoplasm/drug effects ; Drug Synergism ; Eukaryotic Initiation Factor-4A/antagonists & inhibitors/metabolism ; Eukaryotic Initiation Factor-4E/metabolism ; Eukaryotic Initiation Factor-4F/*antagonists & inhibitors/chemistry/*metabolism ; Eukaryotic Initiation Factor-4G/metabolism ; Female ; Humans ; Indoles/pharmacology ; MAP Kinase Signaling System/drug effects ; Melanoma/*drug therapy/genetics/pathology ; Mice ; Mitogen-Activated Protein Kinase Kinases/*antagonists & inhibitors ; Phosphorylation/drug effects ; Protein Binding/drug effects ; Protein Kinase Inhibitors/pharmacology ; Proto-Oncogene Proteins B-raf/*antagonists & inhibitors/genetics ; Signal Transduction/drug effects ; Sulfonamides/pharmacology ; Thyroid Neoplasms/pathology ; Triterpenes/pharmacology ; Xenograft Model Antitumor Assays
    Print ISSN: 0028-0836
    Electronic ISSN: 1476-4687
    Topics: Biology , Chemistry and Pharmacology , Medicine , Natural Sciences in General , Physics
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  • 5
    Publication Date: 2014-01-25
    Description: Liver regeneration requires spatially and temporally precisely coordinated proliferation of the two major hepatic cell populations, hepatocytes and liver sinusoidal endothelial cells (LSECs), to reconstitute liver structure and function. The underlying mechanisms of this complex molecular cross-talk remain elusive. Here, we show that the expression of Angiopoietin-2 (Ang2) in LSECs is dynamically regulated after partial hepatectomy. During the early inductive phase of liver regeneration, Ang2 down-regulation leads to reduced LSEC transforming growth factor-beta1 production, enabling hepatocyte proliferation by releasing an angiocrine proliferative brake. During the later angiogenic phase of liver regeneration, recovery of endothelial Ang2 expression enables regenerative angiogenesis by controlling LSEC vascular endothelial growth factor receptor 2 expression. The data establish LSECs as a dynamic rheostat of liver regeneration, spatiotemporally orchestrating hepatocyte and LSEC proliferation through angiocrine- and autocrine-acting Ang2, respectively.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Hu, Junhao -- Srivastava, Kshitij -- Wieland, Matthias -- Runge, Anja -- Mogler, Carolin -- Besemfelder, Eva -- Terhardt, Dorothee -- Vogel, Marion J -- Cao, Liji -- Korn, Claudia -- Bartels, Susanne -- Thomas, Markus -- Augustin, Hellmut G -- New York, N.Y. -- Science. 2014 Jan 24;343(6169):416-9. doi: 10.1126/science.1244880.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Division of Vascular Oncology and Metastasis, German Cancer Research Center (DKFZ), DKFZ-Center for Molecular Biology Alliance, 69120 Heidelberg, Germany.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/24458641" target="_blank"〉PubMed〈/a〉
    Keywords: Angiopoietin-2/genetics/*metabolism ; Animals ; *Cell Proliferation ; Endothelium, Vascular/*metabolism ; Hepatectomy ; Hepatocytes/cytology/*physiology ; Liver Regeneration/genetics/*physiology ; Mice ; Mice, Inbred C57BL ; Mice, Knockout ; Neovascularization, Physiologic/genetics/physiology ; Transforming Growth Factor beta/metabolism
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 6
    Publication Date: 1995-05-26
    Description: Stimulation of phosphatidylinositol-4,5-bisphosphate (PIP2) hydrolysis is a widespread mechanism for receptor-mediated signaling in eukaryotes. Cytosolic phosphatidylinositol transfer protein (PITP) is necessary for guanosine triphosphate (GTP)-dependent hydrolysis of PIP2 by phospholipase C-beta (PLC-beta), but the role of PITP is unclear. Stimulation of phospholipase C-gamma (PLC-gamma) in A431 human epidermoid carcinoma cells treated with epidermal growth factor (EGF) required PITP. Stimulation of PI-4 kinase in cells treated with EGF also required PITP. Coprecipitation studies revealed an EGF-dependent association of PITP with the EGF receptor, with PI-4 kinase, and with PLC-gamma.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Kauffmann-Zeh, A -- Thomas, G M -- Ball, A -- Prosser, S -- Cunningham, E -- Cockcroft, S -- Hsuan, J J -- Wellcome Trust/United Kingdom -- New York, N.Y. -- Science. 1995 May 26;268(5214):1188-90.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Protein Biochemistry Group, Ludwig Institute for Cancer Research, University College London School of Medicine, UK.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/7761838" target="_blank"〉PubMed〈/a〉
    Keywords: 1-Phosphatidylinositol 4-Kinase ; Animals ; Carrier Proteins/metabolism/*physiology ; Cytosol/metabolism ; Epidermal Growth Factor/metabolism/*physiology ; Humans ; Isoenzymes/metabolism/physiology ; *Membrane Proteins ; Phosphatidylinositols/metabolism ; Phospholipase C gamma ; Phospholipid Transfer Proteins ; Phosphotransferases (Alcohol Group Acceptor)/metabolism ; Protein Binding ; Rats ; Receptor, Epidermal Growth Factor/metabolism ; Signal Transduction/*physiology ; Tumor Cells, Cultured ; Type C Phospholipases/metabolism/physiology
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 7
    Publication Date: 1994-01-28
    Description: Activation of the phospholipase D (PLD) pathway is a widespread response when cells are activated by agonists that bind receptors on the cell surface. A 16-kD cytosolic component can reconstitute guanosine triphosphate (GTP)-mediated activation of phospholipase D in HL60 cells depleted of their cytosol by permeabilization. This factor was purified and identified as two small GTP-binding proteins, ARF1 and ARF3. Recombinant ARF1 substituted for purified ARF proteins in the reconstitution assay. These results indicate that phospholipase D is a downstream effector of ARF1 and ARF3. The well-established role of ARF in vesicular traffic would suggest that alterations in lipid content by PLD are an important determinant in vesicular dynamics.〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉Cockcroft, S -- Thomas, G M -- Fensome, A -- Geny, B -- Cunningham, E -- Gout, I -- Hiles, I -- Totty, N F -- Truong, O -- Hsuan, J J -- Wellcome Trust/United Kingdom -- New York, N.Y. -- Science. 1994 Jan 28;263(5146):523-6.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Department of Physiology, University College London, United Kingdom.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/8290961" target="_blank"〉PubMed〈/a〉
    Keywords: ADP-Ribosylation Factor 1 ; ADP-Ribosylation Factors ; Amino Acid Sequence ; Animals ; Cattle ; Cytosol/chemistry ; Enzyme Activation ; GTP-Binding Proteins/chemistry/isolation & purification/*metabolism ; *Glycerophospholipids ; Granulocytes/*metabolism ; Guanosine 5'-O-(3-Thiotriphosphate)/pharmacology ; Humans ; Molecular Sequence Data ; Phosphatidic Acids/metabolism ; Phosphatidylcholines/metabolism ; Phospholipase D/*metabolism ; Recombinant Proteins/metabolism ; Tumor Cells, Cultured
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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  • 8
    Publication Date: 2007-06-26
    Description: 〈br /〉〈span class="detail_caption"〉Notes: 〈/span〉King, David A -- Thomas, Sandy M -- New York, N.Y. -- Science. 2007 Jun 22;316(5832):1701-2.〈br /〉〈span class="detail_caption"〉Author address: 〈/span〉Office of Science and Innovation, United Kingdom.〈br /〉〈span class="detail_caption"〉Record origin:〈/span〉 〈a href="http://www.ncbi.nlm.nih.gov/pubmed/17588916" target="_blank"〉PubMed〈/a〉
    Keywords: Animals ; Cattle ; Foot-and-Mouth Disease/prevention & control ; *Government ; *Government Programs ; Great Britain ; *Science ; Sheep
    Print ISSN: 0036-8075
    Electronic ISSN: 1095-9203
    Topics: Biology , Chemistry and Pharmacology , Computer Science , Medicine , Natural Sciences in General , Physics
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