Literature DB >> 25331438

Where to begin? Mapping transcription start sites genome-wide in Escherichia coli.

Joseph T Wade1.   

Abstract

Recent genome-wide studies of bacterial transcription have revealed large numbers of promoters located inside genes. In this issue of the Journal of Bacteriology, Thomason and colleagues (J. Bacteriol. 197:18-28, 2015, doi:10.1128/JB.02096-14) map transcription start sites in Escherichia coli on an unprecedented scale. This work provides important insights into the regulation of transcripts that initiate inside genes and sources of variability between studies aimed at identifying these RNAs.
Copyright © 2015, American Society for Microbiology. All Rights Reserved.

Entities:  

Mesh：

Substances：

Year:  2014        PMID： 25331438      PMCID： PMC4288686          DOI： 10.1128/JB.02410-14

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


  19 in total

1.  RNA expression analysis using a 30 base pair resolution Escherichia coli genome array.

Authors:  D W Selinger; K J Cheung; R Mei; E M Johansson; C S Richmond; F R Blattner; D J Lockhart; G M Church
Journal:  Nat Biotechnol       Date:  2000-12       Impact factor: 54.908

2.  Genome-wide antisense transcription drives mRNA processing in bacteria.

Authors:  Iñigo Lasa; Alejandro Toledo-Arana; Alexander Dobin; Maite Villanueva; Igor Ruiz de los Mozos; Marta Vergara-Irigaray; Víctor Segura; Delphine Fagegaltier; José R Penadés; Jaione Valle; Cristina Solano; Thomas R Gingeras
Journal:  Proc Natl Acad Sci U S A       Date:  2011-11-28       Impact factor: 11.205

3.  Global transcriptional start site mapping using differential RNA sequencing reveals novel antisense RNAs in Escherichia coli.

Authors:  Maureen K Thomason; Thorsten Bischler; Sara K Eisenbart; Konrad U Förstner; Aixia Zhang; Alexander Herbig; Kay Nieselt; Cynthia M Sharma; Gisela Storz
Journal:  J Bacteriol       Date:  2014-09-29       Impact factor: 3.490

4.  Widespread antisense transcription in Escherichia coli.

Authors:  James E Dornenburg; Anne M Devita; Michael J Palumbo; Joseph T Wade
Journal:  MBio       Date:  2010-05-18       Impact factor: 7.867

5.  Deep sequencing reveals as-yet-undiscovered small RNAs in Escherichia coli.

Authors:  Atsuko Shinhara; Motomu Matsui; Kiriko Hiraoka; Wataru Nomura; Reiko Hirano; Kenji Nakahigashi; Masaru Tomita; Hirotada Mori; Akio Kanai
Journal:  BMC Genomics       Date:  2011-08-24       Impact factor: 3.969

6.  Dark Matter RNA: Existence, Function, and Controversy.

Authors:  Philipp Kapranov; Georges St Laurent
Journal:  Front Genet       Date:  2012-04-23       Impact factor: 4.599

7.  Widespread suppression of intragenic transcription initiation by H-NS.

Authors:  Shivani S Singh; Navjot Singh; Richard P Bonocora; Devon M Fitzgerald; Joseph T Wade; David C Grainger
Journal:  Genes Dev       Date:  2014-01-21       Impact factor: 11.361

8.  Conservation of transcription start sites within genes across a bacterial genus.

Authors:  Wenjun Shao; Morgan N Price; Adam M Deutschbauer; Margaret F Romine; Adam P Arkin
Journal:  MBio       Date:  2014-07-01       Impact factor: 7.867

9.  Revisiting the coding potential of the E. coli genome through Hfq co-immunoprecipitation.

Authors:  Ivana Bilusic; Niko Popitsch; Philipp Rescheneder; Renée Schroeder; Meghan Lybecker
Journal:  RNA Biol       Date:  2014-06-12       Impact factor: 4.652

10.  Pervasive transcription: detecting functional RNAs in bacteria.

Authors:  Meghan Lybecker; Ivana Bilusic; Rahul Raghavan
Journal:  Transcription       Date:  2014-10-30
View more
  5 in total

1.  Transcriptional profiling of Rickettsia prowazekii coding and non-coding transcripts during in vitro host-pathogen and vector-pathogen interactions.

Authors:  Casey L C Schroeder; Hema P Narra; Abha Sahni; Kamil Khanipov; Jignesh Patel; Yuriy Fofanov; Sanjeev K Sahni
Journal:  Ticks Tick Borne Dis       Date:  2017-06-29       Impact factor: 3.744

Review 2.  Cross-species RNA-seq for deciphering host-microbe interactions.

Authors:  Alexander J Westermann; Jörg Vogel
Journal:  Nat Rev Genet       Date:  2021-02-17       Impact factor: 53.242

3.  Reconstruction of Transcription Control Networks in Mollicutes by High-Throughput Identification of Promoters.

Authors:  Gleb Y Fisunov; Irina A Garanina; Daria V Evsyutina; Tatiana A Semashko; Anastasia S Nikitina; Vadim M Govorun
Journal:  Front Microbiol       Date:  2016-12-06       Impact factor: 5.640

4.  Genome-wide relationship between R-loop formation and antisense transcription in Escherichia coli.

Authors:  Nalini Raghunathan; Rajvardhan M Kapshikar; Jakku K Leela; Jillella Mallikarjun; Philippe Bouloc; Jayaraman Gowrishankar
Journal:  Nucleic Acids Res       Date:  2018-04-20       Impact factor: 16.971

5.  Regulation of Bottromycin Biosynthesis Involves an Internal Transcriptional Start Site and a Cluster-Situated Modulator.

Authors:  Natalia M Vior; Eva Cea-Torrescassana; Tom H Eyles; Govind Chandra; Andrew W Truman
Journal:  Front Microbiol       Date:  2020-03-26       Impact factor: 6.064
  5 in total

北京卡尤迪生物科技股份有限公司 © 2022-2023.