Regulating the regulator: an RNA decoy acts as an OFF switch for the regulation of an sRNA (2009)
Mandin, Pierre, Gottesman, Susan
Many bacterial small regulatory RNAs (sRNAs) pair with mRNA targets, stimulating or inhibiting mRNA stability and/or translation. Regulation of these sRNAs is usually due to tight transcriptional...
Guillier, Maude, Gottesman, Susan
Small RNAs are widespread regulators of gene expression in numerous organisms. This study describes the mode of action of two redundant Escherichia coli sRNAs, OmrA and OmrB, that downregulate the...
Target prediction for small, noncoding RNAs in bacteria (2006)
Tjaden, Brian, Goodwin, Sarah S., Opdyke, Jason A., Guillier, Maude, Fu, Daniel X., Gottesman, Susan, ...
Many small, noncoding RNAs in bacteria act as post-transcriptional regulators by basepairing with target mRNAs. While the number of characterized small RNAs (sRNAs) has steadily increased, only a...
Target prediction for small, noncoding RNAs in bacteria (2006)
Tjaden, Brian, Goodwin, Sarah S., Opdyke, Jason A., Guillier, Maude, Fu, Daniel X., Gottesman, Susan, ...
Many small, noncoding RNAs in bacteria act as post-transcriptional regulators by basepairing with target mRNAs. While the number of characterized small RNAs (sRNAs) has steadily increased, only a...
Modulating RssB activity: IraP, a novel regulator of {sigma}S stability in Escherichia coli (2006)
Bougdour, Alexandre, Wickner, Sue, Gottesman, Susan
The σS subunit of Escherichia coli RNA polymerase regulates the expression of stationary phase and stress response genes. σS is highly unstable in exponentially growing cells, whereas its stability...
Modulating the outer membrane with small RNAs (2006)
Guillier, Maude, Gottesman, Susan, Storz, Gisela
MicF, one of the first chromosomally encoded regulatory small RNAs (sRNAs) to be discovered, was found to modulate the expression of OmpF, an abundant outer membrane protein. Several recent papers...
An antibody-based microarray assay for small RNA detection (2006)
Hu, Zonglin, Zhang, Aixia, Storz, Gisela, Gottesman, Susan, Leppla, Stephen H.
Detection of RNAs on microarrays is rapidly becoming a standard approach for molecular biologists. However, current methods frequently discriminate against structured and/or small RNA species. Here...
Coupled degradation of a small regulatory RNA and its mRNA targets in Escherichia coli (2003)
Massé, Eric, Escorcia, Freddy E., Gottesman, Susan
RyhB is a small antisense regulatory RNA that is repressed by the Fur repressor and negatively regulates at least six mRNAs encoding Fe-binding or Fe-storage proteins in Escherichia coli. When Fe is...
Coupled degradation of a small regulatory RNA and its mRNA targets in Escherichia coli (2003)
Massé, Eric, Escorcia, Freddy E., Gottesman, Susan
RyhB is a small antisense regulatory RNA that is repressed by the Fur repressor and negatively regulates at least six mRNAs encoding Fe-binding or Fe-storage proteins in Escherichia coli. When Fe is...
The RssB response regulator directly targets {sigma}S for degradation by ClpXP (2001)
Zhou, YanNing, Gottesman, Susan, Hoskins, Joel R., Maurizi, Michael R., Wickner, Sue
Identification of novel small RNAs using comparative genomics and microarrays (2001)
Wassarman, Karen M., Repoila, Francis, Rosenow, Carsten, Storz, Gisela, Gottesman, Susan
Majdalani, Nadim, Cunning, Christofer, Sledjeski, Darren, Elliott, Tom, Gottesman, Susan
DsrA RNA regulates both transcription, by overcoming transcriptional silencing by the nucleoid-associated H-NS protein, and translation, by promoting efficient translation of the stress σ factor,...
Substrate sequestration by a proteolytically inactive Lon mutant
Van Melderen, Laurence, Gottesman, Susan
Lon protein of Escherichia coli is an ATP-dependent protease responsible for the rapid turnover of both abnormal and naturally unstable proteins, including SulA, a cell division inhibitor made after...
Redundant In Vivo Proteolytic Activities of Escherichia coli Lon and the ClpYQ (HslUV) Protease
Wu, Whi-Fin, Zhou, YanNing, Gottesman, Susan
The ClpYQ (HslUV) ATP-dependent protease of Escherichia coli consists of an ATPase subunit closely related to the Clp ATPases and a protease component related to those found in the eukaryotic...
Regulation of Proteolysis of the Stationary-Phase Sigma Factor RpoS
Zhou, Yanning, Gottesman, Susan
RpoS, the stationary-phase sigma factor of Escherichia coli, is responsible for increased transcription of an array of genes when cells enter stationary phase and under certain stress conditions....
Lambda Xis Degradation In Vivo by Lon and FtsH
Leffers, Gerald G., Gottesman, Susan
Lambda Xis, which is required for site-specific excision of phage lambda from the bacterial chromosome, has a much shorter functional half-life than Int, which is required for both integration and...
A small RNA regulates the expression of genes involved in iron metabolism in Escherichia coli
A small RNA, RyhB, was found as part of a genomewide search for novel small RNAs in Escherichia coli. The RyhB 90-nt RNA down-regulates a set of iron-storage and iron-using proteins when iron is...
Gottesman, Susan, Roche, Eric, Zhou, YanNing, Sauer, Robert T.
Interruption of translation in Escherichia coli can lead to the addition of an 11-residue carboxy-terminal peptide tail to the nascent chain. This modification is mediated by SsrA RNA (also called...
A mutation in the Escherichia coli rho gene that inhibits the N protein activity of phage λ
Das, Asis, Gottesman, Max E., Wardwell, Judith, Trisler, Patsy, Gottesman, Susan
Certain Escherichia coli rho mutations, exemplified by rho026, block the growth of phage λ by interfering with phage gene expression. The phage gene N, whose product suppresses transcription...
Wilderman, Paula J., Sowa, Nathaniel A., FitzGerald, David J., FitzGerald, Peter C., Gottesman, Susan, Ochsner, Urs A., ...
In many bacteria, iron homeostasis is controlled primarily by the ferric uptake regulator (Fur), a transcriptional repressor. However, some genes, including those involved in iron storage, are...
Analysis of the Escherichia coli Alp Phenotype: Heat Shock Induction in ssrA Mutants
Munavar, Hussain, Zhou, YanNing, Gottesman, Susan
The major phenotypes of lon mutations, UV sensitivity and overproduction of capsule, are due to the stabilization of two substrates, SulA and RcsA. Inactivation of transfer mRNA (tmRNA) (encoded by...
Role of RcsF in Signaling to the Rcs Phosphorelay Pathway in Escherichia coli†
Majdalani, Nadim, Heck, Michael, Stout, Valerie, Gottesman, Susan
The rcs phosphorelay pathway components were originally identified as regulators of capsule synthesis. In addition to the transmembrane sensor kinase RcsC, the RcsA coregulator, and the response...
Effect of RyhB Small RNA on Global Iron Use in Escherichia coli
Massé, Eric, Vanderpool, Carin K., Gottesman, Susan
RyhB is a noncoding RNA regulated by the Fur repressor. It has previously been shown to cause the rapid degradation of a number of mRNAs that encode proteins that utilize iron. Here we examine the...
Coupled degradation of a small regulatory RNA and its mRNA targets in Escherichia coli
Massé, Eric, Escorcia, Freddy E., Gottesman, Susan
RyhB is a small antisense regulatory RNA that is repressed by the Fur repressor and negatively regulates at least six mRNAs encoding Fe-binding or Fe-storage proteins in Escherichia coli. When Fe is...
The RssB response regulator directly targets σS for degradation by ClpXP
Zhou, YanNing, Gottesman, Susan, Hoskins, Joel R., Maurizi, Michael R., Wickner, Sue
The σS subunit of Escherichia coli RNA polymerase regulates the expression of stationary phase and stress response genes. Control over σS activity is exercised in part by regulated degradation of...
Identification of novel small RNAs using comparative genomics and microarrays
Wassarman, Karen M., Repoila, Francis, Rosenow, Carsten, Storz, Gisela, Gottesman, Susan
A burgeoning list of small RNAs with a variety of regulatory functions has been identified in both prokaryotic and eukaryotic cells. However, it remains difficult to identify small RNAs by sequence...
An antibody-based microarray assay for small RNA detection
Hu, Zonglin, Zhang, Aixia, Storz, Gisela, Gottesman, Susan, Leppla, Stephen H.
Detection of RNAs on microarrays is rapidly becoming a standard approach for molecular biologists. However, current methods frequently discriminate against structured and/or small RNA species. Here...
Target prediction for small, noncoding RNAs in bacteria
Tjaden, Brian, Goodwin, Sarah S., Opdyke, Jason A., Guillier, Maude, Fu, Daniel X., Gottesman, Susan, ...
Many small, noncoding RNAs in bacteria act as post-transcriptional regulators by basepairing with target mRNAs. While the number of characterized small RNAs (sRNAs) has steadily increased, only a...
Modulating RssB activity: IraP, a novel regulator of σS stability in Escherichia coli
Bougdour, Alexandre, Wickner, Sue, Gottesman, Susan
The σS subunit of Escherichia coli RNA polymerase regulates the expression of stationary phase and stress response genes. σS is highly unstable in exponentially growing cells, whereas its stability...
Majdalani, Nadim, Cunning, Christofer, Sledjeski, Darren, Elliott, Tom, Gottesman, Susan
DsrA RNA regulates both transcription, by overcoming transcriptional silencing by the nucleoid-associated H-NS protein, and translation, by promoting efficient translation of the stress σ factor,...
Substrate sequestration by a proteolytically inactive Lon mutant
Van Melderen, Laurence, Gottesman, Susan
Lon protein of Escherichia coli is an ATP-dependent protease responsible for the rapid turnover of both abnormal and naturally unstable proteins, including SulA, a cell division inhibitor made after...
Redundant In Vivo Proteolytic Activities of Escherichia coli Lon and the ClpYQ (HslUV) Protease
Wu, Whi-Fin, Zhou, YanNing, Gottesman, Susan
The ClpYQ (HslUV) ATP-dependent protease of Escherichia coli consists of an ATPase subunit closely related to the Clp ATPases and a protease component related to those found in the eukaryotic...
Regulation of Proteolysis of the Stationary-Phase Sigma Factor RpoS
Zhou, Yanning, Gottesman, Susan
RpoS, the stationary-phase sigma factor of Escherichia coli, is responsible for increased transcription of an array of genes when cells enter stationary phase and under certain stress conditions....
Lambda Xis Degradation In Vivo by Lon and FtsH
Leffers, Gerald G., Gottesman, Susan
Lambda Xis, which is required for site-specific excision of phage lambda from the bacterial chromosome, has a much shorter functional half-life than Int, which is required for both integration and...
A small RNA regulates the expression of genes involved in iron metabolism in Escherichia coli
A small RNA, RyhB, was found as part of a genomewide search for novel small RNAs in Escherichia coli. The RyhB 90-nt RNA down-regulates a set of iron-storage and iron-using proteins when iron is...
Coupled degradation of a small regulatory RNA and its mRNA targets in Escherichia coli
Massé, Eric, Escorcia, Freddy E., Gottesman, Susan
RyhB is a small antisense regulatory RNA that is repressed by the Fur repressor and negatively regulates at least six mRNAs encoding Fe-binding or Fe-storage proteins in Escherichia coli. When Fe is...
The RssB response regulator directly targets σS for degradation by ClpXP
Zhou, YanNing, Gottesman, Susan, Hoskins, Joel R., Maurizi, Michael R., Wickner, Sue
The σS subunit of Escherichia coli RNA polymerase regulates the expression of stationary phase and stress response genes. Control over σS activity is exercised in part by regulated degradation of...
Identification of novel small RNAs using comparative genomics and microarrays
Wassarman, Karen M., Repoila, Francis, Rosenow, Carsten, Storz, Gisela, Gottesman, Susan
A burgeoning list of small RNAs with a variety of regulatory functions has been identified in both prokaryotic and eukaryotic cells. However, it remains difficult to identify small RNAs by sequence...
Gottesman, Susan, Roche, Eric, Zhou, YanNing, Sauer, Robert T.
Interruption of translation in Escherichia coli can lead to the addition of an 11-residue carboxy-terminal peptide tail to the nascent chain. This modification is mediated by SsrA RNA (also called...
A mutation in the Escherichia coli rho gene that inhibits the N protein activity of phage λ
Das, Asis, Gottesman, Max E., Wardwell, Judith, Trisler, Patsy, Gottesman, Susan
Certain Escherichia coli rho mutations, exemplified by rho026, block the growth of phage λ by interfering with phage gene expression. The phage gene N, whose product suppresses transcription...
Wilderman, Paula J., Sowa, Nathaniel A., FitzGerald, David J., FitzGerald, Peter C., Gottesman, Susan, Ochsner, Urs A., ...
In many bacteria, iron homeostasis is controlled primarily by the ferric uptake regulator (Fur), a transcriptional repressor. However, some genes, including those involved in iron storage, are...
Analysis of the Escherichia coli Alp Phenotype: Heat Shock Induction in ssrA Mutants
Munavar, Hussain, Zhou, YanNing, Gottesman, Susan
The major phenotypes of lon mutations, UV sensitivity and overproduction of capsule, are due to the stabilization of two substrates, SulA and RcsA. Inactivation of transfer mRNA (tmRNA) (encoded by...
Role of RcsF in Signaling to the Rcs Phosphorelay Pathway in Escherichia coli†
Majdalani, Nadim, Heck, Michael, Stout, Valerie, Gottesman, Susan
The rcs phosphorelay pathway components were originally identified as regulators of capsule synthesis. In addition to the transmembrane sensor kinase RcsC, the RcsA coregulator, and the response...
Effect of RyhB Small RNA on Global Iron Use in Escherichia coli
Massé, Eric, Vanderpool, Carin K., Gottesman, Susan
RyhB is a noncoding RNA regulated by the Fur repressor. It has previously been shown to cause the rapid degradation of a number of mRNAs that encode proteins that utilize iron. Here we examine the...
An antibody-based microarray assay for small RNA detection
Hu, Zonglin, Zhang, Aixia, Storz, Gisela, Gottesman, Susan, Leppla, Stephen H.
Detection of RNAs on microarrays is rapidly becoming a standard approach for molecular biologists. However, current methods frequently discriminate against structured and/or small RNA species. Here...
Target prediction for small, noncoding RNAs in bacteria
Tjaden, Brian, Goodwin, Sarah S., Opdyke, Jason A., Guillier, Maude, Fu, Daniel X., Gottesman, Susan, ...
Many small, noncoding RNAs in bacteria act as post-transcriptional regulators by basepairing with target mRNAs. While the number of characterized small RNAs (sRNAs) has steadily increased, only a...
Modulating RssB activity: IraP, a novel regulator of σS stability in Escherichia coli
Bougdour, Alexandre, Wickner, Sue, Gottesman, Susan
The σS subunit of Escherichia coli RNA polymerase regulates the expression of stationary phase and stress response genes. σS is highly unstable in exponentially growing cells, whereas its stability...
Modes of Regulation of RpoS by H-NS†
Zhou, YanNing, Gottesman, Susan
Regulated degradation of RpoS requires RssB and ClpXP protease. Mutations in hns increase both RpoS synthesis and stability, causing a twofold increase in synthesis and almost complete stabilization...
Tu, Xuanlin, Latifi, Tammy, Bougdour, Alexandre, Gottesman, Susan, Groisman, Eduardo A.
The sigma factor RpoS regulates the expression of many stress response genes and is required for virulence in several bacterial species. We now report that RpoS accumulates when Salmonella enterica...
The Novel Transcription Factor SgrR Coordinates the Response to Glucose-Phosphate Stress▿ †
Vanderpool, Carin K., Gottesman, Susan
SgrR is the first characterized member of a family of bacterial transcription factors containing an N-terminal DNA binding domain and a C-terminal solute binding domain. Previously, we reported...
σE Regulates and Is Regulated by a Small RNA in Escherichia coli▿ †
Thompson, Karl M., Rhodius, Virgil A., Gottesman, Susan
RybB is a small, Hfq-binding noncoding RNA originally identified in a screen of conserved intergenic regions in Escherichia coli. Fusions of the rybB promoter to lacZ were used to screen plasmid...
Translational Regulation of the Escherichia coli Stress Factor RpoS: a Role for SsrA and Lon▿ †
Ranquet, Caroline, Gottesman, Susan
Escherichia coli cell viability during starvation is strongly dependent on the expression of the rpoS gene, encoding the RpoS sigma subunit of RNA polymerase. RpoS abundance has been reported to be...
ppGpp regulation of RpoS degradation via anti-adaptor protein IraP
Bougdour, Alexandre, Gottesman, Susan
IraP is a small protein that interferes with the delivery of σS (RpoS) to the ClpXP protease by blocking the action of RssB, an adaptor protein for σS degradation. IraP was previously shown to...
Guillier, Maude, Gottesman, Susan
Small RNAs are widespread regulators of gene expression in numerous organisms. This study describes the mode of action of two redundant Escherichia coli sRNAs, OmrA and OmrB, that downregulate the...
De Lay, Nicholas, Gottesman, Susan
Small noncoding regulatory RNAs (sRNAs) play a key role in regulating the expression of many genes in Escherichia coli and other bacteria. Many of the sRNAs identified in E. coli bind to mRNAs in an...