Comparison of genome diversity of Brucella spp. field isolates using Universal Bio-signature Detection Array and whole genome sequencing reveals limitations of current diagnostic methods

Gene

Volumn 509, Issue 1, 2012, Pages 142-148

  Shallom, Shamira J ^a,e   Tae, Hongseok ^a   Sarmento, Luciana ^b   Preston, Dale ^c   McIver, Lauren ^a   Franck, Christopher ^a,d   Dickerman, Allan ^a   Adams, L Garry ^a   Garner, Harold R ^a  

^a VIRGINIA BIOINFORMATICS INSTITUTE   (United States)

^b TEXAS A AND M UNIVERSITY   (United States)

^c Texas Animal Health Commission   (United States)

^d VIRGINIA POLYTECHNIC INSTITUTE AND STATE UNIVERSITY   (United States)

^e NATIONAL INSTITUTES OF HEALTH   (United States)

Author keywords

Brucella; Diagnostics; PCR; Serology; UBDA

Indexed keywords

GENOMIC DNA;

ARTICLE; BACTERIAL GENOME; BACTERIUM ISOLATE; BIOTYPE; BRUCELLA; BRUCELLOSIS; DIAGNOSTIC PROCEDURE; GENE SEQUENCE; GENETIC VARIABILITY; MICROARRAY ANALYSIS; NONHUMAN; POLYMERASE CHAIN REACTION; PRINCIPAL COMPONENT ANALYSIS; PRIORITY JOURNAL; SEROLOGY; SPECIES DIVERSITY; UNIVERSAL BIO SIGNATURE DETECTION ARRAY;

ANIMALS; BACTERIAL TYPING TECHNIQUES; BACTERIOLOGICAL TECHNIQUES; BRUCELLA; BRUCELLOSIS; BRUCELLOSIS, BOVINE; CATTLE; DNA, BACTERIAL; GENETIC VARIATION; GENOME, BACTERIAL; HUMANS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; POLYMERASE CHAIN REACTION; PRINCIPAL COMPONENT ANALYSIS; SEQUENCE ANALYSIS, DNA; SUS SCROFA;

BRUCELLA;

EID: 84866148514     PISSN: 03781119     EISSN: 18790038     Source Type: Journal    
DOI: 10.1016/j.gene.2012.07.073     Document Type: Article

References (29)

1. Altschul S.F., Gish W., Miller W., Myers E.W., Lipman D.J. Basic local alignment search tool. J. Mol. Biol. 1990, 215:403-410.
2. Altschul S.F., et al. Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res. 1997, 25:3389-3402.
3. Bricker B.J. PCR as a diagnostic tool for brucellosis. Vet. Microbiol. 2002, 90:435-446.
4. Bricker B.J., Ewalt D.R. Evaluation of the HOOF-Print assay for typing Brucella abortus strains isolated from cattle in the United States: results with four performance criteria. BMC Microbiol. 2005, 5:37.
5. Bricker B.J., Ewalt D.R., Halling S.M. Brucella 'HOOF-Prints': strain typing by multi-locus analysis of variable number tandem repeats (VNTRs). BMC Microbiol. 2003, 3:15.
6. Bricker B.J., Halling S.M. Differentiation of Brucella abortus bv. 1, 2, and 4, Brucella melitensis, Brucella ovis, and Brucella suis bv. 1 by PCR. J. Clin. Microbiol. 1994, 32:2660-2666.
7. Caroff M., Bundle D.R., Perry M.B. Structure of the O-chain of the phenol-phase soluble cellular lipopolysaccharide of Yersinia enterocolitica serotype O:9. Eur. J. Biochem. 1984, 139:195-200.
8. Caroff M., Bundle D.R., Perry M.B., Cherwonogrodzky J.W., Duncan J.R. Antigenic S-type lipopolysaccharide of Brucella abortus 1119-3. Infect. Immun. 1984, 46:384-388.
9. Cloeckaert A., Limet J.N. Antibody response to Brucella ourter membrane proteins in bovine brucellosis: immunoblot analysis and competitive enzyme-linked immunosorbent assay using monoclonal antibodies. J. Clin. Microbiol. 1992, 30:3168-3174.
10. Corbel M.J., Stuart F.A., Brewer R.A. Observations on serological cross-reactions between smooth Brucella species and organisms of other genera. Dev. Biol. Stand. 1984, 56:341-348.
11. Darling A.C., Mau B., Blattner F.R., Perna N.T. Mauve: multiple alignment of conserved genomic sequence with rearrangements. Genome Res. 2004, 14:1394-1403.
12. De Klerk E., Anderson R. Comparative evaluation of the enzyme-linked immunosorbent assay in the laboratory diagnosis of brucellosis. J. Clin. Microbiol. 1985, 21:381-386.
13. Foster J.T., et al. Real-time PCR assays of single-nucleotide polymorphisms defining the major Brucella clades. J. Clin. Microbiol. 2008, 46:296-301.
14. Alton G.G. Techniques for the Brucellosis Laboratory 1988, Institut National de la Recherche Agronomique, Paris.
15. Godfroid J., et al. From the discovery of the Malta fever's agent to the discovery of a marine mammal reservoir, brucellosis has continuously been a re-emerging zoonosis. Vet. Res. 2005, 36:313-326.
16. Jackson E.J. A User's Guide to Principal Components 2003, John Wiley & Sons, Inc., New Jersey.
17. Li H., Durbin R. Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 2009, 25:1754-1760.
18. Li H., Handsaker B., et al. The sequence alignment/map format and SAMtools. Bioinformatics 2009, 25:2078-2079.
19. Lindberg A.A., Haeggman S., Karlson K., Carlsson H.E., Mair N.S. Enzyme immunoassay of the antibody response to Brucella and Yersinia enterocolitica 09 infections in humans. J. Hyg. (Lond) 1982, 88:295-307.
20. Morgan W.J. Brucella classification and regional distribution. Dev. Biol. Stand. 1984, 56:43-53.
21. Ocampo-Sosa A.A., Garcia-Lobo J.M. Demonstration of IS711 transposition in Brucella ovis and Brucella pinnipedialis. BMC Microbiol. 2008, 8:17.
22. Paulsen I.T., et al. The Brucella suis genome reveals fundamental similarities between animal and plant pathogens and symbionts. Proc. Natl. Acad. Sci. U. S. A. 2002, 99:13148-13153.
23. Ritchie M.E., et al. A comparison of background correction methods for two-colour microarrays. Bioinformatics 2007, 23:2700-2707.
24. Rossetti C.A., Galindo C.L., Lawhon S.D., Garner H.R., Adams L.G. Brucella melitensis global gene expression study provides novel information on growth phase-specific gene regulation with potential insights for understanding Brucella:host initial interactions. BMC Microbiol. 2009, 9:18.
25. Samartino L., Gall D., Gregoret R., Nielsen K. Validation of enzyme-linked immunosorbent assays for the diagnosis of bovine brucellosis. Vet. Microbiol. 1999, 70:193-200.
26. Scholz H.C., et al. Brucella microti sp. nov., isolated from the common vole Microtus arvalis. Int. J. Syst. Evol. Microbiol. 2008, 58:375-382.
27. Shallom S.J., et al. A species independent universal bio-detection microarray for pathogen forensics and phylogenetic classification of unknown microorganisms. BMC Microbiol. 2011, 11:132.
28. Tae H., et al. Revised genome sequence of Brucella suis 1330. J. Bacteriol. 2011, 193:6410.
29. Whatmore A.M., et al. Identification and characterization of variable-number tandem-repeat markers for typing of Brucella spp. J. Clin. Microbiol. 2006, 44:1982-1993.