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Aguilera-Franco M, Tarriño-León M, Olivares-Durán MJ, Espadafor B, Rodríguez-Granger J, Reguera JA, Cobo F, Sampedro A, Navarro JM. Evaluation of a new CT/NG/TV/MG Real-Time PCR Kit (Vircell) versus the Allplex STI Essential Assay (Seegene) for the diagnosis of sexually transmitted infections. J Med Microbiol 2024; 73. [PMID: 38591530 DOI: 10.1099/jmm.0.001797] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 04/10/2024] Open
Abstract
Sexually transmitted infections (STI) are a public health problem. Real-time PCR assays are the most sensitive test for screening and diagnosis of these infections. The aim of this study was to evaluate a new CT/NG/TV/MG Real-Time PCR (RT-PCR) kit (Vircell) for the detection of Chamydia trachomatis, Neisseria gonorrhoeae, Mycoplasma genitalium and Trichomonas vaginalis for the diagnosis of sexual transmitted infections using the Allplex STI Essential Assay (Seegene) as the reference's method. A total of 497 samples from different anatomical sites (endocervical, urethral, rectal, pharyngeal and urine) were analysed from October 2022 to February 2023. A total of 108 (21.73 %) and 106 (21.33 %) positive samples were found for any of the assays used. The most commonly detected pathogen was N. gonorrhoeae (52 samples; 10.46 %), and the least commonly detected was T. vaginalis (three samples; 0.60 %). The anatomical site with the highest prevalence of micro-organisms was a non-urogenital site, the pharynx (26 positive samples; 5.23 %). Using the Allplex STI Essential Assay (Seegene) as the reference method, the diagnosis performance showed that the average specificity of CT/NG/TV/MG RT-PCR Kit (Vircell) was 99.84 % and the sensitivity was 99.53 %. The overall concordance was k=0.98 (CI95 %; 0.96-1). In conclusion, the CT/NG/TV/MG RT-PCR Kit (Vircell) assay shows a good sensitivity and specificity and constitutes a promising and additional alternative to routine procedures for distinct types of clinical specimen in diagnosis STI.
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Affiliation(s)
| | - María Tarriño-León
- Microbiology Service, Hospital Universitario Virgen de las Nieves, Granada, Spain
| | - M J Olivares-Durán
- Clinical Analysis Service, Hospital Universitario Virgen de las Nieves, Granada, Spain
| | - Beatriz Espadafor
- Dermatology Service, Centro de ETS, Hospital Universitario Virgen de las Nieves, Granada, Spain
| | | | - Juan Antonio Reguera
- Microbiology Service, Hospital Universitario Virgen de las Nieves, Granada, Spain
| | - Fernando Cobo
- Microbiology Service, Hospital Universitario Virgen de las Nieves, Granada, Spain
| | - Antonio Sampedro
- Microbiology Service, Hospital Universitario Virgen de las Nieves, Granada, Spain
| | - José María Navarro
- Microbiology Service, Hospital Universitario Virgen de las Nieves, Granada, Spain
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Barrientos-Durán A, de Salazar A, Fuentes-López A, Serrano-Conde E, Espadafor B, Chueca N, Álvarez-Estévez M, Garcia F. Comparison between Aptima® assays (Hologic) and the CoBAS® 6800 system (Roche) for the diagnosis of sexually transmitted infections caused by Chlamydia trachomatis, Neisseria gonorrhoeae, and Mycoplasma genitalium. Eur J Clin Microbiol Infect Dis 2021; 40:1337-1342. [PMID: 33492527 DOI: 10.1007/s10096-020-04143-9] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/08/2020] [Accepted: 12/21/2020] [Indexed: 11/25/2022]
Abstract
Nowadays, it is of utmost importance to use fully validated assays for molecular-based diagnosis. In the field of sexually transmitted disease (STD), Roche and Hologic provide assays for diagnosing Chlamydia trachomatis (CT), Neisseria gonorrhoeae (NG), Mycoplasma genitalium (MG), and Trichomonas vaginalis (TV). A total of 212 clinical samples were tested. Aptima® Combo 2 (detecting CT and NG), Aptima® M. genitalium and the Aptima® T. vaginalis on the Panther® system were compared to CoBAS® CT/NG and CoBAS® TV/MG running on the CoBAS® 6800 system. To solve the discrepancies, Allplex™ STI Essential assay (Seegene®) and/or Sanger DNA sequencing were used. The diagnostic performance was calculated by mean of the sensitivity and specificity parameters. Aptima® (sensitivity: 98.90%, specificity: 100%), CoBAS® (sensitivity 100%, specificity: 96.67%). The CoBAS® combo (CT/NG) failed detecting NG from an anal/rectum specimen, which is not included into the validated specimens of the assay. Aptima® combo 2 produced two false positives (CT and NG), not detected by the third tests. All the assays showed an optimal diagnostic capacity, meeting the requirements for IVD DNA-based assays. All products work optimally on automatic platforms, minimizing time and risk of contamination during handling.
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Affiliation(s)
- Antonio Barrientos-Durán
- Clinical Microbiology Unit, Hospital Universitario Clínico San Cecilio.Instituto de Investigación Ibs.Granada, Granada, Spain
| | - Adolfo de Salazar
- Clinical Microbiology Unit, Hospital Universitario Clínico San Cecilio.Instituto de Investigación Ibs.Granada, Granada, Spain
| | - Ana Fuentes-López
- Clinical Microbiology Unit, Hospital Universitario Clínico San Cecilio.Instituto de Investigación Ibs.Granada, Granada, Spain
| | - Esther Serrano-Conde
- Clinical Microbiology Unit, Hospital Universitario Clínico San Cecilio.Instituto de Investigación Ibs.Granada, Granada, Spain
| | - Beatriz Espadafor
- Dermatology Unit, Centro de ETS, Hospital Universitario Virgen de las Nieves, Granada, Spain
| | - Natalia Chueca
- Clinical Microbiology Unit, Hospital Universitario Clínico San Cecilio.Instituto de Investigación Ibs.Granada, Granada, Spain
| | - Marta Álvarez-Estévez
- Clinical Microbiology Unit, Hospital Universitario Clínico San Cecilio.Instituto de Investigación Ibs.Granada, Granada, Spain
| | - Federico Garcia
- Clinical Microbiology Unit, Hospital Universitario Clínico San Cecilio.Instituto de Investigación Ibs.Granada, Granada, Spain.
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de Salazar A, Barrientos-Durán A, Espadafor B, Fuentes-López A, Chueca N, Garcia F. Macrolide and fluoroquinolone resistance of Mycoplasma genitalium in southern Spain, 2018-2019. Sex Transm Infect 2020; 97:8-10. [PMID: 32661071 DOI: 10.1136/sextrans-2019-054386] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/28/2019] [Revised: 04/25/2020] [Accepted: 06/14/2020] [Indexed: 11/04/2022] Open
Abstract
OBJECTIVES In recent years, resistance in Mycoplasma genitalium (MG) to first-line (azithromycin) and second-line (moxifloxacin) treatment has been increasingly reported worldwide, however, no data regarding the south of Spain are available. METHODS To determine resistance rates, MG-positive samples collected from June 2018 to June 2019 were analysed by sequencing the 23S rRNA and parC genes. RESULTS A total of 77 patients (24 men having sex with men (MSM), 30 heterosexual men and 23 women) were included. Resistance-associated mutations against macrolide and fluoroquinolones were found in 36.4% (95% CI 25.7% to 48.1%) and 9.1% (95% CI 3.7% to 17.8%) of the patients, respectively. Being MSM and having had another STI in the last year were significantly associated with macrolide-resistant MG infection, while no associations were found with resistance to fluoroquinolones. CONCLUSIONS Testing for resistance to first-line and second-line drugs against MG should be recommended for the general population and mandatory for the MSM population. We suggest that empiric azithromycin use for STI management should be avoided.
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Affiliation(s)
- Adolfo de Salazar
- Microbiology Department, Instituto de Investigación Ibs.Granada, Hospital Universitario San Cecilio, Granada, Spain
| | - Antonio Barrientos-Durán
- Microbiology Department, Instituto de Investigación Ibs.Granada, Hospital Universitario San Cecilio, Granada, Spain
| | - Beatriz Espadafor
- Dermatology Department, Hospital Universitario Virgen de las Nieves, Granada, Spain
| | - Ana Fuentes-López
- Microbiology Department, Instituto de Investigación Ibs.Granada, Hospital Universitario San Cecilio, Granada, Spain
| | - Natalia Chueca
- Microbiology Department, Instituto de Investigación Ibs.Granada, Hospital Universitario San Cecilio, Granada, Spain
| | - Federico Garcia
- Microbiology Department, Instituto de Investigación Ibs.Granada, Hospital Universitario San Cecilio, Granada, Spain
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Barrientos-Durán A, de Salazar A, Alvarez-Estévez M, Fuentes-López A, Espadafor B, Garcia F. Detection of sexually transmitted disease-causing pathogens from direct clinical specimens with the multiplex PCR-based STD Direct Flow Chip Kit. Eur J Clin Microbiol Infect Dis 2020; 39:235-241. [PMID: 31902016 DOI: 10.1007/s10096-019-03686-w] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2019] [Accepted: 08/26/2019] [Indexed: 10/25/2022]
Abstract
Pathogens causing sexually transmitted diseases (STDs) include viruses, bacteria, and parasites. The ability to rapidly and efficiently detect these pathogens in a single reaction still remains a health challenge. The aim of this study was to evaluate the clinical reliability and accuracy of the STD Direct Flow Chip Kit (Vitro, IVD-EC approved), which can simultaneously detect up to 9 different species of STD pathogens at once. This kit enables direct analysis-direct-PCR-of clinical specimens (urine, semen, endocervical, urethral, nasopharyngeal, and perianal swabs) without DNA purification for the following pathogens: Chlamydia trachomatis (serovars A-K and L1-L3), Haemophilus ducreyi, Herpes Simplex Virus (Types I and II), Mycoplasma genitalium, Mycoplasma hominis, Neisseria gonorrhoeae, Treponema pallidum, Trichomonas vaginalis, and Ureaplasma. The Anyplex™ II STI-7 Detection Kit (Seegene, IVD-EC) was used as the reference's method. Existing discordances were resolved using either a third molecular assay or DNA sequencing. Clinical performance was evaluated at two different stages: (i) from purified DNA of three hundred and fifty-eight clinical specimens with a diagnostic sensitivity (SE) and specificity (SP) of 99.4% and 100%, respectively, and an agreement of 99% (kappa index, κ = 0.97) with the reference's method and; (ii) by direct-PCR from six hundred and thirty-three specimens rendering SE, SP, and agreement values of 98.4%, 99.9%, and 98.0% (κ = 0.95), respectively. The STD Direct Flow Chip Kit constitutes a promising alternative to routine procedures in diagnostic, allowing direct analysis of specimens and enabling the detection of a broad panel of pathogens.
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Affiliation(s)
- Antonio Barrientos-Durán
- Servicio de Microbiología. Instituto de Investigación ibs.GRANADA, Hospital Universitario Clínico San Cecilio, Avenida de la Ilustración S/N, 18016, Granada, Spain
| | - Adolfo de Salazar
- Servicio de Microbiología. Instituto de Investigación ibs.GRANADA, Hospital Universitario Clínico San Cecilio, Avenida de la Ilustración S/N, 18016, Granada, Spain
| | - Marta Alvarez-Estévez
- Servicio de Microbiología. Instituto de Investigación ibs.GRANADA, Hospital Universitario Clínico San Cecilio, Avenida de la Ilustración S/N, 18016, Granada, Spain
| | - Ana Fuentes-López
- Servicio de Microbiología. Instituto de Investigación ibs.GRANADA, Hospital Universitario Clínico San Cecilio, Avenida de la Ilustración S/N, 18016, Granada, Spain
| | - Beatriz Espadafor
- Servicio de Dermatología. Centro de ETS., Hospital Universitario Virgen de las Nieves, Granada, Spain
| | - Federico Garcia
- Servicio de Microbiología. Instituto de Investigación ibs.GRANADA, Hospital Universitario Clínico San Cecilio, Avenida de la Ilustración S/N, 18016, Granada, Spain.
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de Salazar A, Espadafor B, Fuentes-López A, Barrientos-Durán A, Salvador L, Álvarez M, García F. Comparison between Aptima Assays (Hologic) and the Allplex STI Essential Assay (Seegene) for the diagnosis of Sexually transmitted infections. PLoS One 2019; 14:e0222439. [PMID: 31513653 PMCID: PMC6742210 DOI: 10.1371/journal.pone.0222439] [Citation(s) in RCA: 17] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2019] [Accepted: 08/29/2019] [Indexed: 11/26/2022] Open
Abstract
Sexually transmitted infections (STIs) remain a worldwide problem and a severe threat to public health. The purpose of this study was to compare Aptima® Assays (Hologic®) and the Allplex™ STI Essential Assay (Seegene®) for the simultaneous detection of Chlamydia trachomatis, Neisseria gonorrhoeae, Trichomonas vaginalis and Mycoplasma genitalium in clinical practice. The Aptima® assays (Hologic®) are based on a transcription-mediated amplification (TMA) method. The Allplex™ STI Essential assay (Seegene®) is based on a multiplex Real-Time PCR (RT-PCR) method. A total of 622 clinical samples from different anatomical sites were tested using both methods. A total of 88 (14.1%) and 66 (10.6%) positive samples were found for any of the TMA assays used and for the RT-PCR assay, respectively. Aptima® assays showed a slightly higher rate of positive results for all pathogens except for T. vaginalis, the results of which were similar to those obtained with Allplex™. The most commonly detected pathogen was C. trachomatis (37 samples; 5.9% using TMA assays) and the anatomical site with the highest prevalence of microorganisms was a non-urogenital site, the pharynx (27 positive samples; 4.3%). Using the Aptima® assays as reference method, the comparison showed that the average specificity of multiplex RT-PCR was 100.0% for the four pathogens. However an average sensitivity of 74.5% was observed, showing 95.2% (CI95%; 93.6–96.9) of overall concordance (κ = 0.80). In conclusion, the Aptima® assays show a higher sensitivity on a wide range of sample types compared to the Allplex™ assay.
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Affiliation(s)
- Adolfo de Salazar
- Hospital Universitario San Cecilio, Servicio de Microbiología, Instituto de Investigación Ibs, Granada, Spain
| | - Beatriz Espadafor
- Hospital Universitario Virgen de las Nieves, Servicio de Dermatología, Centro de ETS, Granada, Spain
| | - Ana Fuentes-López
- Hospital Universitario San Cecilio, Servicio de Microbiología, Instituto de Investigación Ibs, Granada, Spain
| | - Antonio Barrientos-Durán
- Hospital Universitario San Cecilio, Servicio de Microbiología, Instituto de Investigación Ibs, Granada, Spain
| | - Luis Salvador
- Hospital Universitario Virgen de las Nieves, Servicio de Dermatología, Centro de ETS, Granada, Spain
| | - Marta Álvarez
- Hospital Universitario San Cecilio, Servicio de Microbiología, Instituto de Investigación Ibs, Granada, Spain
| | - Federico García
- Hospital Universitario San Cecilio, Servicio de Microbiología, Instituto de Investigación Ibs, Granada, Spain
- * E-mail:
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