Literature DB >> 12897020

Identification of long intergenic repeat sequences associated with DNA methylation sites in Caulobacter crescentus and other alpha-proteobacteria.

Swaine L Chen1, Lucy Shapiro.   

Abstract

A systematic search for motifs associated with CcrM DNA methylation sites revealed four long (>100-bp) motifs (CIR sequences) present in up to 21 copies in Caulobacter crescentus. The CIR1 and CIR2 motifs exhibit a conserved inverted repeat organization, with a CcrM site in the center of one of the repeats.

Entities:  

Mesh：

Substances：

Year:  2003        PMID： 12897020      PMCID： PMC166474          DOI： 10.1128/JB.185.16.4997-5002.2003

Source DB:  PubMed          Journal:  J Bacteriol        ISSN： 0021-9193            Impact factor:   3.490


  26 in total

1.  ConStruct: a tool for thermodynamic controlled prediction of conserved secondary structure.

Authors:  R Lück; S Gräf; G Steger
Journal:  Nucleic Acids Res       Date:  1999-11-01       Impact factor: 16.971

2.  GenBank.

Authors:  D A Benson; I Karsch-Mizrachi; D J Lipman; J Ostell; B A Rapp; D L Wheeler
Journal:  Nucleic Acids Res       Date:  2000-01-01       Impact factor: 16.971

Review 3.  Molecular switches--the ON and OFF of bacterial phase variation.

Authors:  I R Henderson; P Owen; J P Nataro
Journal:  Mol Microbiol       Date:  1999-09       Impact factor: 3.501

4.  DNA adenine methylase mutants of Salmonella typhimurium show defects in protein secretion, cell invasion, and M cell cytotoxicity.

Authors:  F García-Del Portillo; M G Pucciarelli; J Casadesús
Journal:  Proc Natl Acad Sci U S A       Date:  1999-09-28       Impact factor: 11.205

5.  Automated de novo identification of repeat sequence families in sequenced genomes.

Authors:  Zhirong Bao; Sean R Eddy
Journal:  Genome Res       Date:  2002-08       Impact factor: 9.043

6.  The CcrM DNA methyltransferase of Agrobacterium tumefaciens is essential, and its activity is cell cycle regulated.

Authors:  L S Kahng; L Shapiro
Journal:  J Bacteriol       Date:  2001-05       Impact factor: 3.490

7.  Thermodynamic prediction of conserved secondary structure: application to the RRE element of HIV, the tRNA-like element of CMV and the mRNA of prion protein.

Authors:  R Lück; G Steger; D Riesner
Journal:  J Mol Biol       Date:  1996-05-24       Impact factor: 5.469

Review 8.  Epigenetic phase variation of the pap operon in Escherichia coli.

Authors:  M van der Woude; B Braaten; D Low
Journal:  Trends Microbiol       Date:  1996-01       Impact factor: 17.079

9.  The Brucella abortus CcrM DNA methyltransferase is essential for viability, and its overexpression attenuates intracellular replication in murine macrophages.

Authors:  G T Robertson; A Reisenauer; R Wright; R B Jensen; A Jensen; L Shapiro; R M Roop
Journal:  J Bacteriol       Date:  2000-06       Impact factor: 3.490

10.  Complete genome sequence of Caulobacter crescentus.

Authors:  W C Nierman; T V Feldblyum; M T Laub; I T Paulsen; K E Nelson; J A Eisen; J F Heidelberg; M R Alley; N Ohta; J R Maddock; I Potocka; W C Nelson; A Newton; C Stephens; N D Phadke; B Ely; R T DeBoy; R J Dodson; A S Durkin; M L Gwinn; D H Haft; J F Kolonay; J Smit; M B Craven; H Khouri; J Shetty; K Berry; T Utterback; K Tran; A Wolf; J Vamathevan; M Ermolaeva; O White; S L Salzberg; J C Venter; L Shapiro; C M Fraser; J Eisen
Journal:  Proc Natl Acad Sci U S A       Date:  2001-03-20       Impact factor: 11.205
View more
  11 in total

1.  Cytokinesis signals truncation of the PodJ polarity factor by a cell cycle-regulated protease.

Authors:  Joseph C Chen; Alison K Hottes; Harley H McAdams; Patrick T McGrath; Patrick H Viollier; Lucy Shapiro
Journal:  EMBO J       Date:  2006-01-05       Impact factor: 11.598

2.  A DNA methylation ratchet governs progression through a bacterial cell cycle.

Authors:  Justine Collier; Harley H McAdams; Lucy Shapiro
Journal:  Proc Natl Acad Sci U S A       Date:  2007-10-17       Impact factor: 11.205

3.  Reconciliation of sequence data and updated annotation of the genome of Agrobacterium tumefaciens C58, and distribution of a linear chromosome in the genus Agrobacterium.

Authors:  Steven Slater; João C Setubal; Brad Goodner; Kathryn Houmiel; Jian Sun; Rajinder Kaul; Barry S Goldman; Stephen K Farrand; Nalvo Almeida; Thomas Burr; Eugene Nester; David M Rhoads; Ryosuke Kadoi; Trucian Ostheimer; Nicole Pride; Allison Sabo; Erin Henry; Erin Telepak; Lindsey Cromes; Alana Harkleroad; Louis Oliphant; Phil Pratt-Szegila; Roy Welch; Derek Wood
Journal:  Appl Environ Microbiol       Date:  2012-12-14       Impact factor: 4.792

4.  Novel miniature transposable elements in thermophilic Synechococcus strains and their impact on an environmental population.

Authors:  William C Nelson; Devaki Bhaya; John F Heidelberg
Journal:  J Bacteriol       Date:  2012-05-04       Impact factor: 3.490

5.  Impact of small repeat sequences on bacterial genome evolution.

Authors:  Nicholas Delihas
Journal:  Genome Biol Evol       Date:  2011-07-29       Impact factor: 3.416

6.  Characterization of species-specific repeats in 613 prokaryotic species.

Authors:  Triinu Koressaar; Maido Remm
Journal:  DNA Res       Date:  2012-02-24       Impact factor: 4.458

7.  Evidence for a second class of S-adenosylmethionine riboswitches and other regulatory RNA motifs in alpha-proteobacteria.

Authors:  Keith A Corbino; Jeffrey E Barrick; Jinsoo Lim; Rüdiger Welz; Brian J Tucker; Izabela Puskarz; Maumita Mandal; Noam D Rudnick; Ronald R Breaker
Journal:  Genome Biol       Date:  2005-08-01       Impact factor: 13.583

8.  Enterobacterial small mobile sequences carry open reading frames and are found intragenically--evolutionary implications for formation of new peptides.

Authors:  Nicholas Delihas
Journal:  Gene Regul Syst Bio       Date:  2007-10-16

Review 9.  Small mobile sequences in bacteria display diverse structure/function motifs.

Authors:  Nicholas Delihas
Journal:  Mol Microbiol       Date:  2007-12-10       Impact factor: 3.501

10.  Identification and characterization of a minisatellite contained within a novel miniature inverted-repeat transposable element (MITE) of Porphyromonas gingivalis.

Authors:  Brian A Klein; Tsute Chen; Jodie C Scott; Andrea L Koenigsberg; Margaret J Duncan; Linden T Hu
Journal:  Mob DNA       Date:  2015-10-06
View more

北京卡尤迪生物科技股份有限公司 © 2022-2023.