Literature DB >> 19995411

Structural and functional map of a bacterial nucleoid.

Agustino Martínez-Antonio1, Alejandra Medina-Rivera, Julio Collado-Vides.   

Abstract

Genome-wide mapping of transcription factor-DNA interactions in bacterial chromosomes in vivo has begun to reveal global zones occupied by these factors that serve two purposes: compacting the bacterial DNA and influencing global programs of gene transcription.

Entities:  

Mesh：

Substances：

Year:  2009        PMID： 19995411      PMCID： PMC2812939          DOI： 10.1186/gb-2009-10-12-247

Source DB:  PubMed          Journal:  Genome Biol        ISSN： 1474-7596            Impact factor:   13.583


  24 in total

Review 1.  Fundamentally different logic of gene regulation in eukaryotes and prokaryotes.

Authors:  K Struhl
Journal:  Cell       Date:  1999-07-09       Impact factor: 41.582

2.  Topological domain structure of the Escherichia coli chromosome.

Authors:  Lisa Postow; Christine D Hardy; Javier Arsuaga; Nicholas R Cozzarelli
Journal:  Genes Dev       Date:  2004-07-15       Impact factor: 11.361

3.  Circular genome visualization and exploration using CGView.

Authors:  Paul Stothard; David S Wishart
Journal:  Bioinformatics       Date:  2004-10-12       Impact factor: 6.937

Review 4.  DNA supercoiling - a global transcriptional regulator for enterobacterial growth?

Authors:  Andrew Travers; Georgi Muskhelishvili
Journal:  Nat Rev Microbiol       Date:  2005-02       Impact factor: 60.633

5.  Selective silencing of foreign DNA with low GC content by the H-NS protein in Salmonella.

Authors:  William Wiley Navarre; Steffen Porwollik; Yipeng Wang; Michael McClelland; Henry Rosen; Stephen J Libby; Ferric C Fang
Journal:  Science       Date:  2006-06-08       Impact factor: 47.728

6.  Probing transcription factor dynamics at the single-molecule level in a living cell.

Authors:  Johan Elf; Gene-Wei Li; X Sunney Xie
Journal:  Science       Date:  2007-05-25       Impact factor: 47.728

7.  Studies of the distribution of Escherichia coli cAMP-receptor protein and RNA polymerase along the E. coli chromosome.

Authors:  David C Grainger; Douglas Hurd; Marcus Harrison; Jolyon Holdstock; Stephen J W Busby
Journal:  Proc Natl Acad Sci U S A       Date:  2005-11-21       Impact factor: 11.205

8.  Genomic analysis of LexA binding reveals the permissive nature of the Escherichia coli genome and identifies unconventional target sites.

Authors:  Joseph T Wade; Nikos B Reppas; George M Church; Kevin Struhl
Journal:  Genes Dev       Date:  2005-11-01       Impact factor: 11.361

9.  Association of nucleoid proteins with coding and non-coding segments of the Escherichia coli genome.

Authors:  David C Grainger; Douglas Hurd; Martin D Goldberg; Stephen J W Busby
Journal:  Nucleic Acids Res       Date:  2006-09-08       Impact factor: 16.971

10.  High-affinity DNA binding sites for H-NS provide a molecular basis for selective silencing within proteobacterial genomes.

Authors:  Benjamin Lang; Nicolas Blot; Emeline Bouffartigues; Malcolm Buckle; Marcel Geertz; Claudio O Gualerzi; Ramesh Mavathur; Georgi Muskhelishvili; Cynthia L Pon; Sylvie Rimsky; Stefano Stella; M Madan Babu; Andrew Travers
Journal:  Nucleic Acids Res       Date:  2007-09-18       Impact factor: 16.971
View more
  6 in total

Review 1.  Integration of syntactic and semantic properties of the DNA code reveals chromosomes as thermodynamic machines converting energy into information.

Authors:  Georgi Muskhelishvili; Andrew Travers
Journal:  Cell Mol Life Sci       Date:  2013-06-15       Impact factor: 9.261

Review 2.  Uptake and localisation of small-molecule fluorescent probes in living cells: a critical appraisal of QSAR models and a case study concerning probes for DNA and RNA.

Authors:  Richard W Horobin; Juan C Stockert; F Rashid-Doubell
Journal:  Histochem Cell Biol       Date:  2013-03-30       Impact factor: 4.304

3.  High-Resolution Mapping of the Escherichia coli Chromosome Reveals Positions of High and Low Transcription.

Authors:  Scott A Scholz; Rucheng Diao; Michael B Wolfe; Elayne M Fivenson; Xiaoxia Nina Lin; Peter L Freddolino
Journal:  Cell Syst       Date:  2019-03-20       Impact factor: 10.304

4.  Regulatory design governing progression of population growth phases in bacteria.

Authors:  Agustino Martínez-Antonio; Jason G Lomnitz; Santiago Sandoval; Maximino Aldana; Michael A Savageau
Journal:  PLoS One       Date:  2012-02-21       Impact factor: 3.240

5.  A model for Escherichia coli chromosome packaging supports transcription factor-induced DNA domain formation.

Authors:  Miriam Fritsche; Songling Li; Dieter W Heermann; Paul A Wiggins
Journal:  Nucleic Acids Res       Date:  2011-10-05       Impact factor: 16.971

6.  Clinically relevant mutant DNA gyrase alters supercoiling, changes the transcriptome, and confers multidrug resistance.

Authors:  Mark A Webber; Vito Ricci; Rebekah Whitehead; Meha Patel; Maria Fookes; Alasdair Ivens; Laura J V Piddock
Journal:  mBio       Date:  2013-07-23       Impact factor: 7.867
  6 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.