Guanine quadruplex structures localize to heterochromatin

1European Research Institute for the Biology of Ageing, University of Groningen, University Medical Centre Groningen, A. Deusinglaan 1, NL-9713 AV Groningen, The Netherlands, 2Department of Biochemistry, Erasmus University Medical Center, Dr. Molewaterplein 50, NL-3015 GE Rotterdam, The Netherlands, 3Department of Cell Biology, University of Groningen, University Medical Centre Groningen, A. Deusinglaan 1, NL-9713 AV Groningen, The Netherlands, 4Faculty of Medicine, Kyoto University, Kyoto 606–8501, Japan, 5Institute of Cytology and Genetics, Siberian Branch of the Russian Academy of Sciences, Novosibirsk 630090, Russia, 6Helios Medical Centre Wuppertal, Paediatrics Centre, Witten/Herdecke University, Wuppertal, Germany, 7Institute of Cell Biology, Centre for Biomedical Education and Research, Witten/Herdecke University, Witten, Germany and 8Terry Fox Laboratory, British Columbia Cancer Agency and Department of Medicine, University of British Columbia Vancouver, BC, V5Z 1L3, Canada

[1]  P. Lansdorp,et al.  Guanine quadruplex monoclonal antibody 1H6 cross-reacts with restrained thymidine-rich single stranded DNA , 2017, Nucleic acids research.

[2]  Drena Dobbs,et al.  G-quadruplex (G4) motifs in the maize (Zea mays L.) genome are enriched at specific locations in thousands of genes coupled to energy status, hypoxia, low sugar, and nutrient deprivation. , 2014, Journal of genetics and genomics = Yi chuan xue bao.

[3]  E. N. Andreyeva,et al.  DNA copy-number control through inhibition of replication fork progression. , 2014, Cell reports.

[4]  P. Reddien,et al.  Single-cell analysis reveals functionally distinct classes within the planarian stem cell compartment. , 2014, Cell stem cell.

[5]  Dawei Li,et al.  Positive supercoiling affiliated with nucleosome formation repairs non-B DNA structures. , 2014, Chemical communications.

[6]  Konstantinos J. Mavrakis,et al.  RNA G-quadruplexes cause eIF4A-dependent oncogene translation in cancer , 2014, Nature.

[7]  Estienne C. Swart,et al.  The Draft Assembly of the Radically Organized Stylonychia lemnae Macronuclear Genome , 2014, Genome biology and evolution.

[8]  N. Maizels,et al.  G-quadruplexes are genomewide targets of transcriptional helicases XPB and XPD , 2014, Nature chemical biology.

[9]  A. Castro,et al.  Partial inhibition of Cdk1 in G2 phase overrides the SAC and decouples mitotic events , 2014, Cell cycle.

[10]  Patrick G. Shaw,et al.  C9orf72 Nucleotide Repeat Structures Initiate Molecular Cascades of Disease , 2014, Nature.

[11]  Diego Bonetti,et al.  Telomere-end processing: mechanisms and regulation , 2014, Chromosoma.

[12]  M. Disney,et al.  Promoter-Bound Trinucleotide Repeat mRNA Drives Epigenetic Silencing in Fragile X Syndrome , 2014, Science.

[13]  Jesse M. Platt,et al.  Detection of G-quadruplex DNA in mammalian cells , 2013, Nucleic acids research.

[14]  B. Giepmans,et al.  Destruction of Tissue, Cells and Organelles in Type 1 Diabetic Rats Presented at Macromolecular Resolution , 2013, Scientific Reports.

[15]  D. Spector,et al.  Chromatin organization and transcriptional regulation. , 2013, Current opinion in genetics & development.

[16]  N. Maizels,et al.  The G4 Genome , 2013, PLoS genetics.

[17]  Bas van Steensel,et al.  Genome Architecture: Domain Organization of Interphase Chromosomes , 2013, Cell.

[18]  I. Zhimulev,et al.  Drosophila SUUR protein associates with PCNA and binds chromatin in a cell cycle-dependent manner , 2013, Chromosoma.

[19]  M. C. Cardoso,et al.  Heterochromatin and gene positioning: inside, outside, any side? , 2012, Chromosoma.

[20]  Katrin Paeschke,et al.  DNA secondary structures: stability and function of G-quadruplex structures , 2012, Nature Reviews Genetics.

[21]  C. Gustafsson,et al.  A hybrid G-quadruplex structure formed between RNA and DNA explains the extraordinary stability of the mitochondrial R-loop , 2012, Nucleic acids research.

[22]  Abraham J. Koster,et al.  Virtual nanoscopy: Generation of ultra-large high resolution electron microscopy maps , 2012, The Journal of cell biology.

[23]  S. Boulton,et al.  RTEL1 Dismantles T Loops and Counteracts Telomeric G4-DNA to Maintain Telomere Integrity , 2012, Cell.

[24]  P. Ryvkin,et al.  Computational detection and analysis of sequences with duplex-derived interstrand G-quadruplex forming potential. , 2012, Methods.

[25]  J. Postberg,et al.  A telomerase-associated RecQ protein-like helicase resolves telomeric G-quadruplex structures during replication , 2012, Gene.

[26]  Achilleas S Frangakis,et al.  Human mitotic chromosomes consist predominantly of irregularly folded nucleosome fibres without a 30‐nm chromatin structure , 2012, The EMBO journal.

[27]  J. Hansen Human mitotic chromosome structure: what happened to the 30‐nm fibre? , 2012, The EMBO journal.

[28]  Peter W. Reddien,et al.  Genetic regulators of a pluripotent adult stem cell system in planarians identified by RNAi and clonal analysis. , 2012, Cell stem cell.

[29]  A. Lane The stability of intramolecular DNA G-quadruplexes compared with other macromolecules. , 2012, Biochimie.

[30]  A. Nicolas,et al.  G‐quadruplex‐induced instability during leading‐strand replication , 2011, The EMBO journal.

[31]  D. MacAlpine,et al.  Developmental control of the DNA replication and transcription programs. , 2011, Genome research.

[32]  J. Mergny,et al.  Stability of telomeric G-quadruplexes , 2010, Nucleic acids research.

[33]  Steven J. M. Jones,et al.  ATR-X Syndrome Protein Targets Tandem Repeats and Influences Allele-Specific Expression in a Size-Dependent Manner , 2010, Cell.

[34]  A. Lloyd,et al.  Direct detection and quantification of methylation in nucleic acid sequences using high-resolution melting analysis. , 2010, Analytical chemistry.

[35]  R. Ghosh,et al.  Chromatin higher-order structure and dynamics. , 2010, Cold Spring Harbor perspectives in biology.

[36]  R. Gargallo,et al.  pH-Modulated Watson-Crick duplex-quadruplex equilibria of guanine-rich and cytosine-rich DNA sequences 140 base pairs upstream of the c-kit transcription initiation site. , 2009, Chemistry.

[37]  Jean-Louis Mergny,et al.  The Yeast Pif1 Helicase Prevents Genomic Instability Caused by G-Quadruplex-Forming CEB1 Sequences In Vivo , 2009, PLoS genetics.

[38]  Bernhard Egger,et al.  The free-living flatworm Macrostomum lignano: A new model organism for ageing research , 2009, Experimental Gerontology.

[39]  T. Cremer,et al.  Spatial and temporal plasticity of chromatin during programmed DNA-reorganization in Stylonychia macronuclear development , 2008, Epigenetics & Chromatin.

[40]  M. Komiyama,et al.  Human telomere RNA and DNA form an intermolecular G-quadruplex. , 2008, Nucleic acids symposium series.

[41]  E. N. Andreyeva,et al.  Local DNA underreplication correlates with accumulation of phosphorylated H2Av in the Drosophila melanogaster polytene chromosomes , 2008, Chromosome Research.

[42]  E. Cuppen,et al.  Mutagenic Capacity of Endogenous G4 DNA Underlies Genome Instability in FANCJ-Defective C. elegans , 2008, Current Biology.

[43]  H. Lipps,et al.  Telomerase recruitment by the telomere end binding protein-β facilitates G-quadruplex DNA unfolding in ciliates , 2008, Nature Structural &Molecular Biology.

[44]  H. Lipps,et al.  Cell cycle-dependent regulation of telomere tethering in the nucleus , 2008, Chromosome Research.

[45]  E. N. Andreyeva,et al.  Interaction between the Drosophila heterochromatin proteins SUUR and HP1 , 2008, Journal of Cell Science.

[46]  N. Maizels,et al.  Conserved elements with potential to form polymorphic G-quadruplex structures in the first intron of human genes , 2008, Nucleic acids research.

[47]  T. Xie,et al.  Stem Cell Self-Renewal Controlled by Chromatin Remodeling Factors , 2005, Science.

[48]  Jan Postberg,et al.  Telomere end-binding proteins control the formation of G-quadruplex DNA structures in vivo , 2005, Nature Structural &Molecular Biology.

[49]  T. Cremer,et al.  Exploiting nuclear duality of ciliates to analyse topological requirements for DNA replication and transcription , 2005, Journal of Cell Science.

[50]  S. Neidle,et al.  Highly prevalent putative quadruplex sequence motifs in human DNA , 2005, Nucleic acids research.

[51]  Shankar Balasubramanian,et al.  Prevalence of quadruplexes in the human genome , 2005, Nucleic acids research.

[52]  N. Maizels,et al.  Intracellular transcription of G-rich DNAs induces formation of G-loops, novel structures containing G4 DNA. , 2004, Genes & development.

[53]  P. Lansdorp,et al.  Regulation of Murine Telomere Length by Rtel An Essential Gene Encoding a Helicase-like Protein , 2004, Cell.

[54]  N. Sugimoto,et al.  Duplex dissociation of telomere DNAs induced by molecular crowding. , 2004, Journal of the American Chemical Society.

[55]  I. Makunin,et al.  Overexpression of the SuUR gene induces reversible modifications at pericentric, telomeric and intercalary heterochromatin of Drosophila melanogaster polytene chromosomes , 2003, Journal of Cell Science.

[56]  Haifan Lin The stem-cell niche theory: lessons from flies , 2002, Nature Reviews Genetics.

[57]  Iris Cheung,et al.  Disruption of dog-1 in Caenorhabditis elegans triggers deletions upstream of guanine-rich DNA , 2002, Nature Genetics.

[58]  A. Spradling,et al.  Stem cells find their niche , 2001, Nature.

[59]  I Berger,et al.  In vitro generated antibodies specific for telomeric guanine-quadruplex DNA react with Stylonychia lemnae macronuclei , 2001, Proceedings of the National Academy of Sciences of the United States of America.

[60]  P. Spierer,et al.  The bithorax complex of Drosophila melanogaster: Underreplication and morphology in polytene chromosomes. , 2001, Proceedings of the National Academy of Sciences of the United States of America.

[61]  P. Ladurner,et al.  Spatial distribution and differentiation potential of stem cells in hatchlings and adults in the marine platyhelminth macrostomum sp.: a bromodeoxyuridine analysis. , 2000, Developmental biology.

[62]  J. Abad,et al.  The 3′ non‐coding region of the Drosophila melanogaster HeT‐A telomeric retrotransposon contains sequences with propensity to form G‐quadruplex DNA , 1999, FEBS letters.

[63]  P. Ladurner,et al.  Ultrastructure of neoblasts in microturbellaria: significance for understanding stem cells in free-living Platyhelminthes , 1999 .

[64]  I. Zhimulev,et al.  Su(UR)ES: a gene suppressing DNA underreplication in intercalary and pericentric heterochromatin of Drosophila melanogaster polytene chromosomes. , 1998, Proceedings of the National Academy of Sciences of the United States of America.

[65]  Aaron Klug,et al.  Telomeric DNA dimerizes by formation of guanine tetrads between hairpin loops , 1989, Nature.

[66]  D. Gottschling,et al.  Telomere proteins: Specific recognition and protection of the natural termini of Oxytricha macronuclear DNA , 1986, Cell.

[67]  D. Prescott,et al.  Replication forms of the gene-sized DNA molecules of hypotrichous ciliates , 1983, Molecular and cellular biology.

[68]  W. Gruissem,et al.  Higher order DNA structure in macronuclear chromatin of the hypotrichous ciliate Oxytricha nova. , 1982, Proceedings of the National Academy of Sciences of the United States of America.

[69]  D. Prescott,et al.  All gene-sized DNA molecules in four species of hypotrichs have the same terminal sequence and an unusual 3' terminus. , 1981, Proceedings of the National Academy of Sciences of the United States of America.

[70]  H. Lipps In vitro aggregation of the gene-sized DNA molecules of the ciliate Stylonychia mytilus. , 1980, Proceedings of the National Academy of Sciences of the United States of America.

[71]  E. Passarge Emil Heitz and the concept of heterochromatin: longitudinal chromosome differentiation was recognized fifty years ago. , 1979, American journal of human genetics.

[72]  D. Bazett-Jones,et al.  Living without 30nm chromatin fibers. , 2011, Trends in biochemical sciences.

[73]  W.,et al.  A new model organism among the lower Bilateria and the use of digital microscopy in taxonomy of meiobenthic Platyhelminthes : Macrostomum lignano , n . sp . ( Rhabditophora , Macrostomorpha ) , 2005 .

[74]  F. Jönsson,et al.  Organization of the macronuclear gene-sized pieces of stichotrichous ciliates into a higher order structure via telomere–matrix interactions , 2004, Chromosome Research.

[75]  D. Sen,et al.  Guanine quartet structures. , 1992, Methods in enzymology.

[76]  G. T. Rudkin Non replicating DNA in Drosophila. , 1969, Genetics.