Higher accuracy of genotypic identification compared to phenotyping in the diagnosis of coagulase-negative staphylococcus infection in orthopedic surgery. Muñoz-Gamito, G., Cuchí, E., Roigé, J., Gómez, L., Jaén, À., Matamala, A., Pedro-Botet, M. L., Capdevila, J. A., Anglès, F., & Pérez, J. Infectious Diseases, 0(0):1–8, July, 2020. Publisher: Taylor & Francis _eprint: https://doi.org/10.1080/23744235.2020.1799069Paper doi abstract bibtex Purpose To determine whether Repetitive Extragenic Palindromic PCR (rep-PCR) genotyping can improve the diagnosis of coagulase-negative staphylococcal (CoNS) orthopaedic infections in comparison to phenotyping. Methods Prospective study comparing the results of phenotypic/genotypic (rep-PCR) testing in patients with suspected CoNS infection. Each strain was analysed using both methods. Strains identified as identical in ≥2 samples were considered as pathogenic. Results 255 CoNS strains from 52 surgical episodes were included. Infection was diagnosed by phenotyping in 38(73%) cases and by genotyping in 40(77%). The Kappa index was 0.59. Sensitivity, Specificity, Positive Predictive Value (PPV) and Negative Predictive Value (NPV) for phenotyping (vs. rep-PCR) were: 88%, 75%, 92%, and 64%. 5/14(36%) of cases not considered as true infections by phenotyping were diagnosed as infections with genotyping. In a subgroup of 203 strains from 41 surgical procedures with orthopaedic implants, the kappa index was 0.68. Sensitivity, Specificity, PPV, and NPV for phenotyping were: 93%, 73%, 90% and 80%. Again, 2/10 episodes in which CoNS were considered non-infective by phenotyping were diagnosed as infected by genotyping. Conclusions Rep-PCR genotyping can identify identical CoNS strains that differ in their phenotype and should be used as a complementary technique. One-third of infected cases may be misdiagnosed without genotypic analysis.
@article{munoz-gamito_higher_2020,
title = {Higher accuracy of genotypic identification compared to phenotyping in the diagnosis of coagulase-negative staphylococcus infection in orthopedic surgery},
volume = {0},
issn = {2374-4235},
url = {https://doi.org/10.1080/23744235.2020.1799069},
doi = {10.1080/23744235.2020.1799069},
abstract = {Purpose To determine whether Repetitive Extragenic Palindromic PCR (rep-PCR) genotyping can improve the diagnosis of coagulase-negative staphylococcal (CoNS) orthopaedic infections in comparison to phenotyping. Methods Prospective study comparing the results of phenotypic/genotypic (rep-PCR) testing in patients with suspected CoNS infection. Each strain was analysed using both methods. Strains identified as identical in ≥2 samples were considered as pathogenic. Results 255 CoNS strains from 52 surgical episodes were included. Infection was diagnosed by phenotyping in 38(73\%) cases and by genotyping in 40(77\%). The Kappa index was 0.59. Sensitivity, Specificity, Positive Predictive Value (PPV) and Negative Predictive Value (NPV) for phenotyping (vs. rep-PCR) were: 88\%, 75\%, 92\%, and 64\%. 5/14(36\%) of cases not considered as true infections by phenotyping were diagnosed as infections with genotyping. In a subgroup of 203 strains from 41 surgical procedures with orthopaedic implants, the kappa index was 0.68. Sensitivity, Specificity, PPV, and NPV for phenotyping were: 93\%, 73\%, 90\% and 80\%. Again, 2/10 episodes in which CoNS were considered non-infective by phenotyping were diagnosed as infected by genotyping. Conclusions Rep-PCR genotyping can identify identical CoNS strains that differ in their phenotype and should be used as a complementary technique. One-third of infected cases may be misdiagnosed without genotypic analysis.},
number = {0},
urldate = {2020-08-25},
journal = {Infectious Diseases},
author = {Muñoz-Gamito, Gema and Cuchí, Eva and Roigé, Jordi and Gómez, Lucía and Jaén, Àngels and Matamala, Alfredo and Pedro-Botet, M. Lluïsa and Capdevila, Josep Anton and Anglès, Francesc and Pérez, Josefa},
month = jul,
year = {2020},
pmid = {32735157},
note = {Publisher: Taylor \& Francis
\_eprint: https://doi.org/10.1080/23744235.2020.1799069},
keywords = {Article, Bone and joint infection, Laboratori Biologia Molecular, Orthopaedic infection, coagulase-negative staphylococci infection, genotyping, molecular diagnostic techniques},
pages = {1--8},
}
Downloads: 0
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Methods Prospective study comparing the results of phenotypic/genotypic (rep-PCR) testing in patients with suspected CoNS infection. Each strain was analysed using both methods. Strains identified as identical in ≥2 samples were considered as pathogenic. Results 255 CoNS strains from 52 surgical episodes were included. Infection was diagnosed by phenotyping in 38(73%) cases and by genotyping in 40(77%). The Kappa index was 0.59. Sensitivity, Specificity, Positive Predictive Value (PPV) and Negative Predictive Value (NPV) for phenotyping (vs. rep-PCR) were: 88%, 75%, 92%, and 64%. 5/14(36%) of cases not considered as true infections by phenotyping were diagnosed as infections with genotyping. In a subgroup of 203 strains from 41 surgical procedures with orthopaedic implants, the kappa index was 0.68. Sensitivity, Specificity, PPV, and NPV for phenotyping were: 93%, 73%, 90% and 80%. Again, 2/10 episodes in which CoNS were considered non-infective by phenotyping were diagnosed as infected by genotyping. Conclusions Rep-PCR genotyping can identify identical CoNS strains that differ in their phenotype and should be used as a complementary technique. One-third of infected cases may be misdiagnosed without genotypic analysis.","number":"0","urldate":"2020-08-25","journal":"Infectious Diseases","author":[{"propositions":[],"lastnames":["Muñoz-Gamito"],"firstnames":["Gema"],"suffixes":[]},{"propositions":[],"lastnames":["Cuchí"],"firstnames":["Eva"],"suffixes":[]},{"propositions":[],"lastnames":["Roigé"],"firstnames":["Jordi"],"suffixes":[]},{"propositions":[],"lastnames":["Gómez"],"firstnames":["Lucía"],"suffixes":[]},{"propositions":[],"lastnames":["Jaén"],"firstnames":["Àngels"],"suffixes":[]},{"propositions":[],"lastnames":["Matamala"],"firstnames":["Alfredo"],"suffixes":[]},{"propositions":[],"lastnames":["Pedro-Botet"],"firstnames":["M.","Lluïsa"],"suffixes":[]},{"propositions":[],"lastnames":["Capdevila"],"firstnames":["Josep","Anton"],"suffixes":[]},{"propositions":[],"lastnames":["Anglès"],"firstnames":["Francesc"],"suffixes":[]},{"propositions":[],"lastnames":["Pérez"],"firstnames":["Josefa"],"suffixes":[]}],"month":"July","year":"2020","pmid":"32735157","note":"Publisher: Taylor & Francis _eprint: https://doi.org/10.1080/23744235.2020.1799069","keywords":"Article, Bone and joint infection, Laboratori Biologia Molecular, Orthopaedic infection, coagulase-negative staphylococci infection, genotyping, molecular diagnostic techniques","pages":"1–8","bibtex":"@article{munoz-gamito_higher_2020,\n\ttitle = {Higher accuracy of genotypic identification compared to phenotyping in the diagnosis of coagulase-negative staphylococcus infection in orthopedic surgery},\n\tvolume = {0},\n\tissn = {2374-4235},\n\turl = {https://doi.org/10.1080/23744235.2020.1799069},\n\tdoi = {10.1080/23744235.2020.1799069},\n\tabstract = {Purpose To determine whether Repetitive Extragenic Palindromic PCR (rep-PCR) genotyping can improve the diagnosis of coagulase-negative staphylococcal (CoNS) orthopaedic infections in comparison to phenotyping. Methods Prospective study comparing the results of phenotypic/genotypic (rep-PCR) testing in patients with suspected CoNS infection. Each strain was analysed using both methods. Strains identified as identical in ≥2 samples were considered as pathogenic. Results 255 CoNS strains from 52 surgical episodes were included. Infection was diagnosed by phenotyping in 38(73\\%) cases and by genotyping in 40(77\\%). The Kappa index was 0.59. Sensitivity, Specificity, Positive Predictive Value (PPV) and Negative Predictive Value (NPV) for phenotyping (vs. rep-PCR) were: 88\\%, 75\\%, 92\\%, and 64\\%. 5/14(36\\%) of cases not considered as true infections by phenotyping were diagnosed as infections with genotyping. In a subgroup of 203 strains from 41 surgical procedures with orthopaedic implants, the kappa index was 0.68. Sensitivity, Specificity, PPV, and NPV for phenotyping were: 93\\%, 73\\%, 90\\% and 80\\%. Again, 2/10 episodes in which CoNS were considered non-infective by phenotyping were diagnosed as infected by genotyping. Conclusions Rep-PCR genotyping can identify identical CoNS strains that differ in their phenotype and should be used as a complementary technique. One-third of infected cases may be misdiagnosed without genotypic analysis.},\n\tnumber = {0},\n\turldate = {2020-08-25},\n\tjournal = {Infectious Diseases},\n\tauthor = {Muñoz-Gamito, Gema and Cuchí, Eva and Roigé, Jordi and Gómez, Lucía and Jaén, Àngels and Matamala, Alfredo and Pedro-Botet, M. Lluïsa and Capdevila, Josep Anton and Anglès, Francesc and Pérez, Josefa},\n\tmonth = jul,\n\tyear = {2020},\n\tpmid = {32735157},\n\tnote = {Publisher: Taylor \\& Francis\n\\_eprint: https://doi.org/10.1080/23744235.2020.1799069},\n\tkeywords = {Article, Bone and joint infection, Laboratori Biologia Molecular, Orthopaedic infection, coagulase-negative staphylococci infection, genotyping, molecular diagnostic techniques},\n\tpages = {1--8},\n}\n\n","author_short":["Muñoz-Gamito, G.","Cuchí, E.","Roigé, J.","Gómez, L.","Jaén, À.","Matamala, A.","Pedro-Botet, M. L.","Capdevila, J. 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