Burkholderia cenocepacia Phage BcepMu and a Family of Mu-like Phages Encoding Potential Pathogenesis Factors

Journal of Molecular Biology - Tập 340 Số 1 - Trang 49-65 - 2004
Elizabeth J. Summer1, Carlos F. Gonzalez2, Thomas Carlisle3, Leslie M. McClain3, Andrea M. Cass1, Christos G. Savva4, John J. LiPuma5, Ry Young1
1Dept of Biochemistry and Biophysics, Texas A&M University, College Station, TX 77843-2128, USA
2Department of Plant Pathology and Microbiology, Texas A&M University, College Station, TX 77843-2132, USA,
3Department of Biology, Texas A&M University, College Station, TX 77843-3258 USA
4Microscopy & Imaging Center,Texas A&M University,College Station,TX 77843-2257,USA
5Department of Pediatrics and Communicable Diseases, University of Michigan Medical School, Ann Arbor, MI 48109, USA

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Coenye, 2001, Taxonomy and identification of the Burkholderia cepacia complex, J. Clin. Microbiol., 39, 3427, 10.1128/JCM.39.10.3427-3436.2001

Vandamme, 2002, Burkholderia anthina sp. nov. and Burkholderia pyrrocinia, two additional Burkholderia cepacia complex bacteria, may confound results of new molecular diagnostic tools, FEMS Immunol. Med. Microbiol., 33, 143, 10.1111/j.1574-695X.2002.tb00584.x

LiPuma, 2001, Disproportionate distribution of Burkholderia cepacia complex species and transmissibility markers in cystic fibrosis, Am. J. Respir. Crit. Care Med., 164, 92, 10.1164/ajrccm.164.1.2011153

Vandamme, 2003, Burkholderia cenocepacia sp. nov.—a new twist to an old story, Res. Microbiol., 154, 91, 10.1016/S0923-2508(03)00026-3

Coenye, 2002, Multilocus restriction typing: a novel tool for studying global epidemiology of Burkholderia cepacia complex infection in cystic fibrosis, J. Infect. Dis., 185, 1454, 10.1086/340279

Johnson, 1994, Linkage analysis of geographic and clinical clusters in Pseudomonas cepacia infections by multilocus enzyme electrophoresis and ribotyping, J. Clin. Microbiol., 32, 924, 10.1128/JCM.32.4.924-930.1994

Ledson, 2002, Outcome of Burkholderia cepacia colonisation in an adult cystic fibrosis centre, Thorax, 57, 142, 10.1136/thorax.57.2.142

Chen, 2001, Endemicity and inter-city spread of Burkholderia cepacia genomovar III in cystic fibrosis, J. Pediatr., 139, 643, 10.1067/mpd.2001.118430

LiPuma, 1988, Ribotype analysis of Pseudomonas cepacia from cystic fibrosis treatment centers, J. Pediatr., 113, 859, 10.1016/S0022-3476(88)80018-0

Mahenthiralingam, 2000, Diagnostically and experimentally useful panel of strains from the Burkholderia cepacia complex, J. Clin. Microbiol., 38, 910, 10.1128/JCM.38.2.910-913.2000

Coenye, 2003, Population structure analysis of Burkholderia cepacia genomovar III: varying degrees of genetic recombination characterize major clonal complexes, Microbiology, 149, 77, 10.1099/mic.0.25850-0

Coenye, 2002, Comparative assessment of genotyping methods for epidemiologic study of Burkholderia cepacia genomovar III, J. Clin. Microbiol., 40, 3300, 10.1128/JCM.40.9.3300-3307.2002

Deng, 2003, Comparative genomics of Salmonella enterica serovar Typhi strains Ty2 and CT18, J. Bacteriol., 185, 2330, 10.1128/JB.185.7.2330-2337.2003

Parkhill, 2001, Complete genome sequence of a multiple drug resistant Salmonella enterica serovar Typhi CT18, Nature, 413, 848, 10.1038/35101607

Casjens, 2003, Prophages and bacterial genomics: what have we learned so far?, Mol. Microbiol., 49, 277, 10.1046/j.1365-2958.2003.03580.x

Duchaud, 2003, The genome sequence of the entomopathogenic bacterium Photorhabdus luminescens, Nature Biotechnol., 21, 1307, 10.1038/nbt886

2003, The complete genome sequence of Chromobacterium violaceum reveals remarkable and exploitable bacterial adaptability, Proc. Natl Acad. Sci. USA, 100, 11660, 10.1073/pnas.1832124100

Juhala, 2000, Genomic sequences of bacteriophages HK97 and HK022: pervasive genetic mosaicism in the lambdoid bacteriophages, J. Mol. Biol., 299, 27, 10.1006/jmbi.2000.3729

Hendrix, 2000, The origins and ongoing evolution of viruses, Trends Microbiol., 8, 504, 10.1016/S0966-842X(00)01863-1

Morgan, 2002, Bacteriophage Mu genome sequence: analysis and comparison with Mu-like prophages in Haemophilus, Neisseria and Deinococcus, J. Mol. Biol., 317, 337, 10.1006/jmbi.2002.5437

McClelland, 2001, Complete genome sequence of Salmonella enterica serovar Typhimurium LT2, Nature, 413, 852, 10.1038/35101614

Mariño-Ramirez, 2001, Using lambda repressor fusions to isolate and characterize self-assembling domains

Mariño-Ramirez, 2002, Isolation and mapping of self-assembling protein domains encoded by the Saccharomyces cerevisiae genome using lambda repressor fusions, Yeast, 19, 641, 10.1002/yea.867

Ast, 2002, Expression of the ExeAB complex of Aeromonas hydrophila is required for the localization and assembly of the ExeD secretion port multimer, Mol. Microbiol., 44, 217, 10.1046/j.1365-2958.2002.02870.x

Hara, 1992, A macrolide 3-O-acyltransferase gene from the midecamycin-producing species Streptomyces mycarofaciens, J. Bacteriol., 174, 5141, 10.1128/jb.174.15.5141-5144.1992

Slauch, 1996, Molecular characterization of the oafA locus responsible for acetylation of Salmonella typhimurium O-antigen: oafA is a member of a family of integral membrane trans-acylases, J. Bacteriol., 178, 5904, 10.1128/jb.178.20.5904-5909.1996

Marchler-Bauer, 2003, CDD: a curated Entrez database of conserved domain alignments, Nucl. Acids Res., 31, 383, 10.1093/nar/gkg087

Leschziner, 1998, Tn552 transposase catalyzes concerted strand transfer in vitro, Proc. Natl Acad. Sci. USA, 95, 7345, 10.1073/pnas.95.13.7345

Rowland, 1989, Characterization of the staphylococcal beta-lactamase transposon Tn552, EMBO J., 8, 2761, 10.1002/j.1460-2075.1989.tb08418.x

Rowland, 1995, Tn552 transposase purification and in vitro activities, EMBO J., 14, 196, 10.1002/j.1460-2075.1995.tb06990.x

Wang, 2000, Holins: the protein clocks of bacteriophage infections, Annu. Rev. Microbiol., 54, 799, 10.1146/annurev.micro.54.1.799

Holtje, 2001, Enzymology of elongation and constriction of the murein sacculus of Escherichia coli, Biochimie, 83, 103, 10.1016/S0300-9084(00)01226-8

Holtje, 1996, Lytic transglycosylases, EXS, 75, 425

Xu, 2004, A new type of signal, the signal arrest-release (SAR) sequence, mediates export and control of the phage P1 endolysin, Proc. Natl Acad. Sci. USA, 10.1073/pnas.0400957101

Kedzierska, 1996, The Rz1 gene product of bacteriophage lambda is a lipoprotein localized in the outer membrane of Escherichia coli, Gene, 168, 1, 10.1016/0378-1119(95)00712-1

Young, 1979, Transposition mutagenesis of bacteriophage lambda: a new gene affecting cell lysis, J. Mol. Biol., 132, 307, 10.1016/0022-2836(79)90262-6

Zhang, 1999, Complementation and characterization of the nested Rz and Rz1 reading frames in the genome of bacteriophage lambda, Mol. Gen. Genet., 262, 659, 10.1007/s004380051128

Nakayama, 1999, The complete nucleotide sequence of phi CTX, a cytotoxin-converting phage of Pseudomonas aeruginosa: implications for phage evolution and horizontal gene transfer via bacteriophages, Mol. Microbiol., 31, 399, 10.1046/j.1365-2958.1999.01158.x

Oakey, 2002, The complete nucleotide sequence of the Vibrio harveyi bacteriophage VHML, J. Appl. Microbiol., 93, 1089, 10.1046/j.1365-2672.2002.01776.x

Temple, 1991, Nucleotide sequence of the genes encoding the major tail sheath and tail tube proteins of bacteriophage P2, Virology, 181, 353, 10.1016/0042-6822(91)90502-3

Xue, 1995, Tail sheath and tail tube genes of the temperate coliphage 186, Virology, 212, 218, 10.1006/viro.1995.1471

Xue, 1995, DNA sequence of tail fiber genes of coliphage 186 and evidence for a common ancestor shared by dsDNA phage fiber genes, Virology, 212, 128, 10.1006/viro.1995.1461

Christie, 2002, Programmed translational frameshift in the bacteriophage P2 FETUD tail gene operon, J. Bacteriol., 184, 6522, 10.1128/JB.184.23.6522-6531.2002

Levin, 1993, A programmed translational frameshift is required for the synthesis of a bacteriophage lambda tail assembly protein, J. Mol. Biol., 234, 124, 10.1006/jmbi.1993.1568

Smith, 1998, Bacteriophage collagen, Science, 279, 1834, 10.1126/science.279.5358.1831g

Sandmeier, 1991, Gene organization in the multiple DNA inversion region Min of plasmid p15B of E.coli 15T(−): assemblage of a variable gene, Nucl. Acids Res., 19, 5831, 10.1093/nar/19.21.5831

Plasterk, 1983, Site-specific recombination by Gin of bacteriophage Mu: inversions and deletions, Virology, 127, 24, 10.1016/0042-6822(83)90367-7

Hashemolhosseini, 1996, Characterization of the helper proteins for the assembly of tail fibers of coliphages T4 and lambda, J. Bacteriol., 178, 6258, 10.1128/jb.178.21.6258-6265.1996

Hendrix, 1992, Bacteriophage lambda PaPa: not the mother of all lambda phages, Science, 258, 1145, 10.1126/science.1439823

Montag, 1989, A component of the side tail fiber of Escherichia coli bacteriophage lambda can functionally replace the receptor-recognizing part of a long tail fiber protein of the unrelated bacteriophage T4, J. Bacteriol., 171, 4378, 10.1128/jb.171.8.4378-4384.1989

Symonds, 1987

Gill, 1981, Mutator bacteriophage D108 and its DNA: an electron microscopic characterization, J. Virol., 37, 420, 10.1128/JVI.37.1.420-430.1981

Akhveridian, 1984, Wide distribution of transposable phages in natural populations of Pseudomonas aeruginosa, Genetika, 20, 1612

Wang, 2004, Complete sequence and evolutionary genomic analysis of the Pseudomonas aeruginosa transposable bacteriophage D3112, J. Bacteriol., 186, 400, 10.1128/JB.186.2.400-410.2004

Heidelberg, 2002, Genome sequence of the dissimilatory metal ion-reducing bacterium Shewanella oneidensis, Nature Biotechnol., 20, 1118, 10.1038/nbt749

Hansen, 1978, Isolation of large bacterial plasmids and characterization of the P2 incompatibility group plasmids pMG1 and pMG5, J. Bacteriol., 135, 227, 10.1128/JB.135.1.227-238.1978

Besemer, 1999, Heuristic approach to deriving models for gene finding, Nucl. Acids Res., 27, 3911, 10.1093/nar/27.19.3911

Hu, 1993, Probing the roles of residues at the e and g positions of the GCN4 leucine zipper by combinatorial mutagenesis, Protein Sci., 2, 1072, 10.1002/pro.5560020701