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Development of a Real-Time SYBR Green PCR Assay for the Rapid Detection of Dermatophilus Congolensis

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Development of a Real-Time SYBR Green PCR Assay for the Rapid Detection of Dermatophilus Congolensis pISSN 1229-845X, eISSN 1976-555X JOURNAL OF J. Vet. Sci. (2013), 14(4), 491-494 http://dx.doi.org/10.4142/jvs.2013.14.4.491 Veterinary Received: 7 Feb. 2013, Revised: 4 Apr. 2013, Accepted: 28 Jun. 2013 Science Short Communication Development of a real-time SYBR Green PCR assay for the rapid detection of Dermatophilus congolensis Alfredo García*, Remigio Martínez, José Manuel Benitez-Medina, David Risco, Waldo Luis García, Joaquín Rey, Juan Manuel Alonso, Javier Hermoso de Mendoza Departamento de Sanidad Animal, Facultad de Veterinaria de Cáceres, Universidad de Extremadura, 10003 Cáceres, Spain Methods such as real time (RT)-PCR have not been significantly reduced meat, milk, and hide production; developed for the rapid detection and diagnosis of failure to thrive in livestock-dependent communities, and Dermatophilus (D.) congolensis infection. In the present increased culling and death [9, 17]. Human infection is rare study, a D. congolensis-specific SYBR Green RT-PCR assay and most reported cases involve skin infections due to was evaluated. The detection limit of the RT-PCR assay was contact with animals. However, D. congolensis has also 1 pg of DNA per PCR reaction. No cross-reaction with been associated with infection of the human esophagus nucleic acids extracted from Pseudomonas aeruginosa, [12]. Mycobacterium tuberculosis, Staphylococcus aureus, or Detection of animals affected by dermatophilosis is Austwickia chelonae was observed. Finally, the RT-PCR frequently difficult and susceptible to confusion with assay was used to evaluate clinical samples collected from clinically similar diseases such as orf and mange. Direct naturally infected animals with D. congolensis. The results microscopic examination of stained smears from the showed that this assay is a fast and reliable method for lesions or exudates beneath the scabs in acute cases enables diagnosing dermatophilosis. visualization of the characteristic branched filaments [15]. Keywords: clinical samples, Dermatophilus congolensis, However, stained smears taken from dried scabs collected dermatophilosis, diagnosis, real-time PCR from chronic cases tend to contain low numbers of this pathogen and the characteristic appearance of D. congonlensis is not so obvious [2]. On the other hand, Dermatophilus (D.) congolensis is a filamentous isolation of the infectious agent by culturing is often branching actinomycete that causes dermatophilosis, a difficult due to contamination. For this, special techniques disease characterized by exudative and proliferative involving filtration, chemotaxis, or selective media are dermatitis that affects a wide range of animals and necessary. Immunofluorescence techniques have also occasionally humans. Clinical characteristics of the proven to be useful and sensitive methods for diagnosing disease include matted hair or wool, scab and crust D. congolensis infection. However, laboratories must formation, and sometimes, generalized massive crust manufacture their own antisera for diagnostic tests because formation in chronic cases. Chronic infection tends to of the lack of a commercial one [11]. result in hair loss and even local loss of the upper skin Sensitive and routine laboratory techniques for rapid and layers that predisposes the patient to secondary infection accurate dermatophilosis diagnosis are highly desirable. by Staphylococcus spp. or Pseudomonas aeruginosa [18]. The aim of this study was to develop a rapid, and sensitive In some instances, D. congolensis may reach the lymph technique for detecting D. congolensis in cultures and nodes, resulting in a granulomatous response [5]. In a clinical samples. For this investigation, a specific SYBR recent report, this organism was also found to be associated Green real-time (RT)-PCR assay for detecting D. with placentitis, funisitis, and abortion in a horse [14]. congolensis DNA was developed. Dermatophilosis is an economically important disease of Twenty D. congolensis isolates were used for this study. cattle in tropical and sub-tropical regions as well as sheep The host species and geographic origin are listed in Table in areas with high rainfall. This disease causes 1. The isolates were grown in 20 mL of 2% (w/v) brain *Corresponding author: Tel: +34-927257114; Fax: +34-927257110; E-mail: [email protected] ⓒ 2013 The Korean Society of Veterinary Science. This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/3.0) which permits unrestricted non-commercial use, distribution, and reproduction in any medium, provided the original work is properly cited. 492 Alfredo García et al. heart infusion (Oxoid, UK) supplemented with 1.7% (w/v) Mycobacterium tuberculosis, Staphylococcus aureus, and neutralized soya peptone (Oxoid) in glass McCartney Austwickia chelonae (formerly Dermatophilus chelonae) bottles (Fisher, UK) at 37oC in air for 48 h. A dense growth [6] from in vitro cultures (Table 1) were also used. Primers of hyphae and filaments with a clear supernatant were were designed with the help of an online primer design typically observed in the cultures. program, Primer3 [13], based on the nucleotide sequence Genomic DNA was extracted from the cultures using a of the agac gene (GenBank accession no. AJ496026.1) previously described method [8]. The final DNA pellet encoding an alkaline ceramidase protein [4]. The resulting was suspended in 25 μL of ultrapure water (Life primer set named DermaF 5´-TGGCAGCTCTGATGA technologies, Spain) and stored at －20oC until further use. GTACCACAA-3´ (Tm 60.1oC) and DermaR 5´-AATGTG Concentration of the genomic DNA was calculated based CCGGGAACGGAAATCAAC-3´ (Tm 60.3ºC) amplified on the absorbance measured at 260 nm with a Synergy HT a 127-bp fragment between the locus positions 930 and Multi-Mode Microplate Reader (BioTek, USA) using Gen 1065. To evaluate their potential annealing specificity, the 5TM 182 V1.09 data analysis software (BioTek). Genomic primer sequences were analyzed with the BLAST search DNA samples with 260/280 ratios between 1.7 and 1.9 homology database [1]. were considered to be pure and of high quality. Purified DNA templates were amplified in an iCycler iQ To determine the detection limit of the RT-PCR assay, D. real-time detection system (BioRad, USA). Briefly, a congolensis DNA from a reference strain (DSM 43037) 25-μL PCR mixture was prepared containing 1 μL of (kindly provided by Dr. Alex Morrow, Centre for Tropical DNA, 12.5 μL SensiMix SYBR and fluorescein Veterinary Medicine, UK) was used. In order to estimate (Quantance, UK), and 200 nM of each primer. the analytical specificity of the D. congolensis-specific Amplification was carried out with one cycle at 50oC for 2 RT-PCR assay, DNA from Pseudomonas aeruginosa, min and one cycle at 95oC for 2 min followed by 35 cycles of 95oC for 30 sec, 60oC for 30 sec, and 72oC for 1 min. The plate reading was taken after extension at 72oC and a Table 1. Available data of the strains used for assay development melting curve was obtained using temperatures between o o o and assessment of primer specificities 65 C and 95 C that increased at a rate of 0.5 C/s. Duplicate positive and negative controls were included in Strain Host species Origin all tests and at least two separate experiments were performed. Negative controls contained all components of HDC (DSM 43037) Horse UK the reaction mixture except for template DNA. The PCR HA2 (NCTC 5175) Horse UK products were analyzed with ethidium bromide-stained BC87 Cattle Cameroon 2% agarose gels (Pronadisa, Spain). HD201 Horse Germany Genomic DNA from the reference D. congolensis strain HWAN Horse Spain (DSM 43037) was serial diluted 10-fold (from 10 ng to HATI Horse Spain 1.10-4 ng) and used to test the sensitivity of the RT-PCR HISL Horse Spain assay. The resultant data were used to generate a standard HEQ Horse Spain curve by plotting threshold cycle (Ct) values against the BE3 (ATCC 14637) Cattle Zimbabwe logarithmic values of the starting DNA quantities. OT8 Sheep Spain Amplification efficiency and coefficient of determination BG45 (IMTV M6445) Cattle Guadeloupe (R2) were automatically calculated using the Statistical OG1 Sheep Spain Package for Social Sciences 15.0 for Windows (SPSS, OTS1 Sheep Spain USA). OPOA Sheep Spain In order to test the efficacy of the RT-PCR assay, eight BF13 (5.11 A) Cattle Nigeria tissue specimens (skin scabs) were collected. Six of the HA11 (3.86) Horse UK samples (two from cattle, two from horses, and two from B556 Cattle Spain sheep) were obtained from dermatophilosis naturally POF Sheep Spain infected animals diagnosed by direct smears and cultures. OT10 Sheep Spain Additionally, two samples from non-infected cattle ORL Sheep Spain (negative according to direct smears and cultures) were used Austwickia chelonae Tortoise Australia as the negative control. DNA extraction was carried out Pseudomonas aeruginosa Sheep Spain using an UltraClean Tissue DNA kit (MoBio, USA) Staphylococcus aureus Reference strain according to the manufacturer’s instructions. All samples (ATCC 29213) were stored at －20oC until use and were allowed to thaw at Mycobacterium tuberculosis Reference strain room temperature before testing. RT-PCR was performed as (H37Rv) described above except that the volume of DNA template Real-time PCR technology for diagnosing Dermatophilus congolensis 493 Fig. 1. (A) The linear standard curve obtained for the dilution series of D. congolensis DNA ranging from 10 ng to 1.10-4 ng. (B) Real time (RT)-PCR results for the clinical samples. per reaction was 5 μL. Positive controls with D. congolensis commensal skin bacteria that inhibits the growth of D. DNA were also routinely included. All experiments were congolensis. repeated at least twice for reproducibility. Although there are some conventional PCR assays for All 20 D. congolensis strains tested produced positive detecting D. congolensis [7,16], they require gel results while no positive signal was detected for DNA electrophoresis to confirm the presence of PCR products, templates from other bacteria. Specificity of the primers which makes them laborious and time-consuming and the absence of nonspecific products were also processes.
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