Application of a semi-dependent latent model in the Bayesian estimation of the sensitivity and specificity of two faecal culture methods for diagnosis of paratuberculosis in sub-clinically infected Greek dairy sheep and goats

Preventive Veterinary Medicine

Volumn 76, Issue 1-2, 2006, Pages 121-134

  Kostoulas, P ^a   Leontides, L ^a   Billinis, C ^a   Florou, M ^a  

^a UNIVERSITY OF THESSALY   (Greece)

Author keywords

Bayesian estimation; Conditional semi dependence; Herrold's egg yolk medium; Latent class models; Lowenstein Jensen; Paratuberculosis

Indexed keywords

ANIMAL; ARTICLE; BAYES THEOREM; CULTURE MEDIUM; FECES; FEMALE; GOAT; GOAT DISEASE; ISOLATION AND PURIFICATION; MICROBIOLOGY; MYCOBACTERIUM PARATUBERCULOSIS; PARATUBERCULOSIS; RANDOMIZATION; REPRODUCIBILITY; SENSITIVITY AND SPECIFICITY; SHEEP; SHEEP DISEASE;

ANIMALS; BAYES THEOREM; CULTURE MEDIA; FECES; FEMALE; GOAT DISEASES; GOATS; MYCOBACTERIUM PARATUBERCULOSIS; PARATUBERCULOSIS; RANDOM ALLOCATION; REPRODUCIBILITY OF RESULTS; SENSITIVITY AND SPECIFICITY; SHEEP; SHEEP DISEASES;

ANIMALIA; CAPRA HIRCUS; MYCOBACTERIUM AVIUM; MYCOBACTERIUM AVIUM SUBSP. PARATUBERCULOSIS; OVIS ARIES;

EID: 33746628993     PISSN: 01675877     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.prevetmed.2006.04.008     Document Type: Article

References (47)

1. Best N.G., Cowles M.K., and Vines S.K. CODA Manual Version 0.30 (1996), MRC Biostatistics Unit, Cambridge, UK
2. Branscum A.J., Gardner I.A., and Johnson W.O. Estimation of diagnostic-test sensitivity and specificity through Bayesian modelling. Prev. Vet. Med. 68 (2005) 145-163
3. Collins D.M., Gabric D.M., and De Lisle G.W. Identification of two groups of Mycobacterium paratuberculosis strains by restriction endonuclease analysis and DNA hybridisation. J. Clin. Microbiol. 28 (1990) 1591-1596
4. Cousins D.V., Williams S.N., Hope A., and Eamens G.J. DNA fingerprinting of Australian isolates of Mycobacterium avium subsp paratuberculosis using IS900 RFLP. Aust. Vet. 78 (2000) 184-190
5. Crossley B.M., Zagmutt-Vergara F.J., Fyock T.L., Whitlock R.H., and Gardner I.A. Fecal shedding of Mycobacterium avium subsp. paratuberculosis by dairy cows. Vet. Microbiol. 107 (2005) 257-263
6. Cytel Software Corporation, 1999. User's Manual. StatXact The Statistical Package, version 4.0.1 for Windows.
7. de Juan L., Mateos A., Dominguez L., Sharp J.M., and Stevenson K. Genetic diversity of Mycobacterium avium subspecies paratuberculosis isolates from goats detected by pulsed-field gel electrophoresis. Vet. Microbiol. 106 (2005) 249-257
8. Dendukuri N., and Joseph L. Bayesian approaches to modeling the conditional dependence between multiple diagnostic tests. Biometrics 57 (2001) 158-167
9. Eamens G.J., Whittington R.J., Marsh I.B., Turner M.J., Saunders V., Kemsley P.D., and Rayward D. Comparative sensitivity of various faecal culture methods and ELISA in dairy cattle herds with endemic Johne's disease. Vet. Microbiol. 20 (2000) 357-367
10. Enøe C., Georgiadis M.P., and Johnson W.O. Evaluation of sensitivity and specificity of diagnostic tests and disease prevalence when the true disease status is unknown. Prev. Vet. Med. 45 (2000) 61-81
11. Gardner I.A., Stryhn H., Lind P., and Collins M.T. Conditional dependence between tests affects the diagnosis and surveillance of animal diseases. Prev. Vet. Med. 45 (2000) 107-122
12. Gelman A., and Rubin D.B. Inference from iterative simulation using multiple sequences. Stat. Sci. 7 (1992) 457-511
13. Georgiadis M.P., Johnson W.O., Gardner I.A., and Singh R. Correlation-adjusted estimation of sensitivity and specificity of two diagnostic tests. Appl. Stat. 52 (2003) 63-76
14. Green E.P., Tizard M.L., Moss M.T., Thompson J., Winterbourne D.J., McFadden J.J., and Hermon-Taylor J. Sequence and characteristics of IS900, an insertion element identified in a human Crohn's disease isolate of Mycobacterium paratuberculosis. Nucleic Acids Res. 17 (1989) 9063-9073
15. Greig A., Stevenson K., Henderson D., Perez V., Hughes V., and Pavlik I. Epidemiological study of paratuberculosis in wild rabbits in Scotland. J. Clin. Microbiol. 37 (1999) 1746-1751
16. Heidelberger P., and Welch P. Simulation run length control in the presence of a initial transient. Operations Res. 31 (1983) 1109-1144
17. Hui S.L., and Walter S.D. Estimating the error rates of diagnostic tests. Biometrics 36 (1980) 167-171
18. Johnson W.O., Gastwirth J.L., and Pearson L.M. Screening without a gold standard: the Hui-Walter paradigm revisited. Am. J. Epidemiol. 153 (2001) 921-924
19. Joseph L., Gyorkos T.W., and Coupal L. Bayesian estimation of disease prevalence and the parameters of diagnostic tests in the absence of a gold standard. Am. J. Epidemiol. 141 (1995) 263-272
20. Juste R.A., Marco J.C., Saez de Ocariz C., and Aduriz J.J. Comparison of different media for the isolation of small ruminant strains of Mycobacterium paratuberculosis. Vet. Microbiol. 28 (1991) 385-390
21. Manning E.J., Kucera T.E., Gates N.B., Woods L.M., and Fallon-McKnight M. Testing for Mycobacterium avium subsp. paratuberculosis infection in asymptomatic free-ranging tule elk from an infected herd. J. Wildl. Dis. 39 (2003) 323-328
22. Marsh, I.B., Whittington, R.J., 2005. Deletion of an mmpL gene and multiple associated genes from the genome of the S strain of Mycobacterium avium subsp. paratuberculosis identified by representational difference analysis and in silico analysis. Mol. Cell. Prob. 19, 371-384.
23. National Research Council. Diagnosis and Control of Johne's Disease (2003), The National Academies Press, Washington, DC
24. Nielsen S.S., Grønbæk C., Agger J.F., and Houe H. Maximum-likelihood estimation of sensitivity and specificity of ELISAs and faecal culture for diagnosis of paratuberculosis. Prev. Vet. Med. 53 (2002) 191-204
25. Nielsen S.S., Kolmos B., and Christoffersen A.B. Comparison of contamination and growth of Mycobacterium avium subsp. paratuberculosis on two different media. J. Appl. Microbiol. 96 (2004) 149-153
26. Pavlik I., Bejckova L., Pavlas M., Rozsypalova Z., and Koskova S. Characterization by restriction endonuclease analysis and DNA hybridization using IS900 of bovine, ovine, caprine and human dependent strains of Mycobacterium paratuberculosis isolated in various localities. Vet. Microbiol. 45 (1995) 311-318
27. Raftery A.L., and Lewis S. Comment: one long run with diagnostics: implementation strategies for Markov chain Monte Carlo. Stat. Sci. 7 (1992) 493-497
28. Reddacliff L.A., Vadali A., and Whittington R.J. The effect of decontamination protocols on the numbers of sheep strain Mycobacterium avium subsp. paratuberculosis isolated from tissues and faeces. Vet. Microbiol. 95 (2003) 271-282
29. Saxegaard F. Experimental infection of calves with an apparently specific goat-pathogenic strain of Mycobacterium paratuberculosis. J. Comp. Pathol. 102 (1990) 149-156
30. Sergeant E.S., Marshall D.J., Eamens G.J., Kearns C., and Whittington R.J. Evaluation of an absorbed ELISA and an agar-gel immuno-diffusion test for ovine paratuberculosis in sheep in Australia. Prev. Vet. Med. 61 (2003) 235-248
31. Sockett D.C., Carr D.J., and Collins M.T. Evaluation of conventional and radiometric fecal culture and a commercial DNA probe for diagnosis of Mycobacterium paratuberculosis infections in cattle. Can. J. Vet. Res. 56 (1992) 148-153
32. Spiegelhalter D.J., Best N.G., Carlin B.P., and van der Linde A. Bayesian measures of model complexity and fit (with discussion). J. R. Stat. Soc. B 64 (2002) 583-640
33. Spiegelhalter, D., Thomas, A., Best, N., Gilks W., 1996. BUGS: Bayesian Inference Using Gibbs Sampling, Version 0.50. MRC Biostatistics Unit, Cambridge. http://www.mrc-bsu.cam.ac.uk/bugs/winbugs/contents.shtml.
34. Stabel J.R. An improved method for cultivation of Mycobacterium paratuberculosis from bovine fecal samples and comparison to three other methods. J. Vet. Diagn. Invest. 9 (1997) 375-380
35. Stevenson K., Hughes V.M., de Juan L., Inglis N.F., Wright F., and Sharp J.M. Molecular characterization of pigmented and nonpigmented isolates of Mycobacterium avium subsp. paratuberculosis. J. Clin. Microbiol. 40 (2002) 1798-1804
36. Sweeney R.W., Whitlock R.H., Hamir A.N., Rosenberger A.E., and Herr S.A. Isolation of Mycobacterium paratuberculosis after oral inoculation in uninfected cattle. Am. J. Vet. Res. 53 (1992) 1312-1314
37. Thoresen O.F., and Olsaker I. Distribution and hybridization patterns of the insertion element IS900 in clinical isolates of Mycobacterium paratuberculosis. Vet. Microbiol. 40 (1994) 293-303
38. Toft N., Jørgensen E., and Højsgaard S. Diagnosing diagnostic tests: evaluating the assumptions underlying the estimation of sensitivity and specificity in the absence of a gold standard. Prev. Vet. Med. 68 (2005) 19-33
39. Vacek P.M. The effect of conditional dependence on the evaluation of diagnostic tests. Biometrics 41 (1985) 959-968
40. Walter S.D., and Irwig L.M. Estimation of test error rates, disease prevalence and relative risk from misclassified data: a review. J. Clin. Microbiol. 41 (1988) 923-937
41. Whipple D.L., Callihan D.R., and Jarnagin J.L. Cultivation of Mycobacterium paratuberculosis from bovine fecal specimens and a suggested standardized procedure. J. Vet. Diag. Invest. 3 (1991) 368-373
42. Whipple D.L., Kapke P., and Vary C. Identification of restriction fragment length polymorphisms in DNA from Mycobacterium paratuberculosis. J. Clin. Microbiol. 28 (1990) 2561-2564
43. Whitlock R.H., and Rosenberger A.E. Fecal culture protocol for Mycobacterium paratuberculosis a recommended procedure. Proceedings of the 94th Annual Meeting of the USAHA (1990) 280-285
44. Whitlock R.H., and Buergelt C. Preclinical and clinical manifestations of paratuberculosis (including pathology). Vet. Clin. N. Am. Food. Anim. Pract. 12 (1996) 345-356
45. Whitlock R.H., Wells S.J., Sweeney R.W., and Van Tiem J. ELISA and fecal culture for paratuberculosis (Johne's disease): sensitivity and specificity of each method. Vet. Microbiol. 77 (2000) 387-398
46. Whittington R.J., Marsh I., McAllister S., Turner M.J., Marshall D.J., and Fraser C.A. Evaluation of modified BACTEC 12B radiometric medium and solid media for culture of Mycobacterium avium subsp. paratuberculosis from sheep. J. Clin. Microbiol. 37 (1999) 1077-1083
47. Whittington R.J., and Sergeant E.S. Progress towards understanding the spread, detection and control of Mycobacterium avium subsp paratuberculosis in animal populations. Aust. Vet. 79 (2001) 267-278