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Diouf FS, Tidjani Alou M, Bassene H, Cortaredona S, Diatta G, Raoult D, Sokhna C, Lagier JC. Seasonal variation of asymptomatic viral and bacterial nasopharyngeal carriage in rural Senegal. J Infect Public Health 2024; 17:922-928. [PMID: 38579539 DOI: 10.1016/j.jiph.2024.03.020] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/22/2023] [Revised: 02/26/2024] [Accepted: 03/17/2024] [Indexed: 04/07/2024] Open
Abstract
BACKGROUND The surveillance of respiratory pathogens in rural areas of West Africa has, to date, largely been focussed on symptoms. In this prospective study conducted prior to the COVID-19 pandemic, we aimed to assess the asymptomatic prevalence of respiratory pathogen carriage in a group of individuals living in a rural area of Senegalese. METHODS Longitudinal follow up was performed through monthly nasopharyngeal swabbing during the dry season and weekly swabbing during the rainy season. We enrolled 15 individuals from the village of Ndiop. A total of 368 nasopharyngeal swabs were collected over a one-year period. We investigated the prevalence of 18 respiratory viruses and eight respiratory bacteria in different age groups using singleplex and multiplex PCR. RESULTS In total, 19.56% of the samples (72/368) were positive for respiratory viruses and 13.60% of the samples (50/368) were positive for respiratory bacteria. Coronaviruses (19/72, 26.39%), adenoviruses (17/72, 23.61%), rhinoviruses (14/72, 19.44%), Streptococcus pneumoniae (17/50, 34%), and Moraxella catarrhalis (15/50, 30%) were the most frequently detected viruses. Interestingly, the carriage of respiratory pathogens was shown to be more frequent during the rainy season, as pluviometry was shown to be positively associated with the occurrence of respiratory viruses such as influenza (P = .0078, r2 =.523) and RSV (P = .0055, r2 =.554). CONCLUSIONS Our results show a non-negligible circulation of respiratory pathogens in a rural area in Senegal (West Africa) with an underestimated proportion of asymptomatic individuals. This study highlights the fact that the circulation of viruses and bacteria in the community has been overlooked.
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Affiliation(s)
- Fatou Samba Diouf
- VITROME IRD, Campus International de Recherche IRD-UCAD Hann, Dakar, Senegal; IHU Méditerranée Infection, Marseille, France; Aix-Marseille Université, APHM, MEPHI, IHU Méditerranée Infection, Marseille, France
| | - Maryam Tidjani Alou
- IHU Méditerranée Infection, Marseille, France; Aix-Marseille Université, APHM, MEPHI, IHU Méditerranée Infection, Marseille, France
| | - Hubert Bassene
- VITROME IRD, Campus International de Recherche IRD-UCAD Hann, Dakar, Senegal
| | - Sebastien Cortaredona
- VITROME IRD, Campus International de Recherche IRD-UCAD Hann, Dakar, Senegal; IHU Méditerranée Infection, Marseille, France; Aix-Marseille Université, APHM, MEPHI, IHU Méditerranée Infection, Marseille, France
| | - Georges Diatta
- VITROME IRD, Campus International de Recherche IRD-UCAD Hann, Dakar, Senegal
| | - Didier Raoult
- VITROME IRD, Campus International de Recherche IRD-UCAD Hann, Dakar, Senegal; IHU Méditerranée Infection, Marseille, France; Aix-Marseille Université, APHM, MEPHI, IHU Méditerranée Infection, Marseille, France
| | - Cheikh Sokhna
- VITROME IRD, Campus International de Recherche IRD-UCAD Hann, Dakar, Senegal; IHU Méditerranée Infection, Marseille, France; Aix-Marseille Université, APHM, MEPHI, IHU Méditerranée Infection, Marseille, France
| | - Jean-Christophe Lagier
- IHU Méditerranée Infection, Marseille, France; Aix-Marseille Université, APHM, MEPHI, IHU Méditerranée Infection, Marseille, France.
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Guimarães RA, de Morais Neto OL, dos Santos TMB, Mandacarú PMP, Machado EL, Caiaffa WT, Filho PRP, de Aquino ÉC, Reisen VA. Impact of the program life in traffic and new zero-tolerance drinking and driving law on the prevalence of driving after alcohol abuse in Brazilian capitals: An interrupted time series analysis. PLoS One 2023; 18:e0288288. [PMID: 37862323 PMCID: PMC10588900 DOI: 10.1371/journal.pone.0288288] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/21/2022] [Accepted: 06/25/2023] [Indexed: 10/22/2023] Open
Abstract
INTRODUCTION Driving under the influence of alcohol is one of the main factors for morbidity and mortality from traffic accidents. In 2010 and 2013, the Program Life in Traffic was implemented in Brazil, including the international initiative "Road Safety in Ten Countries", which established actions to reduce one of the main risk factors for road traffic injuries, the driving under the influence of alcohol. In 2012, a new zero-tolerance drinking and driving law (new dry law) was implemented, establishing a zero-tolerance limit for the drivers' blood alcohol concentration, and increasing punitive measures. This study aimed at analyzing the impact of these measures on the prevalence of driving under the influence of alcohol abuse in Brazilian capitals. METHODS An interrupted time series study was conducted using the models of autoregressive integrated moving average or seasonal autoregressive integrated moving average. The main outcome was the prevalence of driving after alcohol abuse in the adult population (≥ 18 years). The model's predictors were the interventions "Program Life in Traffic" and "New Dry Law". The former was implemented in the first quarter of 2011, initially in five capitals: Belo Horizonte, Campo Grande, Palmas, Teresina, and Curitiba, being expanded to the other capitals in the first quarter of 2013. The latter was implemented in the country on the first quarter of 2013. Data source for the study was the records of the surveillance system for risk and protection factors of chronic diseases through telephone survey (Vigitel) from 2007 to 2016. RESULTS The time intervals considered in the study were the quarters. Thirty-eight units were considered in the analysis, corresponding to time series points. It was found that after the implementation of the Program Life in Traffic, in the first quarter of 2011, there was a reduction in the prevalence in Belo Horizonte and Curitiba. Because the introduction of the New Dry Law and the Program Life in Traffic took place in similar periods in the other cities, there was a significant reduction in the outcome prevalence in the cities of Aracaju, Belo Horizonte, Boa Vista, Fortaleza, João Pessoa, Maceió, Manaus, Palmas, Porto Alegre, Recife, Teresina, Rio Branco, and Vitória following the law application. CONCLUSION The present study identified an immediate impact of the Program Life in Traffic in two capitals (Belo Horizonte and Curitiba) and a joint impact of the New Dry Law in 13 capitals. The results of this study have implications for strengthening interventions aimed at reducing the burden of morbidity and mortality from traffic accidents in Brazil.
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Affiliation(s)
- Rafael Alves Guimarães
- Instituto de Patologia Tropical e Saúde Pública, Universidade Federal de Goiás, Goiânia, Goiás, Brasil
- Faculdade de Enfermagem, Universidade Federal de Goiás, Goiânia, Goiás, Brasil
| | | | | | | | - Elaine Leandro Machado
- Faculdade de Medicina, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brasil
| | - Waleska Teixeira Caiaffa
- Faculdade de Medicina, Universidade Federal de Minas Gerais, Belo Horizonte, Minas Gerais, Brasil
| | | | - Érika Carvalho de Aquino
- Instituto de Patologia Tropical e Saúde Pública, Universidade Federal de Goiás, Goiânia, Goiás, Brasil
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Spatial, temporal and evolutionary insight into seasonal epidemic Influenza A virus strains near the equatorial line: The case of Ecuador. Virus Res 2023; 326:199051. [PMID: 36706806 DOI: 10.1016/j.virusres.2023.199051] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/08/2022] [Revised: 01/20/2023] [Accepted: 01/21/2023] [Indexed: 01/25/2023]
Abstract
To study the spatial and temporal patterns of Influenza A virus (IAV) is essential for an efficient control of the disease caused by IAV and efficient vaccination programs. However, spatiotemporal patterns of spread as well as genetic lineage circulation of IAV on a countrywide scale have not been clearly determined for many tropical regions of the world. In order to gain insight into these matters, the spatial and temporal patterns of IAV in six different geographic regions of Ecuador, from 2011 to 2021, were determined and the timing and magnitude of IAV outbreaks in these localities investigated. The results of these studies revealed that although Ecuador is a South American country situated in the Equator line, its IAV epidemiology resembles that of temperate Northern Hemisphere countries. Phylogenetic analysis of H1N1pdm09 and H3N2 IAV strains isolated in five different localities of Ecuador revealed that provinces in the south of this country have the largest effective population size by comparison with provinces in the north, suggesting that the southern provinces may be acting as a source of IAV. Co-circulation of different H1N1pdm09 and H3N2 genetic lineages was observed in different geographic regions of Ecuador.
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Du M, Zhu H, Yin X, Ke T, Gu Y, Li S, Li Y, Zheng G. Exploration of influenza incidence prediction model based on meteorological factors in Lanzhou, China, 2014-2017. PLoS One 2022; 17:e0277045. [PMID: 36520836 PMCID: PMC9754291 DOI: 10.1371/journal.pone.0277045] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2021] [Accepted: 10/19/2022] [Indexed: 12/23/2022] Open
Abstract
Humans are susceptible to influenza. The influenza virus spreads quickly and behave seasonally. The seasonality and spread of influenza are often associated with meteorological factors and have spatio-temporal differences. Based on the influenza cases and daily average meteorological factors in Lanzhou from 2014 to 2017, this study firstly aimed to analyze the characteristics of influenza incidence in Lanzhou and the impact of meteorological factors on influenza activities. Then, SARIMA(X) models for the prediction were established. The influenza cases in Lanzhou from 2014 to 2017 was more male than female, and the younger the age, the higher the susceptibility; the epidemic characteristics showed that there is a peak in winter, a secondary peak in spring, and a trough in summer and autumn. The influenza cases in Lanzhou increased with increasing daily pressure, decreasing precipitation, average relative humidity, hours of sunshine, average daily temperature and average daily wind speed. Low temperature was a significant driving factor for the increase of transmission intensity of seasonal influenza. The SARIMAX (1,0,0)(1,0,1)[12] multivariable model with average temperature has better prediction performance than the university model. This model is helpful to establish an early warning system, and provide important evidence for the development of influenza control policies and public health interventions.
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Affiliation(s)
- Meixia Du
- School of Public Health, Gansu University of Chinese Medicine, Gansu Lanzhou, China
- Gansu Provincial Cancer Hospital, Gansu Lanzhou, China
| | - Hai Zhu
- School of Public Health, Gansu University of Chinese Medicine, Gansu Lanzhou, China
| | - Xiaochun Yin
- School of Public Health, Gansu University of Chinese Medicine, Gansu Lanzhou, China
- The Collaborative Innovation Center for Prevention and Control by Chinese Medicine on Disease Related Northwestern Environment and Nutrition, Gansu Lanzhou, China
- * E-mail: (XY); (SL)
| | - Ting Ke
- School of Public Health, Gansu University of Chinese Medicine, Gansu Lanzhou, China
| | - Yonge Gu
- School of Public Health, Gansu University of Chinese Medicine, Gansu Lanzhou, China
- The Collaborative Innovation Center for Prevention and Control by Chinese Medicine on Disease Related Northwestern Environment and Nutrition, Gansu Lanzhou, China
| | - Sheng Li
- First People’s Hospital of Lanzhou City, Gansu Lanzhou, China
- * E-mail: (XY); (SL)
| | - Yongjun Li
- Gansu Provincial Center for Disease Control and Prevention, Gansu Lanzhou, China
| | - Guisen Zheng
- School of Public Health, Gansu University of Chinese Medicine, Gansu Lanzhou, China
- The Collaborative Innovation Center for Prevention and Control by Chinese Medicine on Disease Related Northwestern Environment and Nutrition, Gansu Lanzhou, China
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Belizaire MRD, N’gattia AK, Wassonguema B, Simaleko MM, Nakoune E, Rafaï C, Lô B, Bolumar F. Circulation and seasonality of influenza viruses in different transmission zones in Africa. BMC Infect Dis 2022; 22:820. [DOI: 10.1186/s12879-022-07727-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2022] [Accepted: 06/15/2022] [Indexed: 11/09/2022] Open
Abstract
Abstract
Background
Influenza is responsible for more than 5 million severe cases and 290,000 to 650,000 deaths every year worldwide. Developing countries account for 99% of influenza deaths in children under 5 years of age. This paper aimed to determine the dynamics of influenza viruses in African transmission areas to identify regional seasonality for appropriate decision-making and the development of regional preparedness and response strategies.
Methods
We used data from the WHO FluMart website collected by National Influenza Centers for seven transmission periods (2013–2019). We calculated weekly proportions of positive influenza cases and determined transmission trends in African countries to determine the seasonality.
Results
From 2013 to 2019, influenza A(H1N1)pdm2009, A(H3N2), and A(H5N1) viruses, as well as influenza B Victoria and Yamagata lineages, circulated in African regions. Influenza A(H1N1)pdm2009 and A(H3N2) highly circulated in northern and southern Africa regions. Influenza activity followed annual and regional variations. In the tropical zone, from eastern to western via the middle regions, influenza activities were marked by the predominance of influenza A subtypes despite the circulation of B lineages. One season was identified for both the southern and northern regions of Africa. In the eastern zone, four influenza seasons were differentiated, and three were differentiated in the western zone.
Conclusion
Circulation dynamics determined five intense influenza activity zones in Africa. In the tropics, influenza virus circulation waves move from the east to the west, while alternative seasons have been identified in northern and southern temperate zones. Health authorities from countries with the same transmission zone, even in the absence of local data based on an established surveillance system, should implement concerted preparedness and control activities, such as vaccination.
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Predicting the Number of Reported Pulmonary Tuberculosis in Guiyang, China, Based on Time Series Analysis Techniques. COMPUTATIONAL AND MATHEMATICAL METHODS IN MEDICINE 2022; 2022:7828131. [PMID: 36349145 PMCID: PMC9637476 DOI: 10.1155/2022/7828131] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/18/2022] [Revised: 10/01/2022] [Accepted: 10/07/2022] [Indexed: 11/18/2022]
Abstract
Tuberculosis (TB) is one of the world's deadliest infectious disease killers today, and despite China's increasing efforts to prevent and control TB, the TB epidemic is still very serious. In the context of the COVID-19 pandemic, if reliable forecasts of TB epidemic trends can be made, they can help policymakers with early warning and contribute to the prevention and control of TB. In this study, we collected monthly reports of pulmonary tuberculosis (PTB) in Guiyang, China, from January 1, 2010 to December 31, 2020, and monthly meteorological data for the same period, and used LASSO regression to screen four meteorological factors that had an influence on the monthly reports of PTB in Guiyang, including sunshine hours, relative humidity, average atmospheric pressure, and annual highest temperature, of which relative humidity (6-month lag) and average atmospheric pressure (7-month lag) have a lagging effect with the number of TB reports in Guiyang. Based on these data, we constructed ARIMA, Holt-Winters (additive and multiplicative), ARIMAX (with meteorological factors), LSTM, and multivariable LSTM (with meteorological factors). We found that the addition of meteorological factors significantly improved the performance of the time series prediction model, which, after comprehensive consideration, included the ARIMAX (1,1,1) (0,1,2)12 model with a lag of 7 months at the average atmospheric pressure, outperforms the other models in terms of both fit (RMSE = 37.570, MAPE = 10.164%, MAE = 28.511) and forecast sensitivity (RMSE = 20.724, MAPE = 6.901%, MAE = 17.306), so the ARIMAX (1,1,1) (0,1,2)12 model with a lag of 7 months can be used as a predictor tool for predicting the number of monthly reports of PTB in Guiyang, China.
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Modeling and Predicting Pulmonary Tuberculosis Incidence and Its Association with Air Pollution and Meteorological Factors Using an ARIMAX Model: An Ecological Study in Ningbo of China. INTERNATIONAL JOURNAL OF ENVIRONMENTAL RESEARCH AND PUBLIC HEALTH 2022; 19:ijerph19095385. [PMID: 35564780 PMCID: PMC9105987 DOI: 10.3390/ijerph19095385] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/20/2022] [Revised: 04/23/2022] [Accepted: 04/25/2022] [Indexed: 11/24/2022]
Abstract
The autoregressive integrated moving average with exogenous regressors (ARIMAX) modeling studies of pulmonary tuberculosis (PTB) are still rare. This study aims to explore whether incorporating air pollution and meteorological factors can improve the performance of a time series model in predicting PTB. We collected the monthly incidence of PTB, records of six air pollutants and six meteorological factors in Ningbo of China from January 2015 to December 2019. Then, we constructed the ARIMA, univariate ARIMAX, and multivariate ARIMAX models. The ARIMAX model incorporated ambient factors, while the ARIMA model did not. After prewhitening, the cross-correlation analysis showed that PTB incidence was related to air pollution and meteorological factors with a lag effect. Air pollution and meteorological factors also had a correlation. We found that the multivariate ARIMAX model incorporating both the ozone with 0-month lag and the atmospheric pressure with 11-month lag had the best performance for predicting the incidence of PTB in 2019, with the lowest fitted mean absolute percentage error (MAPE) of 2.9097% and test MAPE of 9.2643%. However, ARIMAX has limited improvement in prediction accuracy compared with the ARIMA model. Our study also suggests the role of protecting the environment and reducing pollutants in controlling PTB and other infectious diseases.
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Wang ZX, Ntambara J, Lu Y, Dai W, Meng RJ, Qian DM. Construction of Influenza Early Warning Model Based on Combinatorial Judgment Classifier: A Case Study of Seasonal Influenza in Hong Kong. Curr Med Sci 2022; 42:226-236. [PMID: 34985610 PMCID: PMC8727490 DOI: 10.1007/s11596-021-2493-0] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2021] [Accepted: 10/26/2021] [Indexed: 11/27/2022]
Abstract
OBJECTIVE The annual influenza epidemic is a heavy burden on the health care system, and has increasingly become a major public health problem in some areas, such as Hong Kong (China). Therefore, based on a variety of machine learning methods, and considering the seasonal influenza in Hong Kong, the study aims to establish a Combinatorial Judgment Classifier (CJC) model to classify the epidemic trend and improve the accuracy of influenza epidemic early warning. METHODS The characteristic variables were selected using the single-factor statistical method to establish the influencing factor system of an influenza outbreak. On this basis, the CJC model was proposed to provide an early warning for an influenza outbreak. The characteristic variables in the final model included atmospheric pressure, absolute maximum temperature, mean temperature, absolute minimum temperature, mean dew point temperature, the number of positive detections of seasonal influenza viruses, the positive percentage among all respiratory specimens, and the admission rates in public hospitals with a principal diagnosis of influenza. RESULTS The accuracy of the CJC model for the influenza outbreak trend reached 96.47%, the sensitivity and specificity change rates of this model were lower than those of other models. Hence, the CJC model has a more stable prediction performance. In the present study, the epidemic situation and meteorological data of Hong Kong in recent years were used as the research objects for the construction of the model index system, and a lag correlation was found between the influencing factors and influenza outbreak. However, some potential risk factors, such as geographical nature and human factors, were not incorporated, which ideally affected the prediction performance to some extent. CONCLUSION In general, the CJC model exhibits a statistically better performance, when compared to some classical early warning algorithms, such as Support Vector Machine, Discriminant Analysis, and Ensemble Classfiers, which improves the performance of the early warning of seasonal influenza.
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Affiliation(s)
- Zi-xiao Wang
- Department of Medical Informatics, School of Medicine, Nantong University, Nantong, 226001 China
- Department of Computer Science, College of Engineering and Computing Sciences, New York Institute of Technology, New York, 10023 USA
- Department of Computer Science, College of Overseas Education, Nanjing University of Posts and Telecommunications, Nanjing, 210023 China
| | - James Ntambara
- Department of Epidemiology, School of Public Health, Nantong University, Nantong, 226019 China
| | - Yan Lu
- Department of Medical Informatics, School of Medicine, Nantong University, Nantong, 226001 China
| | - Wei Dai
- Department of Medical Informatics, School of Medicine, Nantong University, Nantong, 226001 China
| | - Rui-jun Meng
- Department of Medical Informatics, School of Medicine, Nantong University, Nantong, 226001 China
| | - Dan-min Qian
- Department of Medical Informatics, School of Medicine, Nantong University, Nantong, 226001 China
- Artificial Intelligence Laboratory Center, De Montfort University of Leicester, Leicester, LE1 9BH UK
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Lagare A, Rajatonirina S, Testa J, Mamadou S. The epidemiology of seasonal influenza after the 2009 influenza pandemic in Africa: a systematic review. Afr Health Sci 2020; 20:1514-1536. [PMID: 34394213 PMCID: PMC8351825 DOI: 10.4314/ahs.v20i4.5] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/28/2022] Open
Abstract
Background Influenza infection is a serious public health problem that causes an estimated 3 to 5 million cases and 250,000 deaths worldwide every year. The epidemiology of influenza is well-documented in high- and middle-income countries, however minimal effort had been made to understand the epidemiology, burden and seasonality of influenza in Africa. This study aims to assess the state of knowledge of seasonal influenza epidemiology in Africa and identify potential data gaps for policy formulation following the 2009 pandemic. Method We reviewed articles from Africa published into four databases namely: MEDLINE (PubMed), Google Scholar, Cochrane Library and Scientific Research Publishing from 2010 to 2019. Results We screened titles and abstracts of 2070 studies of which 311 were selected for full content evaluation and 199 studies were considered. Selected articles varied substantially on the basis of the topics they addressed covering the field of influenza surveillance (n=80); influenza risk factors and co-morbidities (n=15); influenza burden (n=37); influenza vaccination (n=40); influenza and other respiratory pathogens (n=22) and influenza diagnosis (n=5). Conclusion Significant progress has been made since the last pandemic in understanding the influenza epidemiology in Africa. However, efforts still remain for most countries to have sufficient data to allow countries to prioritize strategies for influenza prevention and control.
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Affiliation(s)
- Adamou Lagare
- Centre de Recherche Médicale et Sanitaire (CERMES), Niamey, Niger
| | | | - Jean Testa
- Centre de Recherche Médicale et Sanitaire (CERMES), Niamey, Niger
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Li ZQ, Pan HQ, Liu Q, Song H, Wang JM. Comparing the performance of time series models with or without meteorological factors in predicting incident pulmonary tuberculosis in eastern China. Infect Dis Poverty 2020; 9:151. [PMID: 33148337 PMCID: PMC7641658 DOI: 10.1186/s40249-020-00771-7] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2020] [Accepted: 10/21/2020] [Indexed: 12/13/2022] Open
Abstract
Background Many studies have compared the performance of time series models in predicting pulmonary tuberculosis (PTB), but few have considered the role of meteorological factors in their prediction models. This study aims to explore whether incorporating meteorological factors can improve the performance of time series models in predicting PTB. Methods We collected the monthly reported number of PTB cases and records of six meteorological factors in three cities of China from 2005 to 2018. Based on this data, we constructed three time series models, including an autoregressive integrated moving average (ARIMA) model, the ARIMA with exogenous variables (ARIMAX) model, and a recurrent neural network (RNN) model. The ARIMAX and RNN models incorporated meteorological factors, while the ARIMA model did not. The mean absolute percentage error (MAPE) and root mean square error (RMSE) were used to evaluate the performance of the models in predicting PTB cases in 2018. Results Both the cross-correlation analysis and Spearman rank correlation test showed that PTB cases reported in the study areas were related to meteorological factors. The predictive performance of both the ARIMA and RNN models was improved after incorporating meteorological factors. The MAPEs of the ARIMA, ARIMAX, and RNN models were 12.54%, 11.96%, and 12.36% in Xuzhou, 15.57%, 11.16%, and 14.09% in Nantong, and 9.70%, 9.66%, and 12.50% in Wuxi, respectively. The RMSEs of the three models were 36.194, 33.956, and 34.785 in Xuzhou, 34.073, 25.884, and 31.828 in Nantong, and 19.545, 19.026, and 26.019 in Wuxi, respectively. Conclusions Our study revealed a possible link between PTB and meteorological factors. Taking meteorological factors into consideration increased the accuracy of time series models in predicting PTB, and the ARIMAX model was superior to the ARIMA and RNN models in study settings.
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Affiliation(s)
- Zhong-Qi Li
- Department of Epidemiology, Center for Global Health, School of Public Health, Nanjing Medical University, 101 Longmian Ave., Nanjing, 211166, China
| | - Hong-Qiu Pan
- Department of Tuberculosis, The Third Hospital of Zhenjiang City, Zhenjiang, 212005, China
| | - Qiao Liu
- Department of Epidemiology, Center for Global Health, School of Public Health, Nanjing Medical University, 101 Longmian Ave., Nanjing, 211166, China
| | - Huan Song
- Department of Epidemiology, Center for Global Health, School of Public Health, Nanjing Medical University, 101 Longmian Ave., Nanjing, 211166, China
| | - Jian-Ming Wang
- Department of Epidemiology, Center for Global Health, School of Public Health, Nanjing Medical University, 101 Longmian Ave., Nanjing, 211166, China.
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Suntronwong N, Vichaiwattana P, Klinfueng S, Korkong S, Thongmee T, Vongpunsawad S, Poovorawan Y. Climate factors influence seasonal influenza activity in Bangkok, Thailand. PLoS One 2020; 15:e0239729. [PMID: 32991630 PMCID: PMC7523966 DOI: 10.1371/journal.pone.0239729] [Citation(s) in RCA: 20] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/26/2019] [Accepted: 09/12/2020] [Indexed: 12/05/2022] Open
Abstract
Yearly increase in influenza activity is associated with cold and dry winter in the temperate regions, while influenza patterns in tropical countries vary significantly by regional climates and geographic locations. To examine the association between influenza activity in Thailand and local climate factors including temperature, relative humidity, and rainfall, we analyzed the influenza surveillance data from January 2010 to December 2018 obtained from a large private hospital in Bangkok. We found that approximately one in five influenza-like illness samples (21.6% or 6,678/30,852) tested positive for influenza virus. Influenza virus typing showed that 34.2% were influenza A(H1N1)pdm09, 46.0% were influenza A(H3N2), and 19.8% were influenza B virus. There were two seasonal waves of increased influenza activity. Peak influenza A(H1N1)pdm09 activity occurred in February and again in August, while influenza A(H3N2) and influenza B viruses were primarily detected in August and September. Time series analysis suggests that increased relative humidity was significantly associated with increased influenza activity in Bangkok. Months with peak influenza activity generally followed the most humid months of the year. We performed the seasonal autoregressive integrated moving average (SARIMA) multivariate analysis of all influenza activity on the 2011 to 2017 data to predict the influenza activity for 2018. The resulting model closely resembled the actual observed overall influenza detected that year. Consequently, the ability to predict seasonal pattern of influenza in a large tropical city such as Bangkok may enable better public health planning and underscores the importance of annual influenza vaccination prior to the rainy season.
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Affiliation(s)
- Nungruthai Suntronwong
- Center of Excellence in Clinical Virology, Department of Pediatrics, Faculty of Medicine, Chulalongkorn University, Bangkok, Thailand
| | - Preeyaporn Vichaiwattana
- Center of Excellence in Clinical Virology, Department of Pediatrics, Faculty of Medicine, Chulalongkorn University, Bangkok, Thailand
| | - Sirapa Klinfueng
- Center of Excellence in Clinical Virology, Department of Pediatrics, Faculty of Medicine, Chulalongkorn University, Bangkok, Thailand
| | - Sumeth Korkong
- Center of Excellence in Clinical Virology, Department of Pediatrics, Faculty of Medicine, Chulalongkorn University, Bangkok, Thailand
| | - Thanunrat Thongmee
- Center of Excellence in Clinical Virology, Department of Pediatrics, Faculty of Medicine, Chulalongkorn University, Bangkok, Thailand
| | - Sompong Vongpunsawad
- Center of Excellence in Clinical Virology, Department of Pediatrics, Faculty of Medicine, Chulalongkorn University, Bangkok, Thailand
| | - Yong Poovorawan
- Center of Excellence in Clinical Virology, Department of Pediatrics, Faculty of Medicine, Chulalongkorn University, Bangkok, Thailand
- * E-mail:
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12
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Dave K, Lee PC. Global Geographical and Temporal Patterns of Seasonal Influenza and Associated Climatic Factors. Epidemiol Rev 2020; 41:51-68. [PMID: 31565734 DOI: 10.1093/epirev/mxz008] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/02/2018] [Revised: 05/11/2019] [Accepted: 09/04/2019] [Indexed: 11/13/2022] Open
Abstract
Understanding geographical and temporal patterns of seasonal influenza can help strengthen influenza surveillance to early detect epidemics and inform influenza prevention and control programs. We examined variations in spatiotemporal patterns of seasonal influenza in different global regions and explored climatic factors that influence differences in influenza seasonality, through a systematic review of peer-reviewed publications. The literature search was conducted to identify original studies published between January 2005 and November 2016. Studies were selected using predetermined inclusion and exclusion criteria. The primary outcome was influenza cases; additional outcomes included seasonal or temporal patterns of influenza seasonality, study regions (temperate or tropical), and associated climatic factors. Of the 2,160 records identified in the selection process, 36 eligible studies were included. There were significant differences in influenza seasonality in terms of the time of onset, duration, number of peaks, and amplitude of epidemics between temperate and tropical/subtropical regions. Different viral types, cocirculation of influenza viruses, and climatic factors, especially temperature and absolute humidity, contributed to the variations in spatiotemporal patterns of seasonal influenza. The findings reported in this review could inform global surveillance of seasonal influenza and influenza prevention and control measures such as vaccination recommendations for different regions.
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Affiliation(s)
- Kunjal Dave
- Bioscience Department, Endeavour College of Natural Health, Brisbane, Queensland, Australia
| | - Patricia C Lee
- School of Medicine, Griffith University, Gold Coast, Queensland, Australia.,Menzies Health Institute, Queensland, Australia.,Department of Medical Research, China Medical University Hospital, China Medical University, Taichung City, Taiwan
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13
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Liu W, Dai Q, Bao J, Shen W, Wu Y, Shi Y, Xu K, Hu J, Bao C, Huo X. Influenza activity prediction using meteorological factors in a warm temperate to subtropical transitional zone, Eastern China. Epidemiol Infect 2019; 147:e325. [PMID: 31858924 PMCID: PMC7006024 DOI: 10.1017/s0950268819002140] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/06/2019] [Revised: 10/21/2019] [Accepted: 11/27/2019] [Indexed: 11/12/2022] Open
Abstract
Influenza activity is subject to environmental factors. Accurate forecasting of influenza epidemics would permit timely and effective implementation of public health interventions, but it remains challenging. In this study, we aimed to develop random forest (RF) regression models including meterological factors to predict seasonal influenza activity in Jiangsu provine, China. Coefficient of determination (R2) and mean absolute percentage error (MAPE) were employed to evaluate the models' performance. Three RF models with optimum parameters were constructed to predict influenza like illness (ILI) activity, influenza A and B (Flu-A and Flu-B) positive rates in Jiangsu. The models for Flu-B and ILI presented excellent performance with MAPEs <10%. The predicted values of the Flu-A model also matched the real trend very well, although its MAPE reached to 19.49% in the test set. The lagged dependent variables were vital predictors in each model. Seasonality was more pronounced in the models for ILI and Flu-A. The modification effects of the meteorological factors and their lagged terms on the prediction accuracy differed across the three models, while temperature always played an important role. Notably, atmospheric pressure made a major contribution to ILI and Flu-B forecasting. In brief, RF models performed well in influenza activity prediction. Impacts of meteorological factors on the predictive models for influenza activity are type-specific.
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Affiliation(s)
- Wendong Liu
- Jiangsu Provincial Center for Disease Control and Prevention, Nanjing, China
| | - Qigang Dai
- Jiangsu Provincial Center for Disease Control and Prevention, Nanjing, China
| | - Jing Bao
- Jiangsu Meteorological Service Center, Nanjing, China
| | - Wenqi Shen
- Jiangsu Provincial Center for Disease Control and Prevention, Nanjing, China
| | - Ying Wu
- Jiangsu Provincial Center for Disease Control and Prevention, Nanjing, China
| | - Yingying Shi
- Jiangsu Provincial Center for Disease Control and Prevention, Nanjing, China
| | - Ke Xu
- Jiangsu Provincial Center for Disease Control and Prevention, Nanjing, China
| | - Jianli Hu
- Jiangsu Provincial Center for Disease Control and Prevention, Nanjing, China
| | - Changjun Bao
- Jiangsu Provincial Center for Disease Control and Prevention, Nanjing, China
| | - Xiang Huo
- Jiangsu Provincial Center for Disease Control and Prevention, Nanjing, China
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14
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Abstract
In the last several decades, avian influenza virus has caused numerous outbreaks around the world. These outbreaks pose a significant threat to the poultry industry and also to public health. When an avian influenza (AI) outbreak occurs, it is critical to make informed decisions about the potential risks, impact, and control measures. To this end, many modeling approaches have been proposed to acquire knowledge from different sources of data and perspectives to enhance decision making. Although some of these approaches have shown to be effective, they do not follow the process of knowledge discovery in databases (KDD). KDD is an iterative process, consisting of five steps, that aims at extracting unknown and useful information from the data. The present review attempts to survey AI modeling methods in the context of KDD process. We first divide the modeling techniques used in AI into two main categories: data-intensive modeling and small-data modeling. We then investigate the existing gaps in the literature and suggest several potential directions and techniques for future studies. Overall, this review provides insights into the control of AI in terms of the risk of introduction and spread of the virus.
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15
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Liu Z, Zhang J, Zhang Y, Lao J, Liu Y, Wang H, Jiang B. Effects and interaction of meteorological factors on influenza: Based on the surveillance data in Shaoyang, China. ENVIRONMENTAL RESEARCH 2019; 172:326-332. [PMID: 30825682 DOI: 10.1016/j.envres.2019.01.053] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/28/2018] [Revised: 10/25/2018] [Accepted: 01/30/2019] [Indexed: 05/04/2023]
Abstract
BACKGROUND Previous studies have demonstrated that meteorological factors influence the incidence of influenza. However, little is known regarding the interactions of meteorological factors on the risk of influenza in China. OBJECTIVE The study aimed to evaluate the associations between meteorological factors and influenza in Shaoyang of southern China, and explore the interaction of temperature with humidity and rainfall. METHODS Weekly meteorological data and disease surveillance data of influenza in Shaoyang were collected from 2009 to 2012. According to the incubation period and infectious period of influenza virus, the maximum lag period was set as 3 weeks. A generalized additive model was conducted to evaluate the effect of meteorological factors on the weekly number of influenza cases and a stratification model was applied to investigate the interaction. RESULTS During the study period, the total number of influenza cases that were notified in the study area was 2506, with peak times occurring from December to March. After controlling for the confounders, each 5 °C decrease in minimum temperature was related to 8% (95%CI: 1-15%) increase in the number of influenza cases at a 1-week lag. There was an interaction between minimum temperature and relative humidity and the risk of influenza was higher in cold and less humid conditions than other conditions. The interaction between minimum temperature and rainfall was not statistically significant in our study. CONCLUSIONS The study suggests that minimum temperature is inversely associated with influenza in the study area of China, and the effect can be modified by relative humidity. Meteorological variables could be integrated in current public health surveillance system to better prepare for the risks of influenza.
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Affiliation(s)
- Zhidong Liu
- Department of Epidemiology, School of Public Health, Shandong University, Jinan, Shandong Province, People's Republic of China
| | - Jing Zhang
- Department of Epidemiology, School of Public Health, Shandong University, Jinan, Shandong Province, People's Republic of China
| | - Ying Zhang
- School of Public Health, China Studies Centre, The University of Sydney, New South Wales, Australia
| | - Jiahui Lao
- Department of Epidemiology, School of Public Health, Shandong University, Jinan, Shandong Province, People's Republic of China
| | - Yanyu Liu
- Department of Epidemiology, School of Public Health, Shandong University, Jinan, Shandong Province, People's Republic of China
| | - Hui Wang
- Department of Medical Administration, Second Hospital of Shandong University, Jinan, Shandong Province, People's Republic of China.
| | - Baofa Jiang
- Department of Epidemiology, School of Public Health, Shandong University, Jinan, Shandong Province, People's Republic of China.
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Li Z, Wang Z, Song H, Liu Q, He B, Shi P, Ji Y, Xu D, Wang J. Application of a hybrid model in predicting the incidence of tuberculosis in a Chinese population. Infect Drug Resist 2019; 12:1011-1020. [PMID: 31118707 PMCID: PMC6501557 DOI: 10.2147/idr.s190418] [Citation(s) in RCA: 27] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/10/2018] [Accepted: 04/04/2019] [Indexed: 12/17/2022] Open
Abstract
Objective: To investigate suitable forecasting models for tuberculosis (TB) in a Chinese population by comparing the predictive value of the autoregressive integrated moving average (ARIMA) model and the ARIMA-generalized regression neural network (GRNN) hybrid model. Methods: We used the monthly incidence rate of TB in Lianyungang city from January 2007 through June 2016 to construct a fitting model, and we used the incidence rate from July 2016 to December 2016 to evaluate the forecasting accuracy. The root mean square error (RMSE), mean absolute percentage error (MAPE), mean absolute error (MAE) and mean error rate (MER) were used to assess the performance of these models in fitting and forecasting the incidence of TB. Results: The ARIMA (10, 1, 0) (0, 1, 1)12 model was selected from plausible ARIMA models, and the optimal spread value of the ARIMA-GRNN hybrid model was 0.23. For the fitting dataset, the RMSE, MAPE, MAE and MER were 0.5594, 11.5000, 0.4202 and 0.1132, respectively, for the ARIMA (10, 1, 0) (0, 1, 1)12 model, and 0.5259, 11.2181, 0.3992 and 0.1075, respectively, for the ARIMA-GRNN hybrid model. For the forecasting dataset, the RMSE, MAPE, MAE and MER were 0.2805, 8.8797, 0.2261 and 0.0851, respectively, for the ARIMA (10, 1, 0) (0, 1, 1)12 model, and 0.2553, 5.7222, 0.1519 and 0.0571, respectively, for the ARIMA-GRNN hybrid model. Conclusions: The ARIMA-GRNN hybrid model was shown to be superior to the single ARIMA model in predicting the short-term TB incidence in the Chinese population, especially in fitting and forecasting the peak and trough incidence.
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Affiliation(s)
- Zhongqi Li
- Department of Epidemiology, Center for Global Health, School of Public Health, Nanjing Medical University, Nanjing, People's Republic of China.,Key Laboratory of Infectious Diseases, School of Public Health, Nanjing Medical University, Nanjing, People's Republic of China
| | - Zhizhong Wang
- Department of Epidemiology and Health Statistic, School of Public Health, NingXia Medical University, Yinchuan, People's Republic of China
| | - Huan Song
- Department of Epidemiology, Center for Global Health, School of Public Health, Nanjing Medical University, Nanjing, People's Republic of China
| | - Qiao Liu
- Department of Epidemiology, Center for Global Health, School of Public Health, Nanjing Medical University, Nanjing, People's Republic of China
| | - Biyu He
- Department of Epidemiology, Center for Global Health, School of Public Health, Nanjing Medical University, Nanjing, People's Republic of China
| | - Peiyi Shi
- Department of Epidemiology, Center for Global Health, School of Public Health, Nanjing Medical University, Nanjing, People's Republic of China
| | - Ye Ji
- Department of Epidemiology, Center for Global Health, School of Public Health, Nanjing Medical University, Nanjing, People's Republic of China
| | - Dian Xu
- Department of Epidemiology, Center for Global Health, School of Public Health, Nanjing Medical University, Nanjing, People's Republic of China
| | - Jianming Wang
- Department of Epidemiology, Center for Global Health, School of Public Health, Nanjing Medical University, Nanjing, People's Republic of China.,Key Laboratory of Infectious Diseases, School of Public Health, Nanjing Medical University, Nanjing, People's Republic of China
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Munshili Njifon HL, Monamele CG, Kengne Nde C, Vernet MA, Bouba G, Tchatchouang S, Njankouo MR, Tapondjou R, Deweerdt L, Mbacham W, Njouom R. Influence of meteorological parameters in the seasonality of influenza viruses circulating in Northern Cameroon. Influenza Other Respir Viruses 2018; 13:158-165. [PMID: 30220100 PMCID: PMC6379661 DOI: 10.1111/irv.12612] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/27/2018] [Revised: 09/06/2018] [Accepted: 09/07/2018] [Indexed: 11/26/2022] Open
Abstract
BACKGROUND Several studies have demonstrated the role of meteorological parameters in the seasonality of influenza viruses in tropical and subtropical regions, most importantly temperature, humidity, and rainfall. OBJECTIVES This study aimed to describe the influence of meteorological parameters in the seasonality of influenza viruses in Northern Cameroon, a region characterized by high temperatures. METHODS This was a retrospective study performed in Garoua Cameroon from January 2014 to December 2016. Monthly proportions of confirmed influenza cases from six sentinel sites were considered as dependent variables, whereas monthly values of mean temperature, average relative humidity, and accumulated rainfall were considered as independent variables. A vector error correction model was used to determine the relationship between influenza activity and the meteorological variables. RESULTS AND CONCLUSION Analysis showed that there was a statistically significant association between overall influenza activity and influenza A activity with respect to average relative humidity. A unit increase in humidity within a given month leads to more than 85% rise in the overall influenza and influenza A activity 2 months later. Meanwhile, none of the three meteorological variables could explain influenza B activity. This observation is essential in filling the gap of knowledge and could help in the prevention and control strategies to strengthen influenza surveillance program in Cameroon.
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Affiliation(s)
| | | | | | | | - Gake Bouba
- Centre Pasteur of Cameroon, Yaounde, Cameroon
| | - Serges Tchatchouang
- Centre Pasteur of Cameroon, Yaounde, Cameroon.,University of Yaoundé 1, Yaounde, Cameroon
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Monamele GC, Vernet MA, Nsaibirni RFJ, Bigna JJR, Kenmoe S, Njankouo MR, Njouom R. Associations between meteorological parameters and influenza activity in a subtropical country: Case of five sentinel sites in Yaoundé-Cameroon. PLoS One 2017; 12:e0186914. [PMID: 29088290 PMCID: PMC5663393 DOI: 10.1371/journal.pone.0186914] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/05/2017] [Accepted: 10/10/2017] [Indexed: 12/04/2022] Open
Abstract
Influenza is associated with highly contagious respiratory infections. Previous research has found that influenza transmission is often associated with climate variables especially in temperate regions. This study was performed in order to fill the gap of knowledge regarding the relationship between incidence of influenza and three meteorological parameters (temperature, rainfall and humidity) in a tropical setting. This was a retrospective study performed in Yaoundé-Cameroon from January 2009 to November 2015. Weekly proportions of confirmed influenza cases from five sentinel sites were considered as dependent variables, whereas weekly values of mean temperature, average relative humidity and accumulated rainfall were considered as independent variables. A univariate linear regression model was used in determining associations between influenza activity and weather covariates. A time-series method was used to predict on future values of influenza activity. The data was divided into 2 parts; the first 71 months were used to calibrate the model, and the last 12 months to test for prediction. Overall, there were 1173 confirmed infections with influenza virus. Linear regression analysis showed that there was no statistically significant association observed between influenza activity and weather variables. Very weak relationships (-0.1 < r < 0.1) were observed. Three prediction models were obtained for the different viral types (overall positive, Influenza A and Influenza B). Model 1 (overall influenza) and model 2 (influenza A) fitted well during the estimation period; however, they did not succeed to make good forecasts for predictions. Accumulated rainfall was the only external covariate that enabled good fit of both models. Based on the stationary R2, 29.5% and 41.1% of the variation in the series can be explained by model 1 and 2, respectively. This study laid more emphasis on the fact that influenza in Cameroon is characterized by year-round activity. The meteorological variables selected in this study did not enable good forecast of future influenza activity and certainly acted as proxies to other factors not considered, such as, UV radiation, absolute humidity, air quality and wind.
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Affiliation(s)
- Gwladys C. Monamele
- National Influenza Centre, Centre Pasteur du Cameroun, Yaoundé, Cameroon
- Department of Microbiology and Parasitology, University of Buea, Buea, Cameroon
| | | | | | - Jean Joel R. Bigna
- National Influenza Centre, Centre Pasteur du Cameroun, Yaoundé, Cameroon
| | - Sebastien Kenmoe
- National Influenza Centre, Centre Pasteur du Cameroun, Yaoundé, Cameroon
| | | | - Richard Njouom
- National Influenza Centre, Centre Pasteur du Cameroun, Yaoundé, Cameroon
- * E-mail:
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