| Literature DB >> 16423303 |
Silke R Klee1, Judith Tyczka, Heinz Ellerbrok, Tatjana Franz, Sonja Linke, Georg Baljer, Bernd Appel.
Abstract
BACKGROUND: Coxiella burnetii, the bacterium causing Q fever, is an obligate intracellular biosafety level 3 agent. Detection and quantification of these bacteria with conventional methods is time consuming and dangerous. During the last years, several PCR based diagnostic assays were developed to detect C. burnetii DNA in cell cultures and clinical samples. We developed and evaluated TaqMan-based real-time PCR assays that targeted the singular icd (isocitrate dehydrogenase) gene and the transposase of the IS1111a element present in multiple copies in the C. burnetii genome.Entities:
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Year: 2006 PMID: 16423303 PMCID: PMC1360083 DOI: 10.1186/1471-2180-6-2
Source DB: PubMed Journal: BMC Microbiol ISSN: 1471-2180 Impact factor: 3.605
Summary of eight different PCR runs performed on eight separate DNA dilution series of the C. burnetii Nine Mile RSA493 strain
| No. of copies/μl | Mean | SDa | CVb (%) | No. of copies/μl | Mean | SDa | CVb (%) |
| 1.3 × 107 | 15.81 | 0.23 | 1.5 | 2.6 × 108 | 15.70 | 0.25 | 1.6 |
| 1.3 × 106 | 18.64 | 0.25 | 1.3 | 2.6 × 107 | 17.63 | 0.29 | 1.6 |
| 1.3 × 105 | 22.08 | 0.33 | 1.5 | 2.6 × 106 | 21.37 | 0.30 | 1.4 |
| 1.3 × 104 | 25.93 | 0.46 | 1.8 | 2.6 × 105 | 25.15 | 0.27 | 1.1 |
| 1.3 × 103 | 29.63 | 0.58 | 1.9 | 2.6 × 104 | 28.76 | 0.36 | 1.2 |
| 1.3 × 102 | 33.51 | 0.60 | 1.8 | 2.6 × 103 | 32.52 | 0.48 | 1.5 |
| 1.3 × 101 | 37.79 | 0.49 | 1.3 | 2.6 × 102 | 36.39 | 0.51 | 1.4 |
aSD, standard deviation of eight replicates
bCV, coefficient of variation
Figure 1Determination of detection limits for the . The graphs show curves determined by probit analysis for real-time PCR assays targeting the icd and IS1111a sequences of C. burnetii. With the respective targets, 10 and 6.5 genome equivalents per reaction can be detected with a probability of 95 %.
PCR quantification of DNA dilutions of the C. burnetii Nine Mile RSA493 strain. The measurements were performed in duplicate; mean values are shown.
| Calculated Valuesa | Measured Valuesb | ||||
| DNA conc [pg/μl] | |||||
| 2900 | 1.3 × 106 | 2.6 × 107 | 4.5 × 106 | 5.9 × 107 | 13.1 |
| 290 | 1.3 × 105 | 2.6 × 106 | 5.2 × 105 | 8.1 × 106 | 15.6 |
| 29 | 1.3 × 104 | 2.6 × 105 | 3.9 × 104 | 5.0 × 105 | 12.8 |
| 2.9 | 1.3 × 103 | 2.6 × 104 | 2.8 × 103 | 3.5 × 104 | 12.5 |
| 0.29 | 1.3 × 102 | 2.6 × 103 | 2.3 × 102 | 2.6 × 103 | 11.3 |
| 2.9 × 10-2 | 1.3 × 101 | 2.6 × 102 | 1.5 × 101 | 2.6 × 102 | 17.3 |
aNumber of target copies based on DNA concentration and genome length.
bNumber of target copies based on PCR quantification using plasmid standards.
cCalculated as IS1111 measured per icd measured.
Comparison of microscopical and PCR-based determination of Coxiella cell numbers. The PCR measurements were performed in duplicate; mean values are shown.
| Determined microscopicallya | Quantified by PCRb |
| 4.2 × 106 | 5.00 × 106 |
| 4.2 × 105 | 3.05 × 105 |
| 4.2 × 104 | 3.15 × 104 |
| 4.2 × 103 | 2.45 × 103 |
| 4.2 × 102 | 1.45 × 102 |
| 4.2 × 101 | 1.70 × 101 |
| 4.2 × 100 | 0 |
aCell numbers were only counted from undiluted sample.
bReal-time PCR targeting the icd marker.
Characteristics of C. burnetii isolates used in this study
| Restriction Group [23,24] | Geographical Origin | |
| Nine Mile RSA493 | I | USA |
| Balaceanu | I | Romania |
| Hardthof | I | Germany |
| Bernard | I | France |
| CS 1 | I | Slovak Republic |
| CS 3 | I | Slovak Republic |
| CS 4 | I | Slovak Republic |
| CS 5 | I | Slovak Republic |
| CS 6 | I | Slovak Republic |
| CS 7 | I | Slovak Republic |
| CS 8 | I | Slovak Republic |
| CS 9 | I | Slovak Republic |
| CS 10 | I | Slovak Republic |
| CS 11 | I | Slovak Republic |
| CS Dayer | I | Slovak Republic |
| CS L 35 | I | Slovak Republic |
| CS Poland | I | Poland |
| J 1 | I | Japan |
| J 3 | I | Japan |
| J 27 | I | Japan |
| Priscilla Q177 | IV | USA |
| Scurry Q217 | V | USA |
| CS S | V | USA |
| Dugway 5J108-111 | VI | USA |
| Z 3027 | VI | Germany |
| Z 3205a | VI | Germany |
| Z 3205b | VI | Germany |
| Z 3351 | VI | Germany |
| Z 3568 | VI | Germany |
| Z 3749 | VI | Germany |
| Z 257 | VI | Germany |
| Boren | 1 | USA |
| CS 48 | 1 | Slovak Republic |
| CS II/Ia | 1 | Slovak Republic |
| CS F | 1 | Slovak Republic |
| CS Ixodes | 1 | Russia |
| CS S1 | 1 | Russia |
| Florian | 1 | Slovak Republic |
| Frankfurt | 1 | Germany |
| München | 1 | Germany |
| Henzerling | 1 | Italy |
| RT 1 | 1 | North Western Russia |
| RT 3 | 1 | North Western Russia |
| Gbud | 1 | Slovak Republic |
| Geier | 1 | Romania |
| Andelfingen | 2 | Switzerland |
| Herzberg | 2 | Greece |
| CS Z 57 | 2 | Slovak Republic |
| S 1 | 2 | Sweden |
| S 4 | 2 | Sweden |
| Soyta | 2 | Switzerland |
| Utvinis | 2 | Romania |
| Stanica | 2 | Romania |
| Z 3478 | 2 | Germany |
| Z 3574 | 2 | Germany |
| Z 4313 | 2 | Germany |
| Z 4485 | 2 | Germany |
| Z 104 | 2 | Germany |
| Z 3464 | 4 | Germany |
| Z 3567 | 5 | Germany |
| Brustel | 6 | France |
| Z 2534 | 6 | Austria |
| Z 3055 | 6 | Germany |
| Z 2775 | 7 | Germany |
| Brasov | 8 | Romania |
| Namibia | 9 | Namibia |
| Schperling | 11 | Kirgisia |
| Ouaret | 12 | France |
| Jaquemot | 13 | France |
| Campoy | 13 | France |
| Pallier | 14 | France |
| Lombardi | 15 | France |
| Raphael | 16 | France |
| Butin | 16 | France |
| Z 349-36/94 | unknown | Germany |