Literature DB >> 26845042

Replication origins: determinants or consequences of nuclear organization?

Anna B Marks1, Owen K Smith1, Mirit I Aladjem2.   

Abstract

Chromosome replication, gene expression and chromatin assembly all occur on the same template, necessitating a tight spatial and temporal coordination to maintain genomic stability. The distribution of replication initiation events is responsive to local and global changes in chromatin structure and is affected by transcriptional activity. Concomitantly, replication origin sequences, which determine the locations of replication initiation events, can affect chromatin structure and modulate transcriptional efficiency. The flexibility observed in the replication initiation landscape might help achieve complete and accurate genome duplication while coordinating the DNA replication program with transcription and other nuclear processes in a cell-type specific manner. This review discusses the relationships among replication origin distribution, local and global chromatin structures and concomitant nuclear metabolic processes. Published by Elsevier Ltd.

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Year:  2016        PMID： 26845042      PMCID： PMC4914405          DOI： 10.1016/j.gde.2015.11.008

Source DB:  PubMed          Journal:  Curr Opin Genet Dev        ISSN： 0959-437X            Impact factor:   5.578


  90 in total

Review 1.  Eukaryotic chromosome DNA replication: where, when, and how?

Authors:  Hisao Masai; Seiji Matsumoto; Zhiying You; Naoko Yoshizawa-Sugata; Masako Oda
Journal:  Annu Rev Biochem       Date:  2010       Impact factor: 23.643

2.  G9a selectively represses a class of late-replicating genes at the nuclear periphery.

Authors:  Tomoki Yokochi; Kristina Poduch; Tyrone Ryba; Junjie Lu; Ichiro Hiratani; Makoto Tachibana; Yoichi Shinkai; David M Gilbert
Journal:  Proc Natl Acad Sci U S A       Date:  2009-11-04       Impact factor: 11.205

3.  Telomere-binding protein Taz1 controls global replication timing through its localization near late replication origins in fission yeast.

Authors:  Atsutoshi Tazumi; Masayoshi Fukuura; Ryuichiro Nakato; Ami Kishimoto; Tomokazu Takenaka; Shiho Ogawa; Ji-Hoon Song; Tatsuro S Takahashi; Takuro Nakagawa; Katsuhiko Shirahige; Hisao Masukata
Journal:  Genes Dev       Date:  2012-09-15       Impact factor: 11.361

Review 4.  How dormant origins promote complete genome replication.

Authors:  J Julian Blow; Xin Quan Ge; Dean A Jackson
Journal:  Trends Biochem Sci       Date:  2011-06-07       Impact factor: 13.807

5.  The histone H4 Lys 20 methyltransferase PR-Set7 regulates replication origins in mammalian cells.

Authors:  Mathieu Tardat; Julien Brustel; Olivier Kirsh; Christine Lefevbre; Mary Callanan; Claude Sardet; Eric Julien
Journal:  Nat Cell Biol       Date:  2010-10-17       Impact factor: 28.824

6.  A 3D map of the human genome at kilobase resolution reveals principles of chromatin looping.

Authors:  Suhas S P Rao; Miriam H Huntley; Neva C Durand; Elena K Stamenova; Ivan D Bochkov; James T Robinson; Adrian L Sanborn; Ido Machol; Arina D Omer; Eric S Lander; Erez Lieberman Aiden
Journal:  Cell       Date:  2014-12-11       Impact factor: 41.582

7.  A homologous recombination defect affects replication-fork progression in mammalian cells.

Authors:  Fayza Daboussi; Sylvain Courbet; Simone Benhamou; Patricia Kannouche; Malgorzata Z Zdzienicka; Michelle Debatisse; Bernard S Lopez
Journal:  J Cell Sci       Date:  2007-12-18       Impact factor: 5.285

8.  "The Octet": Eight Protein Kinases that Control Mammalian DNA Replication.

Authors:  Melvin L Depamphilis; Christelle M de Renty; Zakir Ullah; Chrissie Y Lee
Journal:  Front Physiol       Date:  2012-09-26       Impact factor: 4.566

9.  3D chromatin conformation correlates with replication timing and is conserved in resting cells.

Authors:  Benoit Moindrot; Benjamin Audit; Petra Klous; Antoine Baker; Claude Thermes; Wouter de Laat; Philippe Bouvet; Fabien Mongelard; Alain Arneodo
Journal:  Nucleic Acids Res       Date:  2012-08-08       Impact factor: 16.971

10.  Protein phosphatase 1 recruitment by Rif1 regulates DNA replication origin firing by counteracting DDK activity.

Authors:  Anoushka Davé; Carol Cooley; Mansi Garg; Alessandro Bianchi
Journal:  Cell Rep       Date:  2014-03-20       Impact factor: 9.423
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  14 in total

Review 1.  Preparation for DNA replication: the key to a successful S phase.

Authors:  Juanita C Limas; Jeanette Gowen Cook
Journal:  FEBS Lett       Date:  2019-10-15       Impact factor: 4.124

Review 2.  Cryo-EM of dynamic protein complexes in eukaryotic DNA replication.

Authors:  Jingchuan Sun; Zuanning Yuan; Lin Bai; Huilin Li
Journal:  Protein Sci       Date:  2016-09-14       Impact factor: 6.725

Review 3.  Order from clutter: selective interactions at mammalian replication origins.

Authors:  Mirit I Aladjem; Christophe E Redon
Journal:  Nat Rev Genet       Date:  2016-11-21       Impact factor: 53.242

Review 4.  Preventing excess replication origin activation to ensure genome stability.

Authors:  Bhushan L Thakur; Anagh Ray; Christophe E Redon; Mirit I Aladjem
Journal:  Trends Genet       Date:  2021-10-06       Impact factor: 11.639

5.  Stalled DNA Replication Forks at the Endogenous GAA Repeats Drive Repeat Expansion in Friedreich's Ataxia Cells.

Authors:  Jeannine Gerhardt; Angela D Bhalla; Jill Sergesketter Butler; James W Puckett; Peter B Dervan; Zev Rosenwaks; Marek Napierala
Journal:  Cell Rep       Date:  2016-07-14       Impact factor: 9.423

Review 6.  POLD1: Central mediator of DNA replication and repair, and implication in cancer and other pathologies.

Authors:  Emmanuelle Nicolas; Erica A Golemis; Sanjeevani Arora
Journal:  Gene       Date:  2016-06-16       Impact factor: 3.688

7.  The Replicative Consequences of Papillomavirus E2 Protein Binding to the Origin Replication Factor ORC2.

Authors:  Marsha DeSmet; Sriramana Kanginakudru; Anne Rietz; Wai-Hong Wu; Richard Roden; Elliot J Androphy
Journal:  PLoS Pathog       Date:  2016-10-04       Impact factor: 6.823

8.  Phosphorylated SIRT1 associates with replication origins to prevent excess replication initiation and preserve genomic stability.

Authors:  Koichi Utani; Haiqing Fu; Sang-Min Jang; Anna B Marks; Owen K Smith; Ya Zhang; Christophe E Redon; Noriaki Shimizu; Mirit I Aladjem
Journal:  Nucleic Acids Res       Date:  2017-07-27       Impact factor: 16.971

9.  Temporal association of ORCA/LRWD1 to late-firing origins during G1 dictates heterochromatin replication and organization.

Authors:  Yating Wang; Abid Khan; Anna B Marks; Owen K Smith; Sumanprava Giri; Yo-Chuen Lin; Rachel Creager; David M MacAlpine; Kannanganattu V Prasanth; Mirit I Aladjem; Supriya G Prasanth
Journal:  Nucleic Acids Res       Date:  2017-03-17       Impact factor: 16.971

10.  Transcription-coupled structural dynamics of topologically associating domains regulate replication origin efficiency.

Authors:  Yongzheng Li; Boxin Xue; Mengling Zhang; Liwei Zhang; Yingping Hou; Yizhi Qin; Haizhen Long; Qian Peter Su; Yao Wang; Xiaodong Guan; Yanyan Jin; Yuan Cao; Guohong Li; Yujie Sun
Journal:  Genome Biol       Date:  2021-07-12       Impact factor: 13.583
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