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      Modeling the underestimation of COVID-19 infection

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          Abstract

          Estimation of the undocumented cases of COVID-19 is critical for understanding the epidemic potential of the disease and informing pandemic response. The COVID-19 pandemic originated from a severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), a virus similar to severe acute respiratory syndrome (SARS) that was formerly identified in 2003. The contagiousness, dynamics of the pathogen, and mobility of the general population incurred the occurrence of underestimation of infection (i.e., the unidentified cases and the gap with the identified cases) that was potentially substantial in magnitude, which was supposed to connect with subsequent cyclical outbreaks in practice. We employed a Susceptible-Infected-Removed-Contained (SIR-C) mathematical model to infer critical epidemiological characteristics associated with COVID-19, then asymptotically simulated the peak sizes and peak dates of the identified and unidentified cases, the underestimation, and the dynamics of the gap. The simulation outcomes indicated that unidentified peak dates in practice could predate the reported peak dates for a variable period of weeks or months. In comparison, the saturation sizes of infection remained at commensurate levels. The curve of the initial exponential-like outbreak for the undocumented cases would flatten when the gap between concurrent identified cases and unidentified cases decreased. The rate of non-pharmaceutical containment could impact the trend of disease transmission ceteris paribus, and the greater the rate the larger reduction of infections. When the rate reached a certain level of threshold, the undocumented curve would shift from flattening effect to decaying effect. A similar trend was observed when it applied to the rate of pharmaceutical containment measures ceteris paribus. The results were sensitive to the duration of infection (DOI), it manifested that greater values of DOI were associated with greater peak sizes and greater peak dates for both documented and undocumented cases. Conditional on assumptions, calibration of DOI from 8 days to 18 days would increase the unidentified peak size by nearly 56% and the peak date by almost 18 days.

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          Temporal dynamics in viral shedding and transmissibility of COVID-19

          We report temporal patterns of viral shedding in 94 patients with laboratory-confirmed COVID-19 and modeled COVID-19 infectiousness profiles from a separate sample of 77 infector-infectee transmission pairs. We observed the highest viral load in throat swabs at the time of symptom onset, and inferred that infectiousness peaked on or before symptom onset. We estimated that 44% (95% confidence interval, 25-69%) of secondary cases were infected during the index cases' presymptomatic stage, in settings with substantial household clustering, active case finding and quarantine outside the home. Disease control measures should be adjusted to account for probable substantial presymptomatic transmission.
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            Nowcasting and forecasting the potential domestic and international spread of the 2019-nCoV outbreak originating in Wuhan, China: a modelling study

            Summary Background Since Dec 31, 2019, the Chinese city of Wuhan has reported an outbreak of atypical pneumonia caused by the 2019 novel coronavirus (2019-nCoV). Cases have been exported to other Chinese cities, as well as internationally, threatening to trigger a global outbreak. Here, we provide an estimate of the size of the epidemic in Wuhan on the basis of the number of cases exported from Wuhan to cities outside mainland China and forecast the extent of the domestic and global public health risks of epidemics, accounting for social and non-pharmaceutical prevention interventions. Methods We used data from Dec 31, 2019, to Jan 28, 2020, on the number of cases exported from Wuhan internationally (known days of symptom onset from Dec 25, 2019, to Jan 19, 2020) to infer the number of infections in Wuhan from Dec 1, 2019, to Jan 25, 2020. Cases exported domestically were then estimated. We forecasted the national and global spread of 2019-nCoV, accounting for the effect of the metropolitan-wide quarantine of Wuhan and surrounding cities, which began Jan 23–24, 2020. We used data on monthly flight bookings from the Official Aviation Guide and data on human mobility across more than 300 prefecture-level cities in mainland China from the Tencent database. Data on confirmed cases were obtained from the reports published by the Chinese Center for Disease Control and Prevention. Serial interval estimates were based on previous studies of severe acute respiratory syndrome coronavirus (SARS-CoV). A susceptible-exposed-infectious-recovered metapopulation model was used to simulate the epidemics across all major cities in China. The basic reproductive number was estimated using Markov Chain Monte Carlo methods and presented using the resulting posterior mean and 95% credibile interval (CrI). Findings In our baseline scenario, we estimated that the basic reproductive number for 2019-nCoV was 2·68 (95% CrI 2·47–2·86) and that 75 815 individuals (95% CrI 37 304–130 330) have been infected in Wuhan as of Jan 25, 2020. The epidemic doubling time was 6·4 days (95% CrI 5·8–7·1). We estimated that in the baseline scenario, Chongqing, Beijing, Shanghai, Guangzhou, and Shenzhen had imported 461 (95% CrI 227–805), 113 (57–193), 98 (49–168), 111 (56–191), and 80 (40–139) infections from Wuhan, respectively. If the transmissibility of 2019-nCoV were similar everywhere domestically and over time, we inferred that epidemics are already growing exponentially in multiple major cities of China with a lag time behind the Wuhan outbreak of about 1–2 weeks. Interpretation Given that 2019-nCoV is no longer contained within Wuhan, other major Chinese cities are probably sustaining localised outbreaks. Large cities overseas with close transport links to China could also become outbreak epicentres, unless substantial public health interventions at both the population and personal levels are implemented immediately. Independent self-sustaining outbreaks in major cities globally could become inevitable because of substantial exportation of presymptomatic cases and in the absence of large-scale public health interventions. Preparedness plans and mitigation interventions should be readied for quick deployment globally. Funding Health and Medical Research Fund (Hong Kong, China).
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              Projecting the transmission dynamics of SARS-CoV-2 through the postpandemic period

              It is urgent to understand the future of severe acute respiratory syndrome–coronavirus 2 (SARS-CoV-2) transmission. We used estimates of seasonality, immunity, and cross-immunity for betacoronaviruses OC43 and HKU1 from time series data from the USA to inform a model of SARS-CoV-2 transmission. We projected that recurrent wintertime outbreaks of SARS-CoV-2 will probably occur after the initial, most severe pandemic wave. Absent other interventions, a key metric for the success of social distancing is whether critical care capacities are exceeded. To avoid this, prolonged or intermittent social distancing may be necessary into 2022. Additional interventions, including expanded critical care capacity and an effective therapeutic, would improve the success of intermittent distancing and hasten the acquisition of herd immunity. Longitudinal serological studies are urgently needed to determine the extent and duration of immunity to SARS-CoV-2. Even in the event of apparent elimination, SARS-CoV-2 surveillance should be maintained since a resurgence in contagion could be possible as late as 2024.
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                Author and article information

                Journal
                Results Phys
                Results Phys
                Results in Physics
                Published by Elsevier B.V.
                2211-3797
                13 May 2021
                13 May 2021
                : 104271
                Affiliations
                [a ]School of Internet Economics and Business, China
                [b ]Department of Computer Science and Mathematics, China
                Author notes
                [* ]Corresponding author.
                Article
                S2211-3797(21)00408-3 104271
                10.1016/j.rinp.2021.104271
                8116124
                34002127
                473282b9-3309-49ba-babb-af3b53164b60
                © 2021 Published by Elsevier B.V.

                Since January 2020 Elsevier has created a COVID-19 resource centre with free information in English and Mandarin on the novel coronavirus COVID-19. The COVID-19 resource centre is hosted on Elsevier Connect, the company's public news and information website. Elsevier hereby grants permission to make all its COVID-19-related research that is available on the COVID-19 resource centre - including this research content - immediately available in PubMed Central and other publicly funded repositories, such as the WHO COVID database with rights for unrestricted research re-use and analyses in any form or by any means with acknowledgement of the original source. These permissions are granted for free by Elsevier for as long as the COVID-19 resource centre remains active.

                History
                : 3 December 2020
                : 29 April 2021
                : 30 April 2021
                Categories
                Article

                covid-19,sars-cov-2,modeling,simulation,pandemic,epidemics,underestimation

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