| Literature DB >> 33913527 |
Abhishek Dubey1, Garima Kotnala2, Tuhin K Mandal2, Subash C Sonkar3, Vijay K Singh1, Sameer A Guru3, Aastha Bansal1, Monica Irungbam1, Farah Husain4, Binita Goswami1,3, Ravindra K Kotnala2, Sonal Saxena5, Sudhir K Sharma2, Kirti N Saxena6, Chhemendra Sharma2, Suresh Kumar7, Dinesh K Aswal2, Vikas Manchanda5, Bidhan C Koner1,3.
Abstract
The present study was conducted from July 1, 2020 to September 25, 2020 in a dedicated coronavirus disease 2019 (COVID-19) hospital in Delhi, India to provide evidence for the presence of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) virus in atmospheric air and surfaces of the hospital wards. Swabs from hospital surfaces (patient's bed, ward floor, and nursing stations area) and suspended particulate matter in ambient air were collected by a portable air sampler from the medicine ward, intensive care unit, and emergency ward admitting COVID-19 patients. By performing reverse-transcriptase polymerase chain reaction (RT-PCR) for E-gene and RdRp gene, SARS-CoV-2 virus was detected from hospital surfaces and particulate matters from the ambient air of various wards collected at 1 and 3-m distance from active COVID-19 patients. The presence of the virus in the air beyond a 1-m distance from the patients and surfaces of the hospital indicates that the SARS-CoV-2 virus has the potential to be transmitted by airborne and surface routes from COVID-19 patients to health-care workers working in COVID-19 dedicated hospital. This warrants that precautions against airborne and surface transmission of COVID-19 in the community should be taken when markets, industries, educational institutions, and so on, reopen for normal activities.Entities:
Keywords: COVID-19; SARS-CoV-2; airborne; epidemiology; horizontal transmission; virus
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Substances:
Year: 2021 PMID: 33913527 PMCID: PMC8242543 DOI: 10.1002/jmv.27029
Source DB: PubMed Journal: J Med Virol ISSN: 0146-6615 Impact factor: 20.693
The details of the target genes and their primers, probes, and sequences used for detection of the SARS‐CoV‐2 virus
| Target gene | Size and position of amplicon | Primers and probes (Dye) | Sequence (5’−3’) |
|---|---|---|---|
| ORF 1ab (RdRp) gene | 101 bp | ORF gene‐forward primers | 5′GTGARATGGTCATGTGTGGCGG3’ |
| (15,431–15,330) | |||
| ORF gene‐reverse primers | 5′CARATGTTAAASACACTATTAGCATA3’ | ||
| ORF gene probe (FAM) | 5′CAGGTGGAACCTCATCAGGAGATGC3’ | ||
| E‐gene | 112 bp | E ‐ gene‐forward primers | 5′ACAGGTACGTTAATAGTTAATAGCGT3’ |
| (26,269–26,381) | |||
| E gene‐reverse primers | 5′ATATTGCAGCAGTACGCACACA3’ | ||
| E ‐ gene probe {JOE (VIC or HEX)} | 5′ACACTAGCCATCCTTACTGCGCCTTCG3’ |
Abbreviations: ORF, open reading frame; SARS‐CoV‐2, severe acute respiratory syndrome coronavirus 2.
Results of RT‐PCR for E‐gene and RdRp gene of SARS‐CoV‐2 virus performed with suspended particulate matter obtained from atmospheric air of medicine ward, ICU, and emergency ward of a dedicated COVID hospital
| Location | Distance from the COVID + ve patient | Different days | Flow rate in TSP air sampler in liter/minute | E‐gene | RdRp‐gene | ||
|---|---|---|---|---|---|---|---|
| +/− |
| +/− |
| ||||
|
Medicine ward admitting ~ 50 mild to moderate COVID‐19 patients. (area 1000 × 600 Feet2) | One meter from the head end of the patients | Day 1 | 1.5 | Positive | 32.14 | Positive | 29.6 |
| 16.7 | Positive | 23.12 | Positive | 26.5 | |||
| 27 | Positive | 26.11 |
|
| |||
| Day 2 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Positive | 27.51 | Positive | 29.1 | |||
| 27 | Positive | 27.2 | Positive | 23.12 | |||
| Day 3 | 1.5 | Positive | 28.69 | Positive | 31 | ||
| 16.7 | Positive | 22.08 | Positive | 26.3 | |||
| 27 | Positive | 24.65 |
|
| |||
| Day 4 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Positive | 25.3 | Negative | Negative | |||
| 27 | Positive | 23.6 | Positive | 18.2 | |||
| Day 5 | 1.5 | Positive | 31 | Negative | Negative | ||
| 16.7 | Positive | 23.2 | Positive | 24.09 | |||
| 27 | Positive | 18.32 | Positive | 21.82 | |||
| Day 6 | 1.5 | Positive | 32.08 | Positive | 29.4 | ||
| 16.7 | Positive | 26 | Positive | 25.9 | |||
| 27 | Positive | 16.11 | Positive | 19.3 | |||
| Three meters from the head end of the patients | |||||||
| Day 1 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
| Day 2 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Positive | 28.1 | Positive | 31.8 | |||
| Day 3 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
| Day 4 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Positive | 21.11 | Positive | 29.85 | |||
| 27 | Positive | 29.7 | Positive | 34.1 | |||
| Day 5 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
| Day 6 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
|
ICU admitting ~20 patients with severe COVID‐19. (area: 200 × 50 Feet2) | One meter from the head end of the patients | Day 1 | 1.5 | Positive | 30.1 | Positive | 29.81 |
| 16.7 | Positive | 29.32 | Positive | 27.51 | |||
| 27 | Positive | 23 | Positive | 18.41 | |||
| Day 2 | 1.5 | Positive | 26.3 | Negative | Negative | ||
| 16.7 | Positive | 29.2 | Positive | 24.15 | |||
| 27 |
|
| Positive | 17.26 | |||
| Day 3 | 1.5 | Positive | 27.5 | Positive | 30.2 | ||
| 16.7 |
|
|
|
| |||
| 27 | Positive | 21.68 | Positive | 19.47 | |||
| Day 4 | 1.5 | Positive | 26.7 | Positive | 30.26 | ||
| 16.7 | Positive | 19.8 | Positive | 25.51 | |||
| 27 | Positive | 19.11 | Positive | 22.4 | |||
| Day 5 | 1.5 | Positive | 30.7 | Positive | 29.11 | ||
| 16.7 | Positive | 25.3 | Positive | 24.98 | |||
| 27 | Positive | 20.3 | Positive | 16.84 | |||
| Day 6 | 1.5 | Positive | 30.4 | Negative | Negative | ||
| 16.7 | Positive | 27.02 | Positive | 24.52 | |||
| 27 | Positive | 21.66 | Positive | 20.1 | |||
| Three meters from the head end of the patients | Day 1 | 1.5 | Negative | Negative | Negative | Negative | |
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Positive | 31 | Negative | Negative | |||
| Day 2 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
| Day 3 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Positive | 30.2 | Positive | 32.89 | |||
| 27 | Positive | 32.5 | Positive | 30.5 | |||
| Day 4 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 |
|
|
|
| |||
| Day 5 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Positive | 31.9 | Positive | 33.25 | |||
| Day 6 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
|
Emergency Ward with variable number of patients ~3‐4/H. (area: 150 × 100 Feet2) | Air sampler placed at the center of Emergency ward | Day 1 | 1.5 | Positive | 29.5 | Negative | Negative |
| 16.7 | Positive | 27.03 | Positive | 33.69 | |||
| 27 | Positive | 26.66 | Positive | 31.89 | |||
| Day 2 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Positive | 30 | Positive | 34.01 | |||
| 27 | Positive | 27.07 | Positive | 29.9 | |||
| Day 3 | 1.5 | Positive | 29.91 | Negative | Negative | ||
| 16.7 | Positive | 26.33 | Positive | 27 | |||
| 27 | Positive | 28.11 | Positive | 24.09 | |||
| Day 4 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Positive | 26.66 | Positive | 30 | |||
| 27 | Positive | 28.21 | Positive | 26.3 | |||
| Day 5 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 |
|
|
|
| |||
| 27 | Positive | 30.23 | Positive | 32.04 | |||
| Day 6 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
|
Nursing station area of medicine ward separated from the patients by glass wall. (area: 20 × 15 Feet2) | Day 1 | 1.5 | Negative | Negative | Negative | Negative | |
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
| Day 2 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
| Day 3 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
| Day 4 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
| Day 5 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
| Day 6 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
|
Nursing station area of ICU separated from the patients by glass wall. (area: 20 × 20 Feet2). | Day 1 | 1.5 | Negative | Negative | Negative | Negative | |
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
| Day 2 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
| Day 3 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
| Day 4 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
| Day 5 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
| Day 6 | 1.5 | Negative | Negative | Negative | Negative | ||
| 16.7 | Negative | Negative | Negative | Negative | |||
| 27 | Negative | Negative | Negative | Negative | |||
Abbreviations: COVID‐19, coronavirus disease 2019; ICU, intensive care unit; RT‐PCR, reverse‐transcriptase polymerase chain reaction; TSP, Total suspended particulate; SARS‐CoV‐2, severe acute respiratory syndrome coronavirus 2.
Frequency of SARS‐CoV‐2 detection in air samples collected at 01 and 03‐ m distance from COVID‐19 patients in medicine ward and ICU
| Site of sample collection | Distance from the patients | No. sample collected | SARS‐CoV‐2 positivity rate (%) |
|
|---|---|---|---|---|
| Medicine ward | 1 m | 06 | 6/6 (100%) | 25.31 |
| 27.43 | ||||
| 24.56 | ||||
| 23.12 | ||||
| 28.92 | ||||
| 27.56 | ||||
| 3 m | 06 | 02/06 (33%) | 34.32 | |
| 33.09 | ||||
| ICU | 1 m | 06 | 06/06 (100%) | 22.32 |
| 23.12 | ||||
| 21.32 | ||||
| 25.79 | ||||
| 19.18 | ||||
| 19.23 | ||||
| 3 m | 06 | 03/06 (50%) | 24.54 | |
| 23.00 | ||||
| 21.76 |
Abbreviations: COVID‐19, coronavirus disease 2019; ICU, intensive care unit; SARS‐CoV‐2, severe acute respiratory syndrome coronavirus 2.
Figure 1Bar diagram showing mean and standard deviation (SD) of cycle threshold (C t) values of RT‐PCR test for E‐gene and RdRp gene of SARS‐CoV‐2 virus conducted with particulate matter obtained from air at distance of 1 and 3‐m from COVID‐19 patients at medicine wards and ICU. Mean and SD were calculated from the samples, which were positive for both E‐gene and RdRp gene and collected through channels of air sampler that was set at air flow rate of 16.7 and 27 liters per minute. COVID‐19, coronavirus disease 2019; ICU, intensive care unit; RT‐PCR, reverse‐transcriptase polymerase chain reaction; SARS‐CoV‐2, severe acute respiratory syndrome coronavirus 2
Results of RT‐PCR for E‐gene and RdRp‐gene of SARS‐CoV‐2 virus performed with swabs collected from patients’ beds, floor, and nursing working stations at the medicine ward and ICU of a COVID‐dedicated hospital
| Different days | Location | Site of sample collection | CORONA (E‐gene) | COVID (RDRP gene) | ||
|---|---|---|---|---|---|---|
| +/− |
| +/− |
| |||
| Day 1 | ICU | Patients’ bed | Positive | 19.58 | Positive | 18.61 |
| ICU | Floor | Positive | 30.6 | Positive | 27.36 | |
| ICU | Nursing station | Negative | Negative | Negative | Negative | |
| Medicine ward | Patient bed | Positive | 28.9 | Positive | 22.52 | |
| Medicine ward | Floor | Positive | 33.8 | Negative | Negative | |
| Medicine ward | Nursing station | Negative | Negative | Negative | Negative | |
| Day 2 | ICU | Patients’ bed | Positive | 28.76 | Positive | 19.54 |
| ICU | Floor | Positive | 28.9 | Positive | 23.33 | |
| ICU | Nursing station | Positive | 34.02 | Negative | Negative | |
| Medicine ward | Patient bed | Positive | 29 | Positive | 19.55 | |
| Medicine ward | Floor | Positive | 32 | Positive | 23.43 | |
| Medicine ward | Nursing station | Negative | Negative | Negative | Negative | |
| Day 3 | ICU | Patients’ bed | Positive | 21.69 | Positive | 18.55 |
| ICU | Floor | Positive | 28.81 | Negative | Negative | |
| ICU | Nursing station | Positive | 30.12 | Negative | Negative | |
| Medicine ward | Patient bed | Positive | 26.72 | Positive | 22.13 | |
| Medicine ward | Floor | Positive | 32.54 | Negative | Negative | |
| Medicine ward | Nursing station | Negative | Negative | Negative | Negative | |
Abbreviations: COVID, coronavirus disease; ICU, intensive care unit; RT‐PCR, reverse‐transcriptase polymerase chain reaction; SARS‐CoV‐2, severe acute respiratory syndrome coronavirus 2.
Figure 2Bar diagram showing mean and standard deviation (SD) of cycle threshold (C t) values of RT‐PCR test for E‐gene and RdRp gene of SARS‐CoV‐2 virus conducted with particulate matter obtained from air of different wards admitting COVID‐19 patients when the flow rate of air sampler was adjusted to 1.5, 16.7, and 27 liter per minute (LPM). Mean and SD were calculated from the samples those were positive for both E‐gene and RdRp gene irrespective of distance from the patient at which the air sampler was placed. COVID‐19, coronavirus disease 2019; RT‐PCR, reverse‐transcriptase polymerase chain reaction; SARS‐CoV‐2, severe acute respiratory syndrome coronavirus 2