Literature DB >> 18263737

Rapid selection of accessible and cleavable sites in RNA by Escherichia coli RNase P and random external guide sequences.

Eirik W Lundblad1, Gaoping Xiao, Jae-Hyeong Ko, Sidney Altman.   

Abstract

A method of inhibiting the expression of particular genes by using external guide sequences (EGSs) has been improved in its rapidity and specificity. Random EGSs that have 14-nt random sequences are used in the selection procedure for an EGS that attacks the mRNA for a gene in a particular location. A mixture of the random EGSs, the particular target RNA, and RNase P is used in the diagnostic procedure, which, after completion, is analyzed in a gel with suitable control lanes. Within a few hours, the procedure is complete. The action of EGSs designed by an older method is compared with EGSs designed by the random EGS method on mRNAs from two bacterial pathogens.

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Year:  2008        PMID： 18263737      PMCID： PMC2268140          DOI： 10.1073/pnas.0711977105

Source DB:  PubMed          Journal:  Proc Natl Acad Sci U S A        ISSN： 0027-8424            Impact factor:   11.205


  22 in total

1.  Inactivation of gene expression using ribonuclease P and external guide sequences.

Authors:  C Guerrier-Takada; S Altman
Journal:  Methods Enzymol       Date:  2000       Impact factor: 1.600

Review 2.  RNase P: from biological function to biotechnological applications.

Authors:  C Cobaleda; I Sánchez-García
Journal:  Trends Biotechnol       Date:  2001-10       Impact factor: 19.536

3.  RNA-protein hybrid ribozymes that efficiently cleave any mRNA independently of the structure of the target RNA.

Authors:  M Warashina; T Kuwabara; Y Kato; M Sano; K Taira
Journal:  Proc Natl Acad Sci U S A       Date:  2001-05-08       Impact factor: 11.205

4.  Inhibition of Escherichia coli viability by external guide sequences complementary to two essential genes.

Authors:  J McKinney; C Guerrier-Takada; D Wesolowski; S Altman
Journal:  Proc Natl Acad Sci U S A       Date:  2001-05-29       Impact factor: 11.205

5.  Mfold web server for nucleic acid folding and hybridization prediction.

Authors:  Michael Zuker
Journal:  Nucleic Acids Res       Date:  2003-07-01       Impact factor: 16.971

Review 6.  Developing RNase P ribozymes for gene-targeting and antiviral therapy.

Authors:  Phong Trang; Kihoon Kim; Fenyong Liu
Journal:  Cell Microbiol       Date:  2004-06       Impact factor: 3.715

7.  Optimization and application of the group I ribozyme trans-splicing reaction.

Authors:  Christer Einvik; Tonje Fiskaa; Eirik W Lundblad; Steinar Johansen
Journal:  Methods Mol Biol       Date:  2004

8.  Exploring the minimal substrate requirements for trans-cleavage by RNase P holoenzymes from Escherichia coli and Bacillus subtilis.

Authors:  A Hansen; T Pfeiffer; T Zuleeg; S Limmer; J Ciesiolka; R Feltens; R K Hartmann
Journal:  Mol Microbiol       Date:  2001-07       Impact factor: 3.501

9.  Artificial regulation of gene expression in Escherichia coli by RNase P.

Authors:  C Guerrier-Takada; Y Li; S Altman
Journal:  Proc Natl Acad Sci U S A       Date:  1995-11-21       Impact factor: 11.205

10.  Disruption of type III secretion in Salmonella enterica serovar Typhimurium by external guide sequences.

Authors:  Jeffrey S McKinney; Haifeng Zhang; Tomoko Kubori; Jorge E Galán; Sidney Altman
Journal:  Nucleic Acids Res       Date:  2004-02-03       Impact factor: 16.971
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  12 in total

1.  Morpholino oligonucleotides do not participate perfectly in standard Watson-Crick complexes with RNA.

Authors:  Gaoping Xiao; Donna Wesolowski; Mina Izadjoo; Sidney Altman
Journal:  RNA       Date:  2010-09-03       Impact factor: 4.942

Review 2.  Of proteins and RNA: the RNase P/MRP family.

Authors:  Olga Esakova; Andrey S Krasilnikov
Journal:  RNA       Date:  2010-07-13       Impact factor: 4.942

3.  Basic peptide-morpholino oligomer conjugate that is very effective in killing bacteria by gene-specific and nonspecific modes.

Authors:  Donna Wesolowski; Hyun Seop Tae; Neeru Gandotra; Paula Llopis; Ning Shen; Sidney Altman
Journal:  Proc Natl Acad Sci U S A       Date:  2011-09-26       Impact factor: 11.205

4.  Inactivation of expression of two genes in Saccharomyces cerevisiae with the external guide sequence methodology.

Authors:  Xudong Cheng; Jae-Hyeong Ko; Sidney Altman
Journal:  RNA       Date:  2011-01-13       Impact factor: 4.942

5.  Targeting protein translation, RNA splicing, and degradation by morpholino-based conjugates in Plasmodium falciparum.

Authors:  Aprajita Garg; Donna Wesolowski; Dulce Alonso; Kirk W Deitsch; Choukri Ben Mamoun; Sidney Altman
Journal:  Proc Natl Acad Sci U S A       Date:  2015-09-08       Impact factor: 11.205

Review 6.  External guide sequence technology: a path to development of novel antimicrobial therapeutics.

Authors:  Carol Davies-Sala; Alfonso Soler-Bistué; Robert A Bonomo; Angeles Zorreguieta; Marcelo E Tolmasky
Journal:  Ann N Y Acad Sci       Date:  2015-04-09       Impact factor: 5.691

Review 7.  Synthetic circuits, devices and modules.

Authors:  Hong Zhang; Taijiao Jiang
Journal:  Protein Cell       Date:  2010-12-10       Impact factor: 14.870

8.  Inhibition of expression of virulence genes of Yersinia pestis in Escherichia coli by external guide sequences and RNase P.

Authors:  Jae-hyeong Ko; Mina Izadjoo; Sidney Altman
Journal:  RNA       Date:  2008-06-20       Impact factor: 4.942

9.  Inactivation of expression of several genes in a variety of bacterial species by EGS technology.

Authors:  Ning Shen; Jae-hyeong Ko; Gaoping Xiao; Donna Wesolowski; Ge Shan; Bruce Geller; Mina Izadjoo; Sidney Altman
Journal:  Proc Natl Acad Sci U S A       Date:  2009-04-30       Impact factor: 11.205

10.  Small molecule inhibitors of Staphylococcus aureus RnpA alter cellular mRNA turnover, exhibit antimicrobial activity, and attenuate pathogenesis.

Authors:  Patrick D Olson; Lisa J Kuechenmeister; Kelsi L Anderson; Sonja Daily; Karen E Beenken; Christelle M Roux; Michelle L Reniere; Tami L Lewis; William J Weiss; Mark Pulse; Phung Nguyen; Jerry W Simecka; John M Morrison; Khalid Sayood; Oluwatoyin A Asojo; Mark S Smeltzer; Eric P Skaar; Paul M Dunman
Journal:  PLoS Pathog       Date:  2011-02-10       Impact factor: 6.823
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