title: Evaluation of the accuracy and reproducibility of a practical PCR panel assay for rapid detection and differentiation of Mycobacterium avium subspecies.
abstract: The Mycobacterium avium subspecies (MAs) include the closely related MAs avium and MAs paratuberculosis. This study was conducted to evaluate the performance of a PCR panel assay as a diagnostic tool to detect and differentiate MAs avium and MAs paratuberculosis infection. Specific oligonucleotides primers derived from the 16 S rRNA (MAs) sequence, insertion elements IS 901 (MAs avium), IS 1245 Mycobacterium avium complex (MAC), IS 900 (MAs paratuberculosis), and the hspX (MAs paratuberculosis) gene sequences were synthesized and used in preassembled PCR reaction mixtures. These five primer sets made up the PCR panel assay. To determine the accuracy of the PCR panel assay for MAs avium and MAs paratuberculosis strain detection and differentiation, lysates of mycobacterial DNA from 120 (n=120) strains were tested with the PCR panel assay by one laboratory (#1). The PCR panel assay specifically detected and differentiated 91/91 (100%) of MAs avium and MAs paratuberculosis strains tested in this study. The PCR panel assay also specifically differentiated all MAs avium and MAs paratuberculosis strains from all but one (M. intracellulare, serovar 23) of the other mycobacterial strains tested. To confirm the accuracy and evaluate the reproducibility of the PCR panel assay, samples were numbered and given to a different laboratory (#2) as 'unknowns' for identification by the PCR panel assay. In this study, the overall accuracy for strain identification using the PCR panel assay was 99.2% (119/120). The reproducibility of the PCR panel assay when comparing data from laboratory #1 with laboratory #2 was found to be 100% (120/120). These results indicate that this 'easy-to-use', rapid PCR method can accurately and reliably detect and differentiate closely related MAs avium and MAs paratuberculosis from each other and from other mycobacterial species. The PCR panel assay can also differentiate mixed cultures of MAs. The simplicity of this PCR method could be beneficial to laboratories that test for members of MA.
authors.affiliation: Marshfield Clinic, National Farm Medicine Center, 1000 North Oak Avenue, Marshfield, WI 54449, USA.
authors.forename: J L
authors.initials: JL
authors.lastname: Ellingson
authors.forename: J R
authors.initials: JR
authors.lastname: Stabel
authors.forename: W R
authors.initials: WR
authors.lastname: Bishai
authors.forename: R
authors.initials: R
authors.lastname: Frothingham
authors.forename: J M
authors.initials: JM
authors.lastname: Miller
mesh_terms: D000818:Animals; D000942:Antigens, Bacterial; D001426:Bacterial Proteins / Q000235:genetics; D017931:DNA Primers / Q000235:genetics; D004251:DNA Transposable Elements / Q000235:genetics; D004269:DNA, Bacterial / Q000032:analysis / Q000235:genetics*; D004275:DNA, Ribosomal / Q000032:analysis / Q000235:genetics; D003937:Diagnosis, Differential; D005798:Genes, Bacterial / Q000235:genetics; D006801:Humans; D015337:Multicenter Studies as Topic; D009164:Mycobacterium Infections / Q000175:diagnosis* / Q000382:microbiology*; D009162:Mycobacterium avium / Q000145:classification / Q000235:genetics / Q000302:isolation & purification; D015269:Mycobacterium avium Complex / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification*; D016927:Mycobacterium avium subsp. paratuberculosis / Q000145:classification / Q000235:genetics / Q000302:isolation & purification; D015345:Oligonucleotide Probes / Q000235:genetics; D016133:Polymerase Chain Reaction; D012336:RNA, Ribosomal, 16S / Q000235:genetics; D015203:Reproducibility of Results; D012680:Sensitivity and Specificity; D013997:Time Factors
chemical_list: D000942:Antigens, Bacterial; D001426:Bacterial Proteins; D017931:DNA Primers; D004251:DNA Transposable Elements; D004269:DNA, Bacterial; D004275:DNA, Ribosomal; C118127:HspX protein, Mycobacterium tuberculosis; D015345:Oligonucleotide Probes; D012336:RNA, Ribosomal, 16S