Walsh C: Molecular mechanisms that confer antibacterial drug resistance. Nature. 2000, 406: 775-781. 10.1038/35021219.
Article
CAS
PubMed
Google Scholar
Scarselli M, Giuliani MM, Adu-Bobie J, Pizza M, Rappuoli R: The impact of genomics on vaccine design. Trends Biotechnol. 2005, 23: 84-91. 10.1016/j.tibtech.2004.12.008.
Article
CAS
PubMed
Google Scholar
Baar C, Eppinger M, Raddatz G, Simon J, Lanz C, Klimmek O, Nandakumar R, Gross R, Rosinus A, Keller H, Jagtap P, Linke B, Meyer F, Lederer H, Schuster SC: Complete genome sequence and analysis of Wolinella succinogenes. Proc Natl Acad Sci. 2003, 100: 11690-11695. 10.1073/pnas.1932838100.
Article
PubMed Central
CAS
PubMed
Google Scholar
Dobrindt U, Hochhut B, Hentschel U, Hacker J: Genomic islands in pathogenic and environmental microorganisms. Nat Rev Microbiol. 2004, 2: 414-424. 10.1038/nrmicro884.
Article
CAS
PubMed
Google Scholar
Chain PS, Carniel E, Larimer FW, Lamerdin J, Stoutland PO, Regala WM, Georgescu AM, Vergez LM, Land ML, Motin VL, Brubaker RR, Fowler J, Hinnebusch J, Marceau M, Medigue C, Simonet M, Chenal-Francisque V, Souza B, Dacheux D, Elliott JM, Derbise A, Hauser LJ, Garcia E: Insights into the evolution of Yersinia pestis through whole-genome comparison with Yersinia pseudotuberculosis. Proc Natl Acad Sci USA. 2004, 101: 13826-13831. 10.1073/pnas.0404012101.
Article
PubMed Central
CAS
PubMed
Google Scholar
Vedros NA, Chow D, Liong E: Experimental vaccine against Pseudomonas pseudomallei infections in captive cetaceans. Dis Aquat Org. 1988, 5: 157-161.
Article
Google Scholar
Dance DAB: Melioidosis: the tip of the iceberg. Clin Microbiol Rev. 1991, 4: 52-60.
PubMed Central
CAS
PubMed
Google Scholar
Yabuuchi E, Arakawa M: Burkholderia pseudomallei and melioidosis: be aware in temperate area. Microbiol Immunol. 1993, 37: 823-836.
Article
CAS
PubMed
Google Scholar
Rotz LD, Khan AS, Lillibridge SR, Ostroff SM, Hughes JM: Public health assessment of potential biological terrorism agents. Emerg Infect Dis. 2002, 8: 225-230.
Article
PubMed Central
PubMed
Google Scholar
Wuthiekanun V, Smith MD, Dance DA, Walsh AL, Pitt TL, White NJ: Biochemical characteristics of clinical and environmental isolates of Burkholderia pseudomallei. J Med Microbiol. 1996, 45: 408-412.
Article
CAS
PubMed
Google Scholar
Brett PJ, Deshazer D, Woods DE: Characterization of Burkholderia pseudomallei and Burkholderia pseudomallei-like strains. Epidemiol Infect. 1997, 118: 137-148. 10.1017/S095026889600739X.
Article
PubMed Central
CAS
PubMed
Google Scholar
Brett PJ, DeShazer D, Woods DE: Burkholderia thailandensis sp. nov., a Burkholderia pseudomallei-like species. Int J Syst Bacteriol. 1998, 48: 317-320.
Article
CAS
PubMed
Google Scholar
Kim HS, Schell MA, Yu Y, Ulrich RL, Sarria SH, Nierman WC, DeShazer D: Bacterial genome adaptation to niches: Divergence of the potential virulence genes in three Burkholderia species of different survival strategies. BMC Genomics. 2005, 6: 174-10.1186/1471-2164-6-174.
Article
PubMed Central
PubMed
Google Scholar
Cummings CA, Brinig MM, Lepp PW, van de Pas S, Relman DA: Bordetella species are distinguished by patterns of substantial gene loss and host adaptation. J Bacteriol. 2004, 186: 1484-1492. 10.1128/JB.186.5.1484-1492.2004.
Article
PubMed Central
CAS
PubMed
Google Scholar
Holden MT, Titball RW, Peacock SJ, Cerdeno-Tarraga AM, Atkins T, Crossman LC, Pitt T, Churcher C, Mungall K, Bentley SD, Sebaihia M, Thomson NR, Bason N, Beacham IR, Brooks K, Brown KA, Brown NF, Challis GL, Cherevach I, Chillingworth T, Cronin A, Crossett B, Davis P, DeShazer D, Feltwell T, Fraser A, Hance Z, Hauser H, Holroyd S, Jagels K, Keith KE, Maddison M, Moule S, Price C, Quail MA, Rabbinowitsch E, Rutherford K, Sanders M, Simmonds M, Songsivilai S, Stevens K, Tumapa S, Vesaratchavest M, Whitehead S, Yeats C, Barrell BG, Oyston PC, Parkhill J: Genomic plasticity of the causative agent of melioidosis, Burkholderia pseudomallei. Proc Natl Acad Sci USA. 2004, 101: 14240-14245. 10.1073/pnas.0403302101.
Article
PubMed Central
CAS
PubMed
Google Scholar
Coenye T, Vandamme P: Diversity and significance of Burkholderia species occupying diverse ecological niches. Environ Microbiol. 2003, 5: 719-729. 10.1046/j.1462-2920.2003.00471.x.
Article
CAS
PubMed
Google Scholar
Nierman WC, DeShazer D, Kim HS, Tettelin H, Nelson KE, Feldblyum T, Ulrich RL, Ronning CM, Brinkac LM, Daugherty SC, Davidsen TD, Deboy RT, Dimitrov G, Dodson RJ, Durkin AS, Gwinn ML, Haft DH, Khouri H, Kolonay JF, Madupu R, Mohammoud Y, Nelson WC, Radune D, Romero CM, Sarria S, Selengut J, Shamblin C, Sullivan SA, White O, Yu Y, Zafar N, Zhou L, Fraser CM: Structural flexibility in the Burkholderia mallei genome. Proc Natl Acad Sci USA. 2004, 101: 14246-14251. 10.1073/pnas.0403306101.
Article
PubMed Central
CAS
PubMed
Google Scholar
Ochman H, Wilson AC: Evolution in bacteria: evidence for a universal substitution rate in cellular genomes. J Mol Evol. 1987, 26: 74-86. 10.1007/BF02111283.
Article
CAS
PubMed
Google Scholar
Achtman M, Zurth K, Morelli G, Torrea G, Guiyoule A, Carniel E: Yersinia pestis, the cause of plague, is a recently emerged clone of Yersinia pseudotuberculosis. Proc Natl Acad Sci. 1999, 96: 14043-14048. 10.1073/pnas.96.24.14043.
Article
PubMed Central
CAS
PubMed
Google Scholar
Ochman H, Jones IB: Evolutionary dynamics of full genome content in Escherichia coli. EMBO J. 2000, 19: 6637-6643. 10.1093/emboj/19.24.6637.
Article
PubMed Central
CAS
PubMed
Google Scholar
DeShazer D, Brett PJ, Woods DE: The type II O-antigenic polysaccharide moiety of Burkholderia pseudomallei lipopolysaccharide is required for serum resistance and virulence. Mol Microbiol. 1998, 30: 1081-1100. 10.1046/j.1365-2958.1998.01139.x.
Article
CAS
PubMed
Google Scholar
Soldo B, Lazarevic V, Karamata D: tagO is involved in the synthesis of all anionic cell-wall polymers in Bacillus subtilis 168. Microbiology. 2002, 148: 2079-2087.
Article
CAS
PubMed
Google Scholar
Woods DE, Jeddeloh JA, Fritz DL, DeShazer D: Burkholderia thailandensis E125 harbors a temperate bacteriophage specific for Burkholderia mallei. J Bacteriol. 2002, 184: 4003-4017. 10.1128/JB.184.14.4003-4017.2002.
Article
PubMed Central
CAS
PubMed
Google Scholar
Smith MD, Angus B, Wuthiekanun V, White NJ: Arabinose assimilation defines a non-virulent biotype of Burkholderia pseudomallei. Infect Immun. 1997, 65: 4319-4321.
PubMed Central
CAS
PubMed
Google Scholar
Moore RA, Reckseidler-Zenteno S, Kim H, Nierman W, Yu Y, Tuanyok A, Warawa J, DeShazer D, Woods DE: Contribution of gene loss to the pathogenic evolution of Burkholderia pseudomallei and Burkholderia mallei. Infect Immun. 2004, 72: 4172-4187. 10.1128/IAI.72.7.4172-4187.2004.
Article
PubMed Central
CAS
PubMed
Google Scholar
Makino K, Kim SK, Shinagawa H, Amemura M, Nakata A: Molecular analysis of the cryptic and functional phn operons for phosphonate use in Escherichia coli K-12. J Bacteriol. 1991, 173: 2665-2672.
PubMed Central
CAS
PubMed
Google Scholar
Wanner BL, Metcalf WW: Molecular genetic studies of a 10.9-kb operon in Escherichia coli for phosphonate uptake and biodegradation. FEMS Microbiol Lett. 1992, 79: 133-139.
Article
Google Scholar
Kespichayawattana W, Intachote P, Utaisincharoen P, Sirisinha S: Virulent Burkholderia pseudomallei is more efficient than avirulent Burkholderia thailandensis in invasion of and adherence to cultured human epithelial cells. Microb Pathog. 2004, 36: 287-292. 10.1016/j.micpath.2004.01.001.
Article
CAS
PubMed
Google Scholar
Reckseidler SL, DeShazer D, Sokol PA, Woods DE: Detection of bacterial virulence genes by subtractive hybridization: identification of capsular polysaccharide of Burkholderia pseudomallei as a major virulence determinant. Infect Immun. 2001, 69: 34-44. 10.1128/IAI.69.1.34-44.2001.
Article
PubMed Central
CAS
PubMed
Google Scholar
Maki M, Jarvinen N, Rabina J, Roos C, Maaheimo H, Renkonen R, Pirkko , Mattila : Functional expression of Pseudomonas aeruginosa GDP-4-keto-6-deoxy-D-mannose reductase which synthesizes GDP-rhamnose. Eur J Biochem. 2002, 269: 593-601. 10.1046/j.0014-2956.2001.02688.x.
Article
CAS
PubMed
Google Scholar
Latifi A, Winson MK, Foglino M, Bycroft BW, Stewart GS, Lazdunski A, Williams P: Multiple homologues of LuxR and LuxI control expression of virulence determinants and secondary metabolites through quorum sensing in Pseudomonas aeruginosa PAO1. Mol Microbiol. 1995, 17: 333-343.
Article
CAS
PubMed
Google Scholar
Rainbow L, Hart CA, Winstanley C: Distribution of type III secretion gene clusters in Burkholderia pseudomallei, B. thailandensis and B. mallei. J Med Microbiol. 2002, 51: 374-384.
Article
CAS
PubMed
Google Scholar
Gough J, Karplus K, Hughey R, Chothia C: Assignment of Homology to Genome Sequences using a Library of Hidden Markov Models that Represent all Proteins of Known Structure. J Mol Biol. 2001, 313: 903-919. 10.1006/jmbi.2001.5080.
Article
CAS
PubMed
Google Scholar
Marlovits TC, Kubori T, Sukhan A, Thomas DR, Galan JE, Unger VM: Structural insights into the assembly of the type III secretion needle complex. Science. 2004, 306: 1040-1042. 10.1126/science.1102610.
Article
PubMed Central
CAS
PubMed
Google Scholar
Balakirev ES, Ayala FJ: Pseudogenes: are they "junk" or functional DNA?. Annu Rev Genet. 2003, 37: 123-151. 10.1146/annurev.genet.37.040103.103949.
Article
CAS
PubMed
Google Scholar
Lerat E, Ochman H: Psi-Phi: exploring the outer limits of bacterial pseudogenes. Genome Res. 2004, 14: 2273-2278. 10.1101/gr.2925604.
Article
PubMed Central
CAS
PubMed
Google Scholar
Hayashi T, Makino K, Ohnishi M, Kurokawa K, Ishii K, Yokoyama K, Han CG, Ohtsubo E, Nakayama K, Murata T, Tanaka M, Tobe T, Iida T, Takami H, Honda T, Sasakawa C, Ogasawara N, Yasunaga T, Kuhara S, Shiba T, Hattori M, Shinagawa H: Complete genome sequence of enterohemorrhagic Escherichia coli O157:H7 and genomic comparison with a laboratory strain K-12. DNA Res. 2001, 8: 11-22. 10.1093/dnares/8.1.11.
Article
CAS
PubMed
Google Scholar
Glaser P, Frangeul L, Buchrieser C, Rusniok C, Amend A, Baquero F, Berche P, Bloecker H, Brandt P, Chakraborty T, Charbit A, Chetouani F, Couve E, de Daruvar A, Dehoux P, Domann E, Dominguez-Bernal G, Duchaud E, Durant L, Dussurget O, Entian KD, Fsihi H, Garcia-del Portillo F, Garrido P, Gautier L, Goebel W, Gomez-Lopez N, Hain T, Hauf J, Jackson D, Jones LM, Kaerst U, Kreft J, Kuhn M, Kunst F, Kurapkat G, Madueno E, Maitournam A, Vicente JM, Ng E, Nedjari H, Nordsiek G, Novella S, de Pablos B, Perez-Diaz JC, Purcell R, Remmel B, Rose M, Schlueter T, Simoes N, Tierrez A, Vazquez-Boland JA, Voss H, Wehland J, Cossart P: Comparative genomics of Listeria species. Science. 2001, 294: 849-852. 10.1126/science.1063447.
CAS
PubMed
Google Scholar
Rasko DA, Ravel J, Okstad OA, Helgason E, Cer RZ, Jiang L, Shores KA, Fouts DE, Tourasse NJ, Angiuoli SV, Kolonay J, Nelson WC, Kolsto AB, Fraser CM, Read TD: The genome sequence of Bacillus cereus ATCC 10987 reveals metabolic adaptations and a large plasmid related to Bacillus anthracis pXO1. Nucleic Acids Res. 2004, 32: 977-988. 10.1093/nar/gkh258.
Article
PubMed Central
CAS
PubMed
Google Scholar
Welch RA, Burland V, Plunkett G, Redford P, Roesch P, Rasko D, Buckles EL, Liou SR, Boutin A, Hackett J, Stroud D, Mayhew GF, Rose DJ, Zhou S, Schwartz DC, Perna NT, Mobley HL, Donnenberg MS, Blattner FR: Extensive mosaic structure revealed by the complete genome sequence of uropathogenic Escherichia coli. Proc Natl Acad Sci USA. 2002, 99: 17020-17024. 10.1073/pnas.252529799.
Article
PubMed Central
CAS
PubMed
Google Scholar
Parkhill J, Sebaihia M, Preston A, Murphy LD, Thomson N, Harris DE, Holden MT, Churcher CM, Bentley SD, Mungall KL, Cerdeno-Tarraga AM, Temple L, James K, Harris B, Quail MA, Achtman M, Atkin R, Baker S, Basham D, Bason N, Cherevach I, Chillingworth T, Collins M, Cronin A, Davis P, Doggett J, Feltwell T, Goble A, Hamlin N, Hauser H, Holroyd S, Jagels K, Leather S, Moule S, Norberczak H, O'Neil S, Ormond D, Price C, Rabbinowitsch E, Rutter S, Sanders M, Saunders D, Seeger K, Sharp S, Simmonds M, Skelton J, Squares R, Squares S, Stevens K, Unwin L, Whitehead S, Barrell BG, Maskell DJ: Comparative analysis of the genome sequences of Bordetella pertussis, Bordetella parapertussis and Bordetella bronchiseptica. Nat Genet. 2003, 35: 32-40. 10.1038/ng1227.
Article
PubMed
Google Scholar
Warawa J, Woods DE: Type III secretion system cluster 3 is required for maximal virulence of Burkholderia pseudomallei in a hamster infection model. FEMS Microbiol Lett. 2005, 242: 101-108. 10.1016/j.femsle.2004.10.045.
Article
CAS
PubMed
Google Scholar
Ahmed K, Enciso HD, Masaki H, Tao M, Omori A, Traravichikul P, Nagatake T: Attachment of Burkholderia pseudomallei to pharyngeal epithelial cells: a highly pathogenic bacteria with low attachment ability. Am J Trop Med Hyg. 1999, 60: 90-93.
CAS
PubMed
Google Scholar
Brown NF, Boddey JA, Flegg CP, Beacham IR: Adherence of Burkholderia pseudomallei cells to cultured human epithelial cell lines is regulated by growth temperature. Infect Immun. 2002, 70: 974-980. 10.1128/IAI.70.2.974-980.2002.
Article
PubMed Central
CAS
PubMed
Google Scholar
Reckseidler-Zenteno SL, DeVinney R, Woods DE: The capsular polysaccharide of Burkholderia pseudomallei contributes to survival in serum by reducing complement factor C3b deposition. Infect Immun. 2005, 73: 1106-1115. 10.1128/IAI.73.2.1106-1115.2005.
Article
PubMed Central
CAS
PubMed
Google Scholar
O'Quinn AL, Wiegand EM, Jeddeloh JA: Burkholderia pseudomallei kills the nematode Caenorhabditis elegans using an endotoxin-mediated paralysis. Cell Microbiol. 2001, 3: 381-393. 10.1046/j.1462-5822.2001.00118.x.
Article
PubMed
Google Scholar
Kumar S, Tamura K, Nei M: MEGA3: Integrated Software for Molecular Evolutionary Genetics Analysis and Sequence Alignment. Brief Bioinform. 2004, 5: 150-163. 10.1093/bib/5.2.150.
Article
CAS
PubMed
Google Scholar
Delcher AL, Harmon D, Kasif S, White O, Salzberg SL: Improved microbial gene identification with GLIMMER. Nucleic Acids Res. 1999, 27: 4636-4641. 10.1093/nar/27.23.4636.
Article
PubMed Central
CAS
PubMed
Google Scholar
Kurtz S, Phillippy A, Delcher AL, Smoot M, Shumway M, Antonescu C, Salzberg SL: Versatile and open software for comparing large genomes. Genome Biol. 2004, 5: R12-10.1186/gb-2004-5-2-r12.
Article
PubMed Central
PubMed
Google Scholar
ARGO Genome Browser. http://www.broad.mit.edu/annotation/argo/
Thompson JD, Higgins DG, Gibson TJ: CLUSTAL W: improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res. 1994, 22: 4673-4680.
Article
PubMed Central
CAS
PubMed
Google Scholar
Yang Z, Nielsen R: Estimating synonymous and nonsynonymous substitution rates under realistic evolutionary models. Mol Biol Evol. 2000, 17: 32-43.
Article
CAS
PubMed
Google Scholar
Yang Z: PAML: a program package for phylogenetic analysis by maximum likelihood. Comput Appl Biosci. 1997, 13: 555-556.
CAS
PubMed
Google Scholar
Siguier P, Perochon J, Lestrade L, Mahillon J, Chandler M: ISfinder: the reference centre for bacterial insertion sequences. Nucleic Acids Res. 2006, D32-6. 10.1093/nar/gkj014. 34 Database