Literature DB >> 19109881

Networking opportunities for bacteria.

Daniel J Dwyer1, Michael A Kohanski, James J Collins.   

Abstract

In this post-genomic era, our capacity to explore biological networks and predict network architectures has been greatly expanded, accelerating interest in systems biology. Here, we highlight recent systems biology studies in prokaryotes, consider the challenges ahead, and suggest opportunities for future studies in bacterial models.

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Mesh：

Year:  2008        PMID： 19109881      PMCID： PMC2728295          DOI： 10.1016/j.cell.2008.12.016

Source DB:  PubMed          Journal:  Cell        ISSN： 0092-8674            Impact factor:   41.582


  14 in total

1.  Network motifs in the transcriptional regulation network of Escherichia coli.

Authors:  Shai S Shen-Orr; Ron Milo; Shmoolik Mangan; Uri Alon
Journal:  Nat Genet       Date:  2002-04-22       Impact factor: 38.330

Review 2.  A bacterial cell-cycle regulatory network operating in time and space.

Authors:  Harley H McAdams; Lucy Shapiro
Journal:  Science       Date:  2003-09-26       Impact factor: 47.728

3.  Assigning numbers to the arrows: parameterizing a gene regulation network by using accurate expression kinetics.

Authors:  Michal Ronen; Revital Rosenberg; Boris I Shraiman; Uri Alon
Journal:  Proc Natl Acad Sci U S A       Date:  2002-07-26       Impact factor: 11.205

Review 4.  Bacterially speaking.

Authors:  Bonnie L Bassler; Richard Losick
Journal:  Cell       Date:  2006-04-21       Impact factor: 41.582

5.  An excitable gene regulatory circuit induces transient cellular differentiation.

Authors:  Gürol M Süel; Jordi Garcia-Ojalvo; Louisa M Liberman; Michael B Elowitz
Journal:  Nature       Date:  2006-03-23       Impact factor: 49.962

6.  A predictive model for transcriptional control of physiology in a free living cell.

Authors:  Richard Bonneau; Marc T Facciotti; David J Reiss; Amy K Schmid; Min Pan; Amardeep Kaur; Vesteinn Thorsson; Paul Shannon; Michael H Johnson; J Christopher Bare; William Longabaugh; Madhavi Vuthoori; Kenia Whitehead; Aviv Madar; Lena Suzuki; Tetsuya Mori; Dong-Eun Chang; Jocelyne Diruggiero; Carl H Johnson; Leroy Hood; Nitin S Baliga
Journal:  Cell       Date:  2007-12-28       Impact factor: 41.582

Review 7.  Protein localization and cell fate in bacteria.

Authors:  L Shapiro; R Losick
Journal:  Science       Date:  1997-05-02       Impact factor: 47.728

8.  Regulation of the bacterial cell cycle by an integrated genetic circuit.

Authors:  Emanuele G Biondi; Sarah J Reisinger; Jeffrey M Skerker; Muhammad Arif; Barrett S Perchuk; Kathleen R Ryan; Michael T Laub
Journal:  Nature       Date:  2006-11-29       Impact factor: 49.962

9.  Cannibalism by sporulating bacteria.

Authors:  José E González-Pastor; Errett C Hobbs; Richard Losick
Journal:  Science       Date:  2003-06-19       Impact factor: 47.728

10.  Inferring genetic networks and identifying compound mode of action via expression profiling.

Authors:  Timothy S Gardner; Diego di Bernardo; David Lorenz; James J Collins
Journal:  Science       Date:  2003-07-04       Impact factor: 47.728
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  7 in total

1.  Deciding fate in adverse times: sporulation and competence in Bacillus subtilis.

Authors:  Daniel Schultz; Peter G Wolynes; Eshel Ben Jacob; José N Onuchic
Journal:  Proc Natl Acad Sci U S A       Date:  2009-12-07       Impact factor: 11.205

Review 2.  How antibiotics kill bacteria: from targets to networks.

Authors:  Michael A Kohanski; Daniel J Dwyer; James J Collins
Journal:  Nat Rev Microbiol       Date:  2010-05-04       Impact factor: 60.633

Review 3.  Role of reactive oxygen species in antibiotic action and resistance.

Authors:  Daniel J Dwyer; Michael A Kohanski; James J Collins
Journal:  Curr Opin Microbiol       Date:  2009-07-31       Impact factor: 7.934

4.  Genome sequence of the pattern forming Paenibacillus vortex bacterium reveals potential for thriving in complex environments.

Authors:  Alexandra Sirota-Madi; Tsviya Olender; Yael Helman; Colin Ingham; Ina Brainis; Dalit Roth; Efrat Hagi; Leonid Brodsky; Dena Leshkowitz; Vladimir Galatenko; Vladimir Nikolaev; Raja C Mugasimangalam; Sharron Bransburg-Zabary; David L Gutnick; Doron Lancet; Eshel Ben-Jacob
Journal:  BMC Genomics       Date:  2010-12-17       Impact factor: 3.969

5.  Genomewide Profiling of the Enterococcus faecalis Transcriptional Response to Teixobactin Reveals CroRS as an Essential Regulator of Antimicrobial Tolerance.

Authors:  Rachel L Darnell; Melanie K Knottenbelt; Francesca O Todd Rose; Ian R Monk; Timothy P Stinear; Gregory M Cook
Journal:  mSphere       Date:  2019-05-08       Impact factor: 4.389

Review 6.  Toward engineering synthetic microbial metabolism.

Authors:  George H McArthur; Stephen S Fong
Journal:  J Biomed Biotechnol       Date:  2009-12-14

7.  Emergence of microbial networks as response to hostile environments.

Authors:  Dario Madeo; Luis R Comolli; Chiara Mocenni
Journal:  Front Microbiol       Date:  2014-08-19       Impact factor: 5.640
  7 in total

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