Novel tnpR-based transposable promoter traps suitable for RIVET studies in different gram-negative bacteria

Journal of Microbiological Methods - Tập 93 - Trang 9-11 - 2013
Mauricio J. Lozano1, María Eugenia Salas1, María de los Ángeles Giusti1, María Carla Martini1, José Luis López1, Ileana Salto1, María Florencia Del Papa1, Mariano Pistorio1, Antonio Lagares1
1IBBM-Instituto de Biotecnología y Biología Molecular, CCT-CONICET-La Plata, Departamento de Ciencias Biológicas, Facultad de Ciencias Exactas, Universidad Nacional de La Plata, Calles 47 y 115 (1900), La Plata, Argentina

Tài liệu tham khảo

Allaway, 2001, Use of differential fluorescence induction and optical trapping to isolate environmentally induced genes, Environ. Microbiol., 3, 397, 10.1046/j.1462-2920.2001.00205.x Altier, 1999, A recombinase-based selection of differentially expressed bacterial genes, Gene, 240, 99, 10.1016/S0378-1119(99)00427-8 Bachmann, 2008, High-throughput identification and validation of in situ-expressed genes of Lactococcus lactis, Appl. Environ. Microbiol., 74, 4727, 10.1128/AEM.00297-08 Ballering, 2009, Functional genomics of Enterococcus faecalis: multiple novel genetic determinants for biofilm formation in the core genome, J. Bacteriol., 191, 2806, 10.1128/JB.01688-08 Beringer, 1974, R factor transfer in Rhizobium leguminosarum, J. Gen. Microbiol., 84, 188, 10.1099/00221287-84-1-188 Bertani, 1951, Studies on lysogenesis. I. The mode of phage liberation by lysogenic Escherichia coli, J. Bacteriol., 62, 293, 10.1128/JB.62.3.293-300.1951 Bron, 2004, Identification of Lactobacillus plantarum genes that are induced in the gastrointestinal tract of mice, J. Bacteriol., 186, 5721, 10.1128/JB.186.17.5721-5729.2004 Camilli, 1995, Use of recombinase gene fusions to identify Vibrio cholerae genes induced during infection, Mol. Microbiol., 18, 671, 10.1111/j.1365-2958.1995.mmi_18040671.x Casavant, 2002, Site-specific recombination-based genetic system for reporting transient or low-level gene expression, Appl. Environ. Microbiol., 68, 3588, 10.1128/AEM.68.7.3588-3596.2002 Casavant, 2003, Use of a site-specific recombination-based biosensor for detecting bioavailable toluene and related compounds on roots, Environ. Microbiol., 5, 238, 10.1046/j.1462-2920.2003.00420.x Castillo, 2008, Recombination-based in vivo expression technology identifies Helicobacter pylori genes important for host colonization, Infect. Immun., 76, 5632, 10.1128/IAI.00627-08 Estrada-De Los Santos, 2001, Burkholderia, a genus rich in plant-associated nitrogen fixers with wide environmental and geographic distribution, Appl. Environ. Microbiol., 67, 2790, 10.1128/AEM.67.6.2790-2798.2001 Fellay, 1987, Interposon mutagenesis of soil and water bacteria: a family of DNA fragments designed for in vitro insertional mutagenesis of gram-negative bacteria, Gene, 52, 147, 10.1016/0378-1119(87)90041-2 Frank, 2012, Use of recombinase-based in vivo expression technology to characterize Enterococcus faecalis gene expression during infection identifies in vivo-expressed antisense RNAs and implicates the protease Eep in pathogenesis, Infect. Immun., 80, 539, 10.1128/IAI.05964-11 Gao, 2008, RIVET-a tool for in vivo analysis of symbiotically relevant gene expression in Sinorhizobium meliloti, Mol. Plant Microbe Interact., 21, 162, 10.1094/MPMI-21-2-0162 Harrison, 2011, Employing site-specific recombination for conditional genetic analysis in Sinorhizobium meliloti, Appl. Environ. Microbiol., 77, 3916, 10.1128/AEM.00544-11 Livny, 2004, Characterizing spontaneous induction of Stx encoding phages using a selectable reporter system, Mol. Microbiol., 51, 1691, 10.1111/j.1365-2958.2003.03934.x Lombardo, 2007, An in vivo expression technology screen for Vibrio cholerae genes expressed in human volunteers, Proc. Natl. Acad. Sci. U. S. A., 104, 18229, 10.1073/pnas.0705636104 Lozano, 2011, Development of new positive-selection RIVET tools: detection of induced promoters by the excision-based transcriptional activation of an aacCI (GmR)–gfp fusion, J. Biotechnol., 155, 147, 10.1016/j.jbiotec.2011.06.014 Mahan, 1993, Selection of bacterial virulence genes that are specifically induced in host tissues, Science, 259, 686, 10.1126/science.8430319 Martinez-Garcia, 2011, pBAM1: an all-synthetic genetic tool for analysis and construction of complex bacterial phenotypes, BMC Microbiol., 11, 38, 10.1186/1471-2180-11-38 Miller, 1988, A novel suicide vector and its use in construction of insertion mutations: osmoregulation of outer membrane proteins and virulence determinants in Vibrio cholerae requires toxR, J. Bacteriol., 170, 2575, 10.1128/jb.170.6.2575-2583.1988 Osorio, 2005, Second-generation recombination-based in vivo expression technology for large-scale screening for Vibrio cholerae genes induced during infection of the mouse small intestine, Infect. Immun., 73, 972, 10.1128/IAI.73.2.972-980.2005 Rediers, 2005, Unraveling the secret lives of bacteria: use of in vivo expression technology and differential fluorescence induction promoter traps as tools for exploring niche-specific gene expression, Microbiol. Mol. Biol. Rev., 69, 217, 10.1128/MMBR.69.2.217-261.2005 Reznikoff, 2008, Transposon Tn5, Annu. Rev. Genet., 42, 269, 10.1146/annurev.genet.42.110807.091656 Saviola, 2003, Isolation of acid-inducible genes of Mycobacterium tuberculosis with the use of recombinase-based in vivo expression technology, Infect. Immun., 71, 1379, 10.1128/IAI.71.3.1379-1388.2003 Schluter, 2010, A genome-wide survey of sRNAs in the symbiotic nitrogen-fixing alpha-proteobacterium Sinorhizobium meliloti, BMC Genomics, 11, 245, 10.1186/1471-2164-11-245 Selbitschka, 1995, A biological containment system for Rhizobium meliloti based on the use of recombination-deficient (recA-) strains, FEMS Microbiol. Ecol., 16, 223 Sharma, 2010, The primary transcriptome of the major human pathogen Helicobacter pylori, Nature, 464, 250, 10.1038/nature08756 Simon, 1983, A broad host range mobilization system for in vivo genetic engineering: transposon mutagenesis in gram negative bacteria, Biotechnology (N. Y), 1, 784, 10.1038/nbt1183-784 Tamir-Ariel, 2007, Identification of genes in Xanthomonas campestris pv. vesicatoria induced during its interaction with tomato, J. Bacteriol., 189, 6359, 10.1128/JB.00320-07 Tuntufye, 2012, Identification of avian pathogenic Escherichia coli genes that are induced in vivo during infection in chickens, Appl. Environ. Microbiol., 78, 3343, 10.1128/AEM.07677-11 Zbell, 2008, Salmonella enterica serovar Typhimurium NiFe uptake-type hydrogenases are differentially expressed in vivo, Infect. Immun., 76, 4445, 10.1128/IAI.00741-08 Zhang, 2006, Identification of Sinorhizobium meliloti early symbiotic genes by use of a positive functional screen, Appl. Environ. Microbiol., 72, 2738, 10.1128/AEM.72.4.2738-2748.2006