Literature DB >> 27931778

A Magic Spot in Genome Maintenance.

Aviram Rasouly1, Bibhusita Pani2, Evgeny Nudler3.   

Abstract

Nucleotide excision repair (NER) is the key DNA repair system that eliminates the majority of DNA helix-distorting lesions. RNA polymerase (RNAP) expedites the recognition of DNA damage by NER components via transcription-coupled DNA repair (TCR). In bacteria, a modified nucleotide ppGpp ('magic spot') is a pleiotropic second messenger that mediates the response to nutrient deficiencies by altering the initiation properties of RNAP. In this review, we discuss newly elucidated roles of guanosine 5'-diphosphate 3'-diphosphate (ppGpp) in transcription elongation that couple this alarmone to DNA damage repair and maintenance.
Copyright © 2016 Elsevier Ltd. All rights reserved.

Entities:  

Keywords:  DNA repair; backtracking; mutation rate; ppGpp; transcription elongation

Mesh：

Substances：

Year:  2016        PMID： 27931778      PMCID： PMC5182163          DOI： 10.1016/j.tig.2016.11.002

Source DB:  PubMed          Journal:  Trends Genet        ISSN： 0168-9525            Impact factor:   11.639


  56 in total

1.  Modulation of RNA polymerase by (p)ppGpp reveals a RecG-dependent mechanism for replication fork progression.

Authors:  P McGlynn; R G Lloyd
Journal:  Cell       Date:  2000-03-31       Impact factor: 41.582

2.  Regulation through the secondary channel--structural framework for ppGpp-DksA synergism during transcription.

Authors:  Anna Perederina; Vladimir Svetlov; Marina N Vassylyeva; Tahir H Tahirov; Shigeyuki Yokoyama; Irina Artsimovitch; Dmitry G Vassylyev
Journal:  Cell       Date:  2004-08-06       Impact factor: 41.582

3.  RNA polymerase modulators and DNA repair activities resolve conflicts between DNA replication and transcription.

Authors:  Brigitte W Trautinger; Razieh P Jaktaji; Ekaterina Rusakova; Robert G Lloyd
Journal:  Mol Cell       Date:  2005-07-22       Impact factor: 17.970

4.  Functional classification of drugs by properties of their pairwise interactions.

Authors:  Pamela Yeh; Ariane I Tschumi; Roy Kishony
Journal:  Nat Genet       Date:  2006-03-19       Impact factor: 38.330

5.  Transcription through the roadblocks: the role of RNA polymerase cooperation.

Authors:  Vitaly Epshtein; Francine Toulmé; A Rachid Rahmouni; Sergei Borukhov; Evgeny Nudler
Journal:  EMBO J       Date:  2003-09-15       Impact factor: 11.598

Review 6.  (p)ppGpp: still magical?

Authors:  Katarzyna Potrykus; Michael Cashel
Journal:  Annu Rev Microbiol       Date:  2008       Impact factor: 15.500

7.  UvrD facilitates DNA repair by pulling RNA polymerase backwards.

Authors:  Vitaly Epshtein; Venu Kamarthapu; Katelyn McGary; Vladimir Svetlov; Beatrix Ueberheide; Sergey Proshkin; Alexander Mironov; Evgeny Nudler
Journal:  Nature       Date:  2014-01-08       Impact factor: 49.962

Review 8.  Rethinking transcription coupled DNA repair.

Authors:  Venu Kamarthapu; Evgeny Nudler
Journal:  Curr Opin Microbiol       Date:  2015-01-14       Impact factor: 7.934

9.  The stringent response and cell cycle arrest in Escherichia coli.

Authors:  Daniel J Ferullo; Susan T Lovett
Journal:  PLoS Genet       Date:  2008-12-12       Impact factor: 5.917

10.  A defect in homologous recombination leads to increased translesion synthesis in E. coli.

Authors:  Karel Naiman; Vincent Pagès; Robert P Fuchs
Journal:  Nucleic Acids Res       Date:  2016-06-01       Impact factor: 16.971
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  10 in total

1.  Understanding bias in DNA repair.

Authors:  Terence R Strick; Nigel J Savery
Journal:  Proc Natl Acad Sci U S A       Date:  2017-03-06       Impact factor: 11.205

Review 2.  Mechanistic insights into transcription coupled DNA repair.

Authors:  Bibhusita Pani; Evgeny Nudler
Journal:  DNA Repair (Amst)       Date:  2017-06-09

3.  Elucidation of Increased Cervical Cancer Risk Due to Polymorphisms in XRCC1 (R399Q and R194W), ERCC5 (D1104H), and NQO1 (P187S).

Authors:  Shrishty Tyagi; Nisha Chaudhary; Agneesh Pratim Das; Sandeep Saini; Subhash Mohan Agarwal
Journal:  Reprod Sci       Date:  2022-10-04       Impact factor: 2.924

4.  Crucial role and mechanism of transcription-coupled DNA repair in bacteria.

Authors:  Binod K Bharati; Manjunath Gowder; Fangfang Zheng; Khaled Alzoubi; Vladimir Svetlov; Venu Kamarthapu; Jacob W Weaver; Vitaly Epshtein; Nikita Vasilyev; Liqiang Shen; Yu Zhang; Evgeny Nudler
Journal:  Nature       Date:  2022-03-30       Impact factor: 69.504

5.  Meta-analysis of XRCC1 polymorphism and risk of female reproductive system cancer.

Authors:  Na-Na Yang; Ying-Fan Huang; Jian Sun; Ying Chen; Zhong-Min Tang; Jin-Fang Jiang
Journal:  Oncotarget       Date:  2017-04-25

6.  Pervasive Transcription-coupled DNA repair in E. coli.

Authors:  Britney Martinez; Binod K Bharati; Vitaly Epshtein; Evgeny Nudler
Journal:  Nat Commun       Date:  2022-03-30       Impact factor: 17.694

7.  Clp protease and antisense RNA jointly regulate the global regulator CarD to mediate mycobacterial starvation response.

Authors:  Xinfeng Li; Fang Chen; Xiaoyu Liu; Jinfeng Xiao; Binda T Andongma; Qing Tang; Xiaojian Cao; Shan-Ho Chou; Michael Y Galperin; Jin He
Journal:  Elife       Date:  2022-01-26       Impact factor: 8.140

8.  Structure and activity of PPX/GppA homologs from Escherichia coli and Helicobacter pylori.

Authors:  He Song; Madushini N Dharmasena; Chao Wang; Gary X Shaw; Scott Cherry; Joseph E Tropea; Ding J Jin; Xinhua Ji
Journal:  FEBS J       Date:  2019-11-23       Impact factor: 5.622

9.  The Absence of (p)ppGpp Renders Initiation of Escherichia coli Chromosomal DNA Synthesis Independent of Growth Rates.

Authors:  Llorenç Fernández-Coll; Monika Maciag-Dorszynska; Krishma Tailor; Stephen Vadia; Petra Anne Levin; Agnieszka Szalewska-Palasz; Michael Cashel
Journal:  mBio       Date:  2020-03-10       Impact factor: 7.867

Review 10.  RNA polymerase pausing, stalling and bypass during transcription of damaged DNA: from molecular basis to functional consequences.

Authors:  Aleksei Agapov; Anna Olina; Andrey Kulbachinskiy
Journal:  Nucleic Acids Res       Date:  2022-04-08       Impact factor: 16.971
  10 in total

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