1. Detection and quantification of SARS-CoV-2 by droplet digital PCR in real-time PCR negative nasopharyngeal swabs from suspected COVID-19 patients
- Author
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Oscar Massimiliano Epis, Daniela Campisi, Chiara Baiguera, Alice Nava, Marco Merli, Claudia Alteri, Carlo Federico Perno, Nicola Ughi, Silvia Renica, Livia Tartaglione, Jacopo Colombo, Valeria Cento, Roberto Fumagalli, Stefania Carta, Diana Fanti, Luna Colagrossi, Federica Di Ruscio, Chiara Grimaldi, Valentino Costabile, Francesco Scaglione, Massimo Puoti, Maria Antonello, Chiara Vismara, Elisa Matarazzo, Alteri, C, Cento, V, Antonello, M, Colagrossi, L, Merli, M, Ughi, N, Renica, S, Matarazzo, E, Ruscio, F, Tartaglione, L, Colombo, J, Grimaldi, C, Carta, S, Nava, A, Costabile, V, Baiguera, C, Campisi, D, Fanti, D, Vismara, C, Fumagalli, R, Scaglione, F, Epis, O, Puoti, M, and Perno, C
- Subjects
RNA viruses ,Male ,0301 basic medicine ,Viral Diseases ,Pulmonology ,Coronaviruses ,Epidemiology ,Pathology and Laboratory Medicine ,Severity of Illness Index ,Gastroenterology ,Serology ,Medical Conditions ,Limit of Detection ,Nasopharynx ,Medicine and Health Sciences ,Digital polymerase chain reaction ,Stage (cooking) ,Virus Testing ,Aged, 80 and over ,Multidisciplinary ,Medical microbiology ,Middle Aged ,Viral Load ,Hospitals ,Titer ,Infectious Diseases ,Real-time polymerase chain reaction ,Viruses ,Medicine ,RNA, Viral ,Female ,SARS CoV 2 ,Pathogens ,Coronavirus Infections ,COVID-19 SARS-CoV-2 ,Viral load ,Research Article ,medicine.medical_specialty ,SARS coronavirus ,Science ,Pneumonia, Viral ,030106 microbiology ,Real-Time Polymerase Chain Reaction ,Microbiology ,Betacoronavirus ,03 medical and health sciences ,Diagnostic Medicine ,Virology ,Internal medicine ,Severity of illness ,medicine ,Humans ,Pandemics ,Aged ,Biology and life sciences ,SARS-CoV-2 ,business.industry ,Organisms ,Viral pathogens ,COVID-19 ,Covid 19 ,Pneumonia ,medicine.disease ,Microbial pathogens ,Health Care ,030104 developmental biology ,Health Care Facilities ,business ,Viral Transmission and Infection - Abstract
Since SARS-CoV-2-based disease (COVID-19) spreads as a pandemic, the necessity of a highly sensitive molecular diagnosis that can drastically reduce false negatives reverse transcription PCR (rtPCR) results, raises as a major clinical need. Here we evaluated the performance of a ddPCR-based assay to quantify SARS-CoV-2 titer in 55 suspected COVID-19 cases with negative rtPCR results thanks to in-house ddPCR assay (targeting RdRp and host RNaseP). Samples were collected at ASST-GOM Niguarda between February and May 2020 at hospital admission. Clinical and imaging data were obtained for clinical staging and definition of disease severity. Patients were mainly female (45.5%) with a median age of 73 (57–84) years. ddPCR-based assay detected SARS-CoV-2 genome in nasopharyngeal samples of 19 (34.5%) patients (median viral-load: 128 copies/mL, IQR: 72–345). In 15 of them (78.9%), chest CT showed a classical COVID-19 bilateral interstitial pneumonia; 14 patients (73.7%) showed severe COVID-19 manifestations. ddPCR did not identify any trace of SARS-CoV-2 genome in the respiratory samples of the remaining 36 patients. The serological assay performed in a subgroup of 34 patients at the later stage of illness (from 3 days to 90 days after) confirmed the presence of SARS-CoV-2 antibodies in all patients tested positive for SARS-CoV-2 in ddPCR (100%). Contrariwise, negative tests were observed in 95.0% ddPCR negative patients (P
- Published
- 2020