Identifying promoter features of co-regulated genes with similar network motifs (2009)
Harari, Oscar, Del Val, Coral, Romero-Zaliz, Rocío, Shin, Dongwoo, Huang, Henry, Groisman, Eduardo A, ...
Abstract Background A large amount of computational and experimental work has been devoted to uncovering network motifs in gene regulatory networks. The leading hypothesis is that evolutionary...
Signal integration in bacterial two-component regulatory systems (2008)
Mitrophanov, Alexander Y., Groisman, Eduardo A.
Two-component systems (TCSs) and phosphorelays are key mediators of bacterial signal transduction. The signals activating these systems promote the phosphorylated state of a response regulator, which...
Zwir, Igor, Huang, Henry, Groisman, Eduardo A.
Motivation: A critical challenge of the post-genomic era is to understand how genes are differentially regulated even when they belong to a given network. Because the fundamental mechanism...
Zwir, Igor, Huang, Henry, Groisman, Eduardo A.
Motivation: A critical challenge of the postgenomic era is to understand how genes are differentially regulated even when they belong to a given network. Because the fundamental mechanism controlling...
Kato, Akinori, Groisman, Eduardo A.
A fundamental question in signal transduction is how an organism integrates multiple signals into a cellular response. Here we report the mechanism by which the Salmonella PmrA/PmrB two-component...
Ingersoll,Molly A., Moss,Jeremy E., Weinrauch,Yvette, Fisher,Peter E., Groisman,Eduardo A., Zychlinsky,Arturo
Shigella spp. are the aetiologic agents of dysentery, a severe diarrhoeal syndrome characterized by acute inflammation in the colon. The inflammatory response, which includes recruitment of...
Ingersoll, Molly A., Moss, Jeremy E., Weinrauch, Yvette, Fisher, Peter E., Groisman, Eduardo A., Zychlinsky, Arturo
The SPI-3 Pathogenicity Island of Salmonella enterica
Blanc-Potard, Anne-Béatrice, Solomon, Felix, Kayser, Jayson, Groisman, Eduardo A.
Pathogenicity islands are chromosomal clusters of pathogen-specific virulence genes often found at tRNA loci. We have determined the molecular genetic structure of SPI-3, a 17-kb pathogenicity island...
A Periplasmic d-Alanyl-d-Alanine Dipeptidase in the Gram-Negative Bacterium Salmonella enterica
Hilbert, Friederike, Del Portillo, Francisco García, Groisman, Eduardo A.
The VanX protein is a d-alanyl-d-alanine (d-Ala-d-Ala) dipeptidase essential for resistance to the glycopeptide antibiotic vancomycin. While this enzymatic activity has been typically associated with...
Cano, David A., Martínez-Moya, Marina, Pucciarelli, M. Graciela, Groisman, Eduardo A., Casadesús, Josep
Salmonella enterica serovar Typhimurium proliferates within cultured epithelial and macrophage cells. Intracellular bacterial proliferation is, however, restricted within normal fibroblast cells. To...
Kato, Akinori, Latifi, Tammy, Groisman, Eduardo A.
A fundamental question in biology is how an organism integrates multiple signals to mediate an appropriate cellular response. The PmrA/PmrB two-component system of Salmonella enterica can be...
Kox, Linda F.F., Groisman, Eduardo A.
The PmrA–PmrB two-component system of Salmonella enterica controls resistance to the peptide antibiotic polymyxin B and to several antimicrobial proteins from human neutrophils. Transcription of...
Uchiya, Kei-ichi, Groisman, Eduardo A., Nikai, Toshiaki
Salmonellae are facultative intracellular bacteria capable of surviving within macrophages. Salmonella pathogenicity island 2 (SPI-2) is required for growth within macrophages and for virulence in...
Lee, Hyunwoo, Hsu, Fong-Fu, Turk, John, Groisman, Eduardo A.
The PmrA/PmrB regulatory system of Salmonella enterica controls the modification of lipid A with aminoarabinose and phosphoethanolamine. The aminoarabinose modification is required for resistance to...
Kato, Akinori, Groisman, Eduardo A.
A fundamental question in signal transduction is how an organism integrates multiple signals into a cellular response. Here we report the mechanism by which the Salmonella PmrA/PmrB two-component...
Winfield, Mollie D., Groisman, Eduardo A.
Phenotypic differences among closely related bacteria have been largely ascribed to species-specific genes, such as those residing in pathogenicity islands. However, we now report that the...
High Frequency Generalized Transduction by Minimu Plasmid Phage
Wang, Boamin, Liu, Lin, Groisman, Eduardo A., Casadaban, Malcolm J., Berg, Claire M.
Deletion derivatives of phage Mu which replicate as multicopy plasmids, and also transpose and package like Mu, have been developed for the in vivo cloning of bacterial genes. We show here that these...
Nishino, Kunihiko, Hsu, Fong-Fu, Turk, John, Cromie, Michael J, Groisman, Eduardo A
Iron is an essential metal but can be toxic in excess. While several homeostatic mechanisms prevent oxygen-dependent killing promoted by Fe(II), little is known about how cells cope with Fe(III),...
The SPI-3 Pathogenicity Island of Salmonella enterica
Blanc-Potard, Anne-Béatrice, Solomon, Felix, Kayser, Jayson, Groisman, Eduardo A.
Pathogenicity islands are chromosomal clusters of pathogen-specific virulence genes often found at tRNA loci. We have determined the molecular genetic structure of SPI-3, a 17-kb pathogenicity island...
A Periplasmic d-Alanyl-d-Alanine Dipeptidase in the Gram-Negative Bacterium Salmonella enterica
Hilbert, Friederike, Del Portillo, Francisco García, Groisman, Eduardo A.
The VanX protein is a d-alanyl-d-alanine (d-Ala-d-Ala) dipeptidase essential for resistance to the glycopeptide antibiotic vancomycin. While this enzymatic activity has been typically associated with...
Cano, David A., Martínez-Moya, Marina, Pucciarelli, M. Graciela, Groisman, Eduardo A., Casadesús, Josep
Salmonella enterica serovar Typhimurium proliferates within cultured epithelial and macrophage cells. Intracellular bacterial proliferation is, however, restricted within normal fibroblast cells. To...
Kato, Akinori, Latifi, Tammy, Groisman, Eduardo A.
A fundamental question in biology is how an organism integrates multiple signals to mediate an appropriate cellular response. The PmrA/PmrB two-component system of Salmonella enterica can be...
Kox, Linda F.F., Groisman, Eduardo A.
The PmrA–PmrB two-component system of Salmonella enterica controls resistance to the peptide antibiotic polymyxin B and to several antimicrobial proteins from human neutrophils. Transcription of...
Uchiya, Kei-ichi, Groisman, Eduardo A., Nikai, Toshiaki
Salmonellae are facultative intracellular bacteria capable of surviving within macrophages. Salmonella pathogenicity island 2 (SPI-2) is required for growth within macrophages and for virulence in...
Lee, Hyunwoo, Hsu, Fong-Fu, Turk, John, Groisman, Eduardo A.
The PmrA/PmrB regulatory system of Salmonella enterica controls the modification of lipid A with aminoarabinose and phosphoethanolamine. The aminoarabinose modification is required for resistance to...
Kato, Akinori, Groisman, Eduardo A.
A fundamental question in signal transduction is how an organism integrates multiple signals into a cellular response. Here we report the mechanism by which the Salmonella PmrA/PmrB two-component...
Winfield, Mollie D., Groisman, Eduardo A.
Phenotypic differences among closely related bacteria have been largely ascribed to species-specific genes, such as those residing in pathogenicity islands. However, we now report that the...
Dissecting the PhoP regulatory network of Escherichia coli and Salmonella enterica
Zwir, Igor, Shin, Dongwoo, Kato, Akinori, Nishino, Kunihiko, Latifi, Tammy, Solomon, Felix, ...
Genetic and genomic approaches have been successfully used to assign genes to distinct regulatory networks. However, the present challenge of distinguishing differentially regulated genes within a...
High Frequency Generalized Transduction by Minimu Plasmid Phage
Wang, Boamin, Liu, Lin, Groisman, Eduardo A., Casadaban, Malcolm J., Berg, Claire M.
Deletion derivatives of phage Mu which replicate as multicopy plasmids, and also transpose and package like Mu, have been developed for the in vivo cloning of bacterial genes. We show here that these...
Nishino, Kunihiko, Hsu, Fong-Fu, Turk, John, Cromie, Michael J, Groisman, Eduardo A
Iron is an essential metal but can be toxic in excess. While several homeostatic mechanisms prevent oxygen-dependent killing promoted by Fe(II), little is known about how cells cope with Fe(III),...
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...
Acid pH activation of the PmrA/PmrB two-component regulatory system of Salmonella enterica
Perez, J Christian, Groisman, Eduardo A
Acid pH often triggers changes in gene expression. However, little is known about the identity of the gene products that sense fluctuations in extracytoplasmic pH. The Gram-negative pathogen...
Kato, Akinori, Mitrophanov, Alexander Y., Groisman, Eduardo A.
Organisms rely on a variety of regulatory architectures to control gene transcription. Whereas the functional characteristics of particular architectures are well understood, the properties of newly...
Mitrophanov, Alexander Y., Jewett, Mollie W., Hadley, Tricia J., Groisman, Eduardo A.
Complex genetic networks consist of structural modules that determine the levels and timing of a cellular response. While the functional properties of the regulatory architectures that make up these...
Evolution of a Bacterial Regulon Controlling Virulence and Mg2+ Homeostasis
Perez, J. Christian, Shin, Dongwoo, Zwir, Igor, Latifi, Tammy, Hadley, Tricia J., Groisman, Eduardo A.
Related organisms typically rely on orthologous regulatory proteins to respond to a given signal. However, the extent to which (or even if) the targets of shared regulatory proteins are maintained...
Perez, J. Christian, Latifi, Tammy, Groisman, Eduardo A.
The acquisition of new traits through horizontal gene transfer depends on the ability of the recipient organism to express the incorporated genes. However, foreign DNA appears to be silenced by the...
Jeon, Jihye, Kim, Hyunkeun, Yun, Jiae, Ryu, Sangryeol, Groisman, Eduardo A., Shin, Dongwoo
The Fur protein is a primary regulator that monitors and controls cytoplasmic iron levels. We now report the identification of a regulatory pathway mediated by the Salmonella response regulator RstA...
Identifying promoter features of co-regulated genes with similar network motifs
Harari, Oscar, Del Val, Coral, Romero-Zaliz, Rocío, Shin, Dongwoo, Huang, Henry, Groisman, Eduardo A, ...
Transcription factor function and promoter architecture govern the evolution of bacterial regulons
Perez, J. Christian, Groisman, Eduardo A.
Evolutionary changes in ancestral regulatory circuits can bring about phenotypic differences between related organisms. Studies of regulatory circuits in eukaryotes suggest that these modifications...
Signal integration in bacterial two-component regulatory systems
Mitrophanov, Alexander Y., Groisman, Eduardo A.
Two-component systems (TCSs) and phosphorelays are key mediators of bacterial signal transduction. The signals activating these systems promote the phosphorylated state of a response regulator, which...