scholarly journals Country-specific optimization strategy for testing through contact tracing can help maintain a low reproduction number ($$R_{0}$$) during unlock

2022 ◽  
Vol 12 (1) ◽  
Author(s):  
Uddipan Sarma ◽  
Bhaswar Ghosh

AbstractIn response to the COVID19 pandemic, many countries have implemented lockdowns in multiple phases to ensure social distancing and quarantining of the infected subjects. Subsequent unlocks to reopen the economies started next waves of infection and imposed an extra burden on quarantine to keep the reproduction number ($$R_{0}$$ R 0 ) < 1. However, most countries could not effectively contain the infection spread, suggesting identification of the potential sources weakening the effect of lockdowns could help design better informed lockdown-unlock cycles in the future. Here, through building quantitative epidemic models and analyzing the metadata of 50 countries from across the continents we first found that the estimated value of $$R_{0}$$ R 0 , adjusted w.r.t the distribution of medical facilities and virus clades correlates strongly with the testing rates in a country. Since the testing capacity of a country is limited by its medical resources, we investigated if a cost–benefit trade-off can be designed connecting testing rate and extent of unlocking. We present a strategy to optimize this trade-off in a country specific manner by providing a quantitative estimate of testing and quarantine rates required to allow different extents of unlocks while aiming to maintain $$R_{0} < 1$$ R 0 < 1 . We further show that a small fraction of superspreaders can dramatically increase the number of infected individuals even during strict lockdowns by strengthening the positive feedback loop driving infection spread. Harnessing the benefit of optimized country-specific testing rates would critically require minimizing the movement of these superspreaders via strict social distancing norms, such that the positive feedback driven switch-like exponential spread phase of infection can be avoided/delayed.

2021 ◽  
Author(s):  
Uddipan Sarma ◽  
Bhaswar Ghosh

Abstract In response to the COVID19 pandemics, many countries have implemented lockdowns in multiple phases to ensure social distancing and quarantining of the infected subjects as a first step to contain the infection spread. Subsequent unlocks to reopen the economies started next waves and imposed extra burden on quarantine to keep the reproduction number ( R0<1 ). Even with initial strict lockdowns and recent launching of vaccination programs, many countries are still struggling to contain the infection which suggests that revisiting the mechanism of lockdown-unlock implementation and simultaneous underpinning of the potential sources diluting the effort of such lockdowns could help better contain the spread of infection. Here, building epidemic models and analyzing the metadata of 50 countries, we first found that the estimated values of R0, adjusted w.r.t the distribution of medical facilities and virus clades, correlates strongly with the testing rates across countries. However, testing capacity of a country is limited by its medical resources, hence, as we demonstrate, optimizing a cost-benefit trade-off between testing rate and unlocking extents implemented in a country specific manner can help in devising the strategies of unlocking the economy. Our study delineates a strategy to optimize this trade-off by utilizing country specific infection spread parameters estimated in the epidemic models and implementing them in a stochastic agent based contact tracing models. The analysis provides a quantitative estimate of testing rates required to maintain a low for different extents of unlock. We further found that a small fraction of superspreaders can drastically increase the number of infected individuals even during lockdowns, primarily due to a switch-like response stemming from the implicit systems-level positive feedback loop driving the spread of infection. Our model suggests that with a country specific optimal combination of unlock extents and testing rates, R0 <1 can be stabilized during a pandemic like COVID19. To harness the benefit of improved testing rates and minimize the infection spread, strict social distancing norms to restrict the movement of superspreaders is necessary, such that onset of the positive feedback loop mediated exponential infection spread can be avoided.


Biology ◽  
2020 ◽  
Vol 9 (5) ◽  
pp. 100 ◽  
Author(s):  
Biao Tang ◽  
Francesca Scarabel ◽  
Nicola Luigi Bragazzi ◽  
Zachary McCarthy ◽  
Michael Glazer ◽  
...  

Since the beginning of the COVID-19 pandemic, most Canadian provinces have gone through four distinct phases of social distancing and enhanced testing. A transmission dynamics model fitted to the cumulative case time series data permits us to estimate the effectiveness of interventions implemented in terms of the contact rate, probability of transmission per contact, proportion of isolated contacts, and detection rate. This allows us to calculate the control reproduction number during different phases (which gradually decreased to less than one). From this, we derive the necessary conditions in terms of enhanced social distancing, personal protection, contact tracing, quarantine/isolation strength at each escalation phase for the disease control to avoid a rebound. From this, we quantify the conditions needed to prevent epidemic rebound during de-escalation by simply reversing the escalation process.


Author(s):  
Mirjam E. Kretzschmar ◽  
Ganna Rozhnova ◽  
Martin Bootsma ◽  
Michiel van Boven ◽  
Janneke van de Wijgert ◽  
...  

SummaryBackgroundWith confirmed cases of COVID-19 declining in many countries, lockdown measures are gradually being lifted. However, even if most social distancing measures are continued, other public health measures will be needed to control the epidemic. Contact tracing via conventional methods or mobile app technology is central to control strategies during deescalation of social distancing. We aimed to identify key factors for a contact tracing strategy (CTS) to be successful.MethodsWe evaluated the impact of timeliness and completeness in various steps of a CTS using a stochastic mathematical model with explicit time delays between time of infection and symptom onset, and between symptom onset, diagnosis by testing, and isolation (testing delay). The model also includes tracing of close contacts (e.g. household members) and casual contacts, followed by testing regardless of symptoms and isolation if positive, with different delays (tracing delay) and coverages (tracing coverage). We computed effective reproduction numbers of a CTS (Rcts) for a population with social distancing measures and various scenarios for isolation of index cases and tracing and quarantine of its contacts.FindingsFor the best-case scenario (testing and tracing delays of 0 days and tracing coverage of 80%), and assuming that around 40% of transmission occur before symptom onset, the model predicts that the effective reproduction number of 1.2 (with social distancing only) will be reduced to 0.8 by adding contact tracing. A testing delay of 2 days requires tracing delay to be at most 1 day, or tracing coverage to be at least 80% to keep Rcts below 1. With a testing/isolation delay of 3 days, even the most efficient CTS cannot reach Rcts values below 1. The effect of minimizing tracing delay (e.g., with app-based technology) declines with decreasing coverage of app use, but app-based tracing alone remains more effective than conventional tracing alone even with 20% coverage. The proportion of transmissions per index case that can be prevented depends on testing and tracing delays, and ranges from up to 80% in the best-case scenario (testing and tracing delays of 0 days) to 42% with a 3-day testing delay and 18% with a 5-day testing delay.InterpretationIn our model, minimizing testing delay had the largest impact on reducing onward transmissions. Optimizing testing and tracing coverage and minimizing tracing delays, for instance with app-based technology, further enhanced CTS effectiveness, with a potential to prevent up to 80% of all transmissions. Access to testing should therefore be optimized, and mobile app technology may reduce delays in the CTS process and optimize contact tracing coverage.Research in contextEvidence before this studyWe searched PubMed, bioRxiv, and medRxiv for articles published in English from January 1, 2020, to June 20, 2020, with the following keywords: (“2019-nCoV” OR “novel coronavirus” OR “COVID-19” OR “SARS-CoV-2”) AND “contact tracing” AND “model*”. Population-level modelling studies of severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) have suggested that isolation and tracing alone might not be sufficient to control outbreaks and additional measures might be required. However, few studies have focused on the effects of lifting individual measures once the first wave of the epidemic has been controlled. Lifting measures must be accompanied by effective contact tracing strategies (CTS) in order to keep the effective reproduction number below 1. A detailed analysis, with special emphasis on the effects of time delays in testing of index patients and tracing of contacts, has not been done.Added value of this studyWe performed a systematic analysis of the various steps required in the process of testing and diagnosing an index case as well as tracing and isolating possible secondary cases of the index case. We then used a stochastic transmission model which makes a distinction between close contacts (e.g. household members) and casual contacts to assess which steps and (possible) delays are crucial in determining the effectiveness of CTS. We evaluated how delays and the level of contact tracing coverage influence the effective reproduction number, and how fast CTS needs to be to keep the reproduction number below 1. We also analyzed what proportion of onward transmission can be prevented for short delays and high contact tracing coverage. Assuming that around 40% of transmission occurs before symptom onset, we found that keeping the time between symptom onset and testing and isolation of an index case short (<3 days) is imperative for a successful CTS. This implies that the process leading from symptom onset to receiving a positive test should be minimized by providing sufficient and easily accessible testing facilities. In addition, reducing contact-tracing delays also helps to keep the reproduction number below 1.Implications of all the available evidenceOur analyses highlight that CTS will only contribute to containment of COVID-19 if it can be organised in a way that time delays in the process from symptom onset to isolation of the index case and his/her contacts are very short. The process of conventional contact tracing should be reviewed and streamlined, while mobile app technology may offer a tool for gaining speed in the process. Reducing delay in testing subjects for SARS-CoV-2 should be a key objective of CTS.


2020 ◽  
Author(s):  
Hyojung Lee ◽  
Yeahwon Kim ◽  
Eunsu Kim ◽  
Sunmi ‍Lee

BACKGROUND The emergence of COVID-19 has posed a serious threat to humans all around the world despite recent achievements of vaccines, antiviral drugs, and medical infrastructure. Our modern society has evolved too complex and most of the countries are tightly connected on a global scale. This makes it nearly impossible to implement perfect and prompt mitigation strategies for the COVID-19 outbreaks. Especially, due to the explosive growth of international travels, the diverse network and complexity of human mobility become an essential factor that gives rise to the spread of COVID-19 globally within a very short time. OBJECTIVE South Korea is one of the countries that have experienced the early stage of the COVID-19 pandemic. In the absence of vaccines and treatments, South Korea has implemented and maintained stringent interventions such as large-scale epidemiological investigation, rapid diagnosis, social distancing, and prompt clinical classification of severe patients with appropriate medical measures. In particular, South Korea has been implementing effective screening and quarantine at the airport. In this work, we aim to investigate the impacts of such effective interventions on international travels which can prevent local transmission of COVID-19. METHODS The relation between the number of passengers and the number of imported cases were analyzed. Based on the relation, we have assessed the country-specific risk as the spread of COVID-19 gets expanded from January to October 2020. Moreover, a renewal mathematical modeling has been employed incorporating the risk assessment to capture both imported and local cases of COVID-19 in South Korea. We have estimated the basic reproduction number and the effective reproduction number accounting for both imported and local cases. RESULTS The basic reproduction number (R_0) was estimated at 1.87 (95% CI : 1.47, 2.35) with the rate (α =0.07)of the secondary transmission caused by the imported cases. The time-varying basic reproduction number (effective reproduction number, R_t) was estimated. Our results indicate that the prompt implementation of case-isolation and quarantine were effective to reduce the. secondary cases from imported cases in spite of constant inflows from high-risk countries of COVID-19 all throughout the year 2020. Moreover, various mitigation interventions including social distancing and movement restriction have been maintained effectively to reduce the spread of local cases in South Korea. CONCLUSIONS We have investigated the relative risk of importation of COVID-19, using the country-specific epidemiological data, and passenger volume. By combining the social distancing, screening, and self-quarantine for all travelers entering Korea, the mitigation of COVID-19 transmission caused by imported cases in Korea was highly successful. Those efforts, accompanied by identification of the source of infection, the strengthened quarantine measures for travelers from overseas countries, should be continued. However, the recent new coronavirus variant originated from South Africa has been threatening to get back to the strict border control and lockdown of all around the world again. Therefore, it is urgent to assess the importation risk and maintain an effective surveillance system of COVID-19 in South Korea.


2021 ◽  
Vol 8 ◽  
Author(s):  
Mirjam E. Kretzschmar ◽  
Ganna Rozhnova ◽  
Michiel van Boven

SARS-CoV-2 has established itself in all parts of the world, and many countries have implemented social distancing as a measure to prevent overburdening of health care systems. Here we evaluate whether and under which conditions containment of SARS-CoV-2 is possible by isolation and contact tracing in settings with various levels of social distancing. To this end we use a branching process model in which every person generates novel infections according to a probability distribution that is affected by the incubation period distribution, distribution of the latent period, and infectivity. The model distinguishes between household and non-household contacts. Social distancing may affect the numbers of the two types of contacts differently, for example while work and school contacts are reduced, household contacts may remain unchanged. The model allows for an explicit calculation of the basic and effective reproduction numbers, and of exponential growth rates and doubling times. Our findings indicate that if the proportion of asymptomatic infections in the model is larger than 30%, contact tracing and isolation cannot achieve containment for a basic reproduction number (ℛ0) of 2.5. Achieving containment by social distancing requires a reduction of numbers of non-household contacts by around 90%. If containment is not possible, at least a reduction of epidemic growth rate and an increase in doubling time may be possible. We show for various parameter combinations how growth rates can be reduced and doubling times increased by contact tracing. Depending on the realized level of contact reduction, tracing and isolation of only household contacts, or of household and non-household contacts are necessary to reduce the effective reproduction number to below 1. In a situation with social distancing, contact tracing can act synergistically to tip the scale toward containment. These measures can therefore be a tool for controlling COVID-19 epidemics as part of an exit strategy from lock-down measures or for preventing secondary waves of COVID-19.


Author(s):  
Adam Kucharski ◽  
Petra Klepac ◽  
Andrew Conlan ◽  
Stephen Kissler ◽  
Maria Tang ◽  
...  

AbstractBackgroundIsolation of symptomatic cases and tracing of contacts has been used as an early COVID-19 containment measure in many countries, with additional physical distancing measures also introduced as outbreaks have grown. To maintain control of infection while also reducing disruption to populations, there is a need to understand what combination of measures – including novel digital tracing approaches and less intensive physical distancing – may be required to reduce transmission.MethodsUsing a model of individual-level transmission stratified by setting (household, work, school, other) based on BBC Pandemic data from 40,162 UK participants, we simulated the impact of a range of different testing, isolation, tracing and physical distancing scenarios. As well as estimating reduction in effective reproduction number, we estimated, for a given level of COVID-19 incidence, the number of contacts that would be newly quarantined each day under different strategies.ResultsUnder optimistic but plausible assumptions, we estimated that combined testing and tracing strategies would reduce transmission more than mass testing or self-isolation alone (50–65% compared to 2–30%). If limits are placed on gatherings outside of home/school/work (e.g. maximum of 4 daily contacts in other settings), then manual contact tracing of acquaintances only could have a similar effect on transmission reduction as detailed contact tracing. In a scenario where there were 10,000 new symptomatic cases per day, we estimated in most contact tracing strategies, 140,000 to 390,000 contacts would be newly quarantined each day.ConclusionsConsistent with previous modelling studies and country-specific COVID-19 responses to date, our analysis estimates that a high proportion of cases would need to self-isolate and a high proportion of their contacts to be successfully traced to ensure an effective reproduction number that is below one in the absence of other measures. If combined with moderate physical distancing measures, self-isolation and contact tracing would be more likely to achieve control.FundingWellcome Trust, EPSRC, European Commission.


2020 ◽  
Author(s):  
Hossein Gorji ◽  
Markus Arnoldini ◽  
David F. Jenny ◽  
Wolf-Dietrich Hardt ◽  
Patrick Jenny

AbstractCovid-19 mitigation commonly involves contact tracing (CT) and social distancing. Due to its high economic toll and its impact on personal freedom, we need to ease social distancing and deploy alternative measures, while preventing further waves of infections. While reliable mass testing (for virus RNA) would require too many resources to be effective, CT, which focuses on isolating symptomatic cases and their contacts, has been implemented in many countries. However, the latter approach has reduced efficiency when high numbers of positive patients are burdening the tracing centers. Moreover, CT misses transmissions by asymptomatic cases. Therefore, its effect in reducing the reproduction number has a theoretical limit.To improve effectiveness of contact tracing, we propose to complement it with a strategy relying on identifying and testing symptom free subgroups with a significantly higher than average virus prevalence. We call this smart testing (ST). By testing everybody in these subgroups, in addition to symptomatic cases, also large fractions of pre- and asymptomatic persons can be identified, which enhances the effectiveness of contact tracing. High prevalence subgroups can be found in different ways, which are discussed in this paper. A particularly efficient way is via preselection using cheap and fast virus antigen tests, as proposed recently. Mathematical modeling quantifies the potential reduction of the reproduction number by such a two-stage ST strategy. In addition to global scenarios, also more realistic local applications of two-stage ST have been investigated, that is, within counties, institutions, schools, companies, etc., where members have internal as well as external contacts. All involved model parameters have been varied within realistic ranges and results are presented with probabilities. Even with the most pessimistic parameter set, these results suggest that the effect of two-stage ST on the reproduction number would clearly outweigh its economic cost. Two-stage ST is technically and logistically feasible. Further, it is locally effective also when only applied within small local subpopulations. Thereby, two-stage ST efficiently complements the portfolio of mitigation strategies, which allow easing social distancing without compromising public health.Single Sentence SummaryIdentification of high prevalence groups within subpopulations to enhance detection rate of Covid-19 infections by virus RNA tests combined with subsequent isolation.


Author(s):  
Mirjam E. Kretzschmar ◽  
Ganna Rozhnova ◽  
Michiel van Boven

AbstractBackgroundNovel coronavirus (SARS-CoV-2) has extended its range of transmission in all parts of the world, with substantial variation in rates of transmission and severity of associated disease. Many countries have implemented social distancing as a measure to control further spread.MethodsWe evaluate whether and under which conditions containment or slowing down COVID-19 epidemics are possible by isolation and contact tracing in settings with various levels of social distancing. We use a stochastic transmission model in which every person generates novel infections according to a probability distribution that is affected by the incubation period distribution (time from infection to symptoms), distribution of the latent period (time from infection to onset of infectiousness), and overall transmissibility. The model distinguishes between close contacts (e.g., within a household) and other contacts in the population. Social distancing affects the number of contacts outside but not within the household.FindingsThe proportion of asymptomatic or unascertained cases has a strong impact on the controllability of the disease. If the proportion of asymptomatic infections is larger than 30%, contact tracing and isolation cannot achieve containment for an R0 of 2.5. Achieving containment by social distancing requires a reduction of numbers of non-household contacts by around 90%. Depending on the realized level of contact reduction, tracing and isolation of only household contacts, or of household and non-household contacts are necessary to reduce the effective reproduction number to below 1. A combination of social distancing with isolation and contact tracing leads to synergistic effects that increase the prospect of containment.InterpretationIsolation and contact tracing can be an effective means to slow down epidemics, but only if the majority of cases are ascertained. In a situation with social distancing, contact tracing can act synergistically and tip the scale towards containment, and can therefore be a tool for controlling COVID-19 epidemics as part of an exit strategy from current lockdown measures.FundingThis research was partly funded by ZonMw project number 91216062.Research in contextEvidence before this studyAs of 8 April 2020, the novel coronavirus (SARS-CoV-2) has spread to more than 170 countries and has caused near 90,000 deaths of COVID-19 worldwide. In the absence of effective medicines and vaccines, the preventive measures are limited to social distancing, isolation of confirmed and suspected cases, and identification and quarantining of their contacts. Evidence suggests that a substantial portion of transmission may occur before the onset of symptoms and before cases can be isolated, and that many cases remain unascertained. This has potentially important implications for the prospect of containment by combinations of these measures.Added value of this studyUsing a stochastic transmission model armed with current best estimates of epidemiological parameters, we evaluated under which conditions containment could be achieved with combinations of social distancing, isolation and contact tracing. We investigated the level of social distancing needed for containment, and how an additional implementation of isolation and contact tracing may likely help to in reducing the effective reproduction number to below 1, the critical threshold. We analyzed what proportion of household and non-household contacts need to be isolated effectively to achieve containment depending on the level of social distancing in the population. We estimated the impact of combinations of these measures on epidemic growth rate and doubling time for the number of infections. We find that under realistic assumptions on the level of social distancing, additional isolation and contact tracing are needed for stopping the epidemic. Whether quarantining only household contacts is sufficient, depends on levels of social distancing and timeliness of tracing and isolation.Implications of all the available evidenceOur analyses based on best understanding of the epidemiology of COVID-19, highlight that if social distancing is not complete, isolation and contact tracing at least of household contacts can help to delay and lower the epidemic peak. High levels of timely contact tracing of household and non-household contacts may be sufficient to control the epidemic.


2020 ◽  
Author(s):  
Uddipan Sarma ◽  
Bhaswar Ghosh

AbstractThe COVID19 outbreak, which started in Wuhan, is now spread across 200+ countries with over 6 million reported infections and a death toll over 350 thousand. In response, and primarily in the absence of a vaccine, many countries have implemented lockdown to ensure social distancing and started rigorously quarantining the infected subjects. In this study, we attempt to identify the most potent component(s) in the system that can be manipulated via human intervention. Firstly, analysis of the metadata for 93 countries showed a reduction in the estimated reproduction number (a month post-infection) is correlated to the testing rate in a country. To systematically study the dynamics of infection we next built epidemic models for 23 different countries and calibrated the confirmed, recovered, and dead population trajectories in the model to the respective data from WHO. The countries chosen either had the infection peak long crossed; peak recently reached but still with significant daily infection, or, infection peak is yet to arrive. Our model successfully fits data from all 23 countries and provides us with incubation time, transmission rate, quarantine, recovery, and death rates for each country. With further analysis, we found infection spread towards a much larger second wave can be controlled via a rigorous increase in the quarantine rates that, we show, can be tailored in a country-specific manner; for instance, we found the USA or Spain might require a 10 fold increase in testing/ quarantine rates compared to India to control the second wave post lockdown. Our data-driven modeling and analysis thus pave a way to understand and manipulate the infection dynamics during and post lockdown phases in various countries. The findings can also be used to strategize the testing and quarantine processes to manipulate the spread of the disease in the future.


2020 ◽  
Author(s):  
Jasmina Panovska-Griffiths ◽  
Cliff Kerr ◽  
Robyn Margaret Stuart ◽  
Dina Mistry ◽  
Daniel Klein ◽  
...  

Background In order to slow down the spread of SARS-CoV-2, the virus causing the COVID-19 pandemic, the UK government has imposed strict physical distancing (lockdown) measures including school 'dismissals' since 23 March 2020. As evidence is emerging that these measures may have slowed the spread of the pandemic, it is important to assess the impact of any changes in strategy, including scenarios for school reopening and broader relaxation of social distancing. This work uses an individual-based model to predict the impact of a suite of possible strategies to reopen schools in the UK, including that currently proposed by the UK government. Methods We use Covasim, a stochastic agent-based model for transmission of COVID-19, calibrated to the UK epidemic. The model describes individuals' contact networks stratified as household, school, work and community layers, and uses demographic and epidemiological data from the UK. We simulate a range of different school reopening strategies with a society-wide relaxation of lockdown measures and in the presence of different non-pharmaceutical interventions, to estimate the number of new infections, cumulative cases and deaths, as well as the effective reproduction number with different strategies. To account for uncertainties within the stochastic simulation, we also simulated different levels of infectiousness of children and young adults under 20 years old compared to older ages. Findings We found that with increased levels of testing of people (between 25% and 72% of symptomatic people tested at some point during an active COVID-19 infection depending on scenarios) and effective contact-tracing and isolation for infected individuals, an epidemic rebound may be prevented across all reopening scenarios, with the effective reproduction number (R) remaining below one and the cumulative number of new infections and deaths significantly lower than they would be if testing did not increase. If UK schools reopen in phases from June 2020, prevention of a second wave would require testing 51% of symptomatic infections, tracing of 40% of their contacts, and isolation of symptomatic and diagnosed cases. However, without such measures, reopening of schools together with gradual relaxing of the lockdown measures are likely to induce a secondary pandemic wave, as are other scenarios for reopening. When infectiousness of <20 year olds was varied from 100% to 50% of that of older ages, our findings remained unchanged. Interpretation To prevent a secondary COVID-19 wave, relaxation of social distancing including reopening schools in the UK must be implemented alongside an active large-scale population-wide testing of symptomatic individuals and effective tracing of their contacts, followed by isolation of symptomatic and diagnosed individuals. Such combined measures have a greater likelihood of controlling the transmission of SARS-CoV-2 and preventing a large number of COVID-19 deaths than reopening schools and society with the current level of implementation of testing and isolation of infected individuals.


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