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2. Somatically hypermutated antibodies isolated from SARS-CoV-2 Delta infected patients cross-neutralize heterologous variants

Author

Yu, Haisheng, Liu, Banghui, Zhang, Yudi, Gao, Xijie, Wang, Qian, Xiang, Haitao, Peng, Xiaofang, Xie, Caixia, Wang, Yaping, Hu, Peiyu, Shi, Jingrong, Shi, Quan, Zheng, Pingqian, Feng, Chengqian, Tang, Guofang, Liu, Xiaopan, Guo, Liliangzi, Lin, Xiumei, Li, Jiaojiao, Liu, Chuanyu, Huang, Yaling, Yang, Naibo, Chen, Qiuluan, Li, Zimu, Su, Mengzhen, Yan, Qihong, Pei, Rongjuan, Chen, Xinwen, Liu, Longqi, Hu, Fengyu, Liang, Dan, Ke, Bixia, Ke, Changwen, Li, Feng, He, Jun, Wang, Meiniang, Chen, Ling, Xiong, Xiaoli, and Tang, Xiaoping

Published
2023
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5. Iron Deficiency: Global Trends and Projections from 1990 to 2050.

Author

Wang, Li, Liang, Dan, Huangfu, Hengqian, Shi, Xinfu, Liu, Shuang, Zhong, Panpan, Luo, Zhen, Ke, Changwen, and Lai, Yingsi

Abstract

Background: Iron deficiency (ID) remains the leading cause of anemia, affects a vast number of persons globally, and continues to be a significant global health burden. Comprehending the patterns of ID burden is essential for developing targeted public health policies. Methods: Using data from the Global Burden of Disease (GBD) 2021 study for the years 1990–2021, the XGBoost model was constructed to predict prevalence and disability-adjusted life years (DALYs) for the period 2022–2050, based on key demographic variables. Shapley Additive exPlanations (SHAP) values were applied to interpret the contributions of each variable to the model's predictions. Additionally, the Age–Period–Cohort (APC) model was used to evaluate the effects of age, period, and birth cohort on both prevalence and DALYs. The relationship between the Socio-Demographic Index (SDI) and ID's age-standardized prevalence rate (ASPR) as well as the age-standardized DALYs rate (ASDR) was also analyzed to assess the influence of socioeconomic development on disease burden. Results: The global prevalent cases of ID grew from 984.61 million in 1990 to 1270.64 million in 2021 and are projected to reach 1439.99 million by 2050. Similarly, global DALYs from ID increased from 28.41 million in 1990 to 32.32 million in 2021, with a projected rise to 36.13 million by 2050. The ASPR declined from 18,204/100,000 in 1990 to 16,433/100,000 in 2021, with an estimated annual percentage change (EAPC) of −0.36% over this period. It is expected to decrease further to 15,922 by 2050, with an EAPC of −0.09% between 2021 and 2050. The ASDR was 518/100,000 in 1990 and 424/100,000 in 2021, with an EAPC of −0.68% from 1990 to 2021. It is expected to remain relatively stable at 419/100,000 by 2050, with an EAPC of −0.02% between 2021 and 2050. In 2021, the highest ASPRs were recorded in Senegal (34,421/100,000), Mali (34,233/100,000), and Pakistan (33,942/100,000). By 2050, Mali (35,070/100,000), Senegal (34,132/100,000), and Zambia (33,149/100,000) are projected to lead. For ASDR, Yemen (1405/100,000), Mozambique (1149/100,000), and Mali (1093/100,000) had the highest rates in 2021. By 2050, Yemen (1388/100,000), Mali (1181/100,000), and Mozambique (1177/100,000) are expected to remain the highest. SHAP values demonstrated that gender was the leading predictor of ID, with age and year showing negative contributions. Females aged 10 to 60 consistently showed higher prevalence and DALYs rates compared to males, with the under-5 age group having the highest rates for both. Additionally, men aged 80 and above exhibited a rapid increase in prevalence. Furthermore, the ASPR and ASDR were significantly higher in regions with a lower SDI, highlighting the greater burden of ID in less developed regions. Conclusions: ID remains a significant global health concern, with its burden projected to persist through 2050, particularly in lower-SDI regions. Despite declines in ASPR and ASDR, total cases and DALYs are expected to rise. SHAP analysis revealed that gender had the greatest influence on the model's predictions, while both age and year showed overall negative contributions to ID risk. Children under 5, women under 60, and elderly men aged 80+ were the most vulnerable groups. These findings underscore the need for targeted interventions, such as improved nutrition, early screening, and addressing socioeconomic drivers through iron supplementation programs in low-SDI regions. [ABSTRACT FROM AUTHOR]

Published
2024
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7. Single-dose rAAV5-based vaccine provides long-term protective immunity against SARS-CoV-2 and its variants

Author

Liao, Guochao, Lau, Hungyan, Liu, Zhongqiu, Li, Chinyu, Xu, Zeping, Qi, Xiaoxiao, Zhang, Yu, Feng, Qian, Li, Runze, Deng, Xinyu, Li, Yebo, Zhu, Qing, Zhu, Sisi, Zhou, Hua, Pan, Hudan, Fan, Xingxing, Li, Yongchao, Li, Dan, Chen, Liqing, Ke, Bixia, Cong, Zhe, Lv, Qi, Liu, Jiangning, Liang, Dan, Li, An’an, Hong, Wenshan, Bao, Linlin, Zhou, Feng, Gao, Hongbin, Liang, Shi, Huang, Bihong, Wu, Miaoli, Qin, Chuan, Ke, Changwen, and Liu, Liang

Published
2022
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8. Global Incidence of Diarrheal Diseases—An Update Using an Interpretable Predictive Model Based on XGBoost and SHAP: A Systematic Analysis.

Author

Liang, Dan, Wang, Li, Liu, Shuang, Li, Shanglin, Zhou, Xing, Xiao, Yun, Zhong, Panpan, Chen, Yanxi, Wang, Changyi, Xu, Shan, Su, Juan, Luo, Zhen, Ke, Changwen, and Lai, Yingsi

Abstract

Background: Diarrheal disease remains a significant public health issue, particularly affecting young children and older adults. Despite efforts to control and prevent these diseases, their incidence continues to be a global concern. Understanding the trends in diarrhea incidence and the factors influencing these trends is crucial for developing effective public health strategies. Objective: This study aimed to explore the temporal trends in diarrhea incidence and associated factors from 1990 to 2019 and to project the incidence for the period 2020–2040 at global, regional, and national levels. We aimed to identify key factors influencing these trends to inform future prevention and control strategies. Methods: The eXtreme Gradient Boosting (XGBoost) model was used to predict the incidence from 2020 to 2040 based on demographic, meteorological, water sanitation, and sanitation and hygiene indicators. SHapley Additive exPlanations (SHAP) value was performed to explain the impact of variables in the model on the incidence. Estimated annual percentage change (EAPC) was calculated to assess the temporal trends of age-standardized incidence rates (ASIRs) from 1990 to 2019 and from 2020 to 2040. Results: Globally, both incident cases and ASIRs of diarrhea increased between 2010 and 2019. The incident cases are expected to rise from 2020 to 2040, while the ASIRs and incidence rates are predicted to slightly decrease. During the observed (1990–2019) and predicted (2020–2040) periods, adults aged 60 years and above exhibited an upward trend in incidence rate as age increased, while children aged < 5 years consistently had the highest incident cases. The SHAP framework was applied to explain the model predictions. We identified several risk factors associated with an increased incidence of diarrhea, including age over 60 years, yearly precipitation exceeding 3000 mm, temperature above 20 °C for both maximum and minimum values, and vapor pressure deficit over 1500 Pa. A decreased incidence rate was associated with relative humidity over 60%, wind speed over 4 m/s, and populations with above 80% using safely managed drinking water services and over 40% using safely managed sanitation services. Conclusions: Diarrheal diseases are still serious public health concerns, with predicted increases in the incident cases despite decreasing ASIRs globally. Children aged < 5 years remain highly susceptible to diarrheal diseases, yet the incidence rate in the older adults aged 60 plus years still warrants additional attention. Additionally, more targeted efforts to improve access to safe drinking water and sanitation services are crucial for reducing the incidence of diarrheal diseases globally. [ABSTRACT FROM AUTHOR]

Published
2024
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11. Genomic Epidemiology of SARS-CoV-2 in Guangdong Province, China

Author

Lu, Jing, du Plessis, Louis, Liu, Zhe, Hill, Verity, Kang, Min, Lin, Huifang, Sun, Jiufeng, François, Sarah, Kraemer, Moritz U.G., Faria, Nuno R., McCrone, John T., Peng, Jinju, Xiong, Qianling, Yuan, Runyu, Zeng, Lilian, Zhou, Pingping, Liang, Chumin, Yi, Lina, Liu, Jun, Xiao, Jianpeng, Hu, Jianxiong, Liu, Tao, Ma, Wenjun, Li, Wei, Su, Juan, Zheng, Huanying, Peng, Bo, Fang, Shisong, Su, Wenzhe, Li, Kuibiao, Sun, Ruilin, Bai, Ru, Tang, Xi, Liang, Minfeng, Quick, Josh, Song, Tie, Rambaut, Andrew, Loman, Nick, Raghwani, Jayna, Pybus, Oliver G., and Ke, Changwen

Published
2020
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12. Prolonged Persistence of SARS-CoV-2 RNA in Body Fluids

Author

Sun, Jiufeng, Xiao, Jianpeng, Sun, Ruilin, Tang, Xi, Liang, Chumin, Lin, Huifang, Zeng, Lilian, Hu, Jianxiong, Yuan, Runyu, Zhou, Pingping, Peng, Jinju, Xiong, Qianlin, Cui, Fengfu, Liu, Zhe, Lu, Jing, Tian, Junzhang, Ma, Wenjun, and Ke, Changwen

Subjects
Severe acute respiratory syndrome -- Forecasts and trends -- Health aspects, Coronaviruses -- Forecasts and trends -- Health aspects, Medical research -- Forecasts and trends -- Health aspects, COVID-19 -- Health aspects -- Forecasts and trends, RNA -- Forecasts and trends -- Health aspects, Market trend/market analysis, Health
Abstract

In December 2019, coronavirus disease (COVID-19) caused by a novel coronavirus, severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), emerged in Wuhan, China (1,2). As of April 1, 2020, the virus [...]

Published
2020
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13. A compromised specific humoral immune response against the SARS-CoV-2 receptor-binding domain is related to viral persistence and periodic shedding in the gastrointestinal tract

Author

Hu, Fengyu, Chen, Fengjuan, Ou, Zhihua, Fan, Qinghong, Tan, Xinghua, Wang, Yaping, Pan, Yuejun, Ke, Bixia, Li, Linghua, Guan, Yujuan, Mo, Xiaoneng, Wang, Jian, Wang, Jinlin, Luo, Chun, Wen, Xueliang, Li, Min, Ren, Peidi, Ke, Changwen, Li, Junhua, Lei, Chunliang, Tang, Xiaoping, and Li, Feng

Published
2020
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17. An adenovirus-vectored COVID-19 vaccine confers protection from SARS-COV-2 challenge in rhesus macaques

Author

Feng, Liqiang, Wang, Qian, Shan, Chao, Yang, Chenchen, Feng, Ying, Wu, Jia, Liu, Xiaolin, Zhou, Yiwu, Jiang, Rendi, Hu, Peiyu, Liu, Xinglong, Zhang, Fan, Li, Pingchao, Niu, Xuefeng, Liu, Yichu, Zheng, Xuehua, Luo, Jia, Sun, Jing, Gu, Yingying, Liu, Bo, Xu, Yongcun, Li, Chufang, Pan, Weiqi, Zhao, Jincun, Ke, Changwen, Chen, Xinwen, Xu, Tao, Zhong, Nanshan, Guan, Suhua, Yuan, Zhiming, and Chen, Ling

Published
2020
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18. Comparison of nonhuman primates identified the suitable model for COVID-19

Author

Lu, Shuaiyao, Zhao, Yuan, Yu, Wenhai, Yang, Yun, Gao, Jiahong, Wang, Junbin, Kuang, Dexuan, Yang, Mengli, Yang, Jing, Ma, Chunxia, Xu, Jingwen, Qian, Xingli, Li, Haiyan, Zhao, Siwen, Li, Jingmei, Wang, Haixuan, Long, Haiting, Zhou, Jingxian, Luo, Fangyu, Ding, Kaiyun, Wu, Daoju, Zhang, Yong, Dong, Yinliang, Liu, Yuqin, Zheng, Yinqiu, Lin, Xiaochen, Jiao, Li, Zheng, Huanying, Dai, Qing, Sun, Qiangming, Hu, Yunzhang, Ke, Changwen, Liu, Hongqi, and Peng, Xiaozhong

Published
2020
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19. Molecular Evolution, Diversity, and Adaptation of Influenza A(H7N9) Viruses in China

Author

Lu, Jing, Raghwani, Jayna, Pryce, Rhys, Bowden, Thomas A., Theze, Julien, Huang, Shanqian, Song, Yingchao, Zou, Lirong, Liang, Lijun, Bai, Ru, Jing, Yi, Zhou, Pingping, Kang, Min, Yi, Lina, Wu, Jie, Pybus, Oliver G., and Ke, Changwen

Subjects
Influenza -- Analysis, Amino acids -- Analysis, Phylogeny -- Analysis, Health
Abstract

Since its first detection in March 2013, avian influenza A(H7N9) virus has caused 1,534 human infections that, as of November 30, 2017, had resulted in 608 deaths. Recurrent waves of [...]

Published
2018
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20. Influenza H5/H7 Virus Vaccination in Poultry and Reduction of Zoonotic Infections, Guangdong Province, China, 2017-18

Author

Wu, Jie, Ke, Changwen, Lau, Eric H.Y., Song, Yingchao, Cheng, Kit Ling, Zou, Lirong, Kang, Min, Song, Tie, Peiris, Malik, and Yen, Hui-Ling

Subjects
Influenza vaccines -- Health aspects, Poultry industry -- Health aspects, Infection -- Health aspects, Avian influenza -- Health aspects, Zoonoses -- Health aspects, Vaccination -- Health aspects, Farms, Influenza, Health
Abstract

Human infections with avian influenza A(H7N9) virus have been documented in China since 2013 (1). Among 1,220 confirmed H7N9 case-patients during 2013-2017, a total of 73% reported poultry exposure, and [...]

Published
2019
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24. Monitoring Avian Influenza Viruses from Chicken Carcasses Sold at Markets, China, 2016

Author

Mao, Xiaoxiao, Wu, Jie, Lau, Eric H.Y., Cheng, Kit Ling, Zhong, Zhifeng, Song, Yinchao, Ji, Xunmin, Zhou, Lirong, Ke, Changwen, Peiris, Joseph Sriyal Malik, Wang, Hong, and Yen, Hui-Ling

Subjects
Avian influenza, Supermarkets -- International economic relations, Food contamination, Avian influenza viruses, Business logistics, Health
Abstract

Live poultry markets (LPMs) are hot spots for avian influenza virus (AIV) amplification among poultry and dissemination to humans (1). Direct contact with live poultry is a major route of [...]

Published
2017
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25. Human infection with highly pathogenic avian influenza A(H7N9) virus, China

Author

Ke, Changwen, Mok, Chris Ka Pun, Zhu, Wenfei, Zhou, Haibo, He, Jianfeng, Guan, Wenda, Wu, Jie, Song, Wenjun, Wang, Dayan, Liu, Jiexiong, Lin, Qinhan, Chu, Daniel Ka Wing, Yang, Lei, Zhong, Nanshan, Yang, Zifeng, Shu, Yuelong, and Peiris, Joseph Sriyal Malik

Subjects
Influenza -- Research, Avian influenza viruses -- Risk factors -- Research, Health
Abstract

Avian influenza A(H7N9) viruses with zoonotic potential emerged in East China in early 2013. From February 2013 through February 20, 2017, a total of 1,222 patients with A(H7N9) disease had [...]

Published
2017
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26. Genomic analysis of sewage from 101 countries reveals global landscape of antimicrobial resistance

Author

Munk, Patrick, Brinch, Christian, Møller, Frederik Duus, Petersen, Thomas N., Hendriksen, Rene S., Seyfarth, Anne Mette, Kjeldgaard, Jette S., Svendsen, Christina Aaby, van Bunnik, Bram, Berglund, Fanny, Bego, Artan, Power, Pablo, Rees, Catherine, Lambrinidis, Dionisia, Neilson, Elizabeth Heather Jakobsen, Gibb, Karen, Coventry, Kris, Collignon, Peter, Cassar, Susan, Allerberger, Franz, Begum, Anowara, Hossain, Zenat Zebin, Worrell, Carlon, Vandenberg, Olivier, Pieters, Ilse, Victorien, Dougnon Tamègnon, Gutierrez, Angela Daniela Salazar, Soria, Freddy, Grujić, Vesna Rudić, Mazalica, Nataša, Rahube, Teddie O., Tagliati, Carlos Alberto, Rodrigues, Dalia, Oliveira, Guilherme, de Souza, Larissa Camila Ribeiro, Ivanov, Ivan, Juste, Bonkoungou Isidore, Oumar, Traoré, Sopheak, Thet, Vuthy, Yith, Ngandijo, Antoinette, Nzouankeu, Ariane, Olivier, Ziem A. Abah Jacques, Yost, Christopher K., Kumar, Pratik, Brar, Satinder Kaur, Tabo, Djim-Adjim, Adell, Aiko D., Paredes-Osses, Esteban, Martinez, Maria Cristina, Cuadros-Orellana, Sara, Ke, Changwen, Zheng, Huanying, Baisheng, Li, Lau, Lok Ting, Chung, Teresa, Jiao, Xiaoyang, Yu, Yongjie, JiaYong, Zhao, Morales, Johan F. Bernal, Valencia, Maria Fernanda, Donado-Godoy, Pilar, Coulibaly, Kalpy Julien, Hrenovic, Jasna, Jergović, Matijana, Karpíšková, Renáta, Deogratias, Zozo Nyarukweba, Elsborg, Bodil, Hansen, Lisbeth Truelstrup, Jensen, Pernille Erland, Abouelnaga, Mohamed, Salem, Mohamed Fathy, Koolmeister, Marliin, Legesse, Mengistu, Eguale, Tadesse, Heikinheimo, Annamari, Le Guyader, Soizick, Schaeffer, Julien, Villacis, Jose Eduardo, Sanneh, Bakary, Malania, Lile, Nitsche, Andreas, Brinkmann, Annika, Schubert, Sara, Hesse, Sina, Berendonk, Thomas U., Saba, Courage Kosi Setsoafia, Mohammed, Jibril, Feglo, Patrick Kwame, Banu, Regina Ama, Kotzamanidis, Charalampos, Lytras, Efthymios, Lickes, Sergio A., Kocsis, Bela, Solymosi, Norbert, Thorsteinsdottir, Thorunn R., Hatha, Abdulla Mohamed, Ballal, Mamatha, Bangera, Sohan Rodney, Fani, Fereshteh, Alebouyeh, Masoud, Morris, Dearbhaile, O’Connor, Louise, Cormican, Martin, Moran-Gilad, Jacob, Battisti, Antonio, Diaconu, Elena Lavinia, Corno, Gianluca, Di Cesare, Andrea, Alba, Patricia, Hisatsune, Junzo, Yu, Liansheng, Kuroda, Makoto, Sugai, Motoyuki, Kayama, Shizuo, Shakenova, Zeinegul, Kiiyukia, Ciira, Ng’eno, Eric, Raka, Lul, Jamil, Kazi, Fakhraldeen, Saja Adel, Alaati, Tareq, Bērziņš, Aivars, Avsejenko, Jeļena, Kokina, Kristina, Streikisa, Madara, Bartkevics, Vadims, Matar, Ghassan M., Daoud, Ziad, Pereckienė, Asta, Butrimaite-Ambrozeviciene, Ceslova, Penny, Christian, Bastaraud, Alexandra, Rasolofoarison, Tiavina, Collard, Jean-Marc, Samison, Luc Hervé, Andrianarivelo, Mala Rakoto, Banda, Daniel Lawadi, Amin, Arshana, Rajandas, Heraa, Parimannan, Sivachandran, Spiteri, David, Haber, Malcolm Vella, Santchurn, Sunita J., Vujacic, Aleksandar, Djurovic, Dijana, Bouchrif, Brahim, Karraouan, Bouchra, Vubil, Delfino Carlos, Pal, Pushkar, Schmitt, Heike, van Passel, Mark, Jeunen, Gert-Jan, Gemmell, Neil, Chambers, Stephen T., Mendoza, Fania Perez, Huete-Pιrez, Jorge, Vilchez, Samuel, Ahmed, Akeem Olayiwola, Adisa, Ibrahim Raufu, Odetokun, Ismail Ayoade, Fashae, Kayode, Sørgaard, Anne-Marie, Wester, Astrid Louise, Ryrfors, Pia, Holmstad, Rune, Mohsin, Mashkoor, Hasan, Rumina, Shakoor, Sadia, Gustafson, Natalie Weiler, Schill, Claudia Huber, Rojas, Maria Luz Zamudio, Velasquez, Jorge Echevarria, Magtibay, Bonifacio B., Catangcatang, Kris, Sibulo, Ruby, Yauce, Felipe Campos, Wasyl, Dariusz, Manaia, Celia, Rocha, Jaqueline, Martins, Jose, Álvaro, Pedro, Di Yoong Wen, Doris, Shin, Hanseob, Hur, Hor-Gil, Yoon, Sukhwan, Bosevska, Golubinka, Kochubovski, Mihail, Cojocaru, Radu, Burduniuc, Olga, Hong, Pei-Ying, Perry, Meghan Rose, Gassama, Amy, Radosavljevic, Vladimir, Tay, Moon Y. F., Zuniga-Montanez, Rogelio, Wuertz, Stefan, Gavačová, Dagmar, Pastuchová, Katarína, Truska, Peter, Trkov, Marija, Keddy, Karen, Esterhuyse, Kerneels, Song, Min Joon, Quintela-Baluja, Marcos, Lopez, Mariano Gomez, Cerdà-Cuéllar, Marta, Perera, R.R.D.P., Bandara, N.K.B.K.R.G.W., Premasiri, H.I., Pathirage, Sujatha, Charlemagne, Kareem, Rutgersson, Carolin, Norrgren, Leif, Örn, Stefan, Boss, Renate, Van der Heijden, Tanja, Hong, Yu-Ping, Kumburu, Happiness Houka, Mdegela, Robinson Hammerthon, Hounmanou, Yaovi Mahuton Gildas, Chonsin, Kaknokrat, Suthienkul, Orasa, Thamlikitkul, Visanu, de Roda Husman, Ana Maria, Bidjada, Bawimodom, Njanpop-Lafourcade, Berthe-Marie, Nikiema-Pessinaba, Somtinda Christelle, Levent, Belkis, Kurekci, Cemil, Ejobi, Francis, Kalule, John Bosco, Thomsen, Jens, Obaidi, Ouidiane, Jassim, Laila Mohamed, Moore, Andrew, Leonard, Anne, Graham, David W., Bunce, Joshua T., Zhang, Lihong, Gaze, William H., Lefor, Brett, Capone, Drew, Sozzi, Emanuele, Brown, Joe, Meschke, John Scott, Sobsey, Mark D., Davis, Michael, Beck, Nicola Koren, Sukapanpatharam, Pardi, Truong, Phuong, Lilienthal, Ronald, Kang, Sanghoon, Wittum, Thomas E., Rigamonti, Natalia, Baklayan, Patricia, Van, Chinh Dang, Tran, Doan Minh Nguyen, Do Phuc, Nguyen, Kwenda, Geoffrey, Larsson, D. G. Joakim, Koopmans, Marion, Woolhouse, Mark, Aarestrup, Frank M., Virology, Producció Animal, and Sanitat Animal

Subjects
genomic analysis, sewage, antimicrobial resistance, Multidisciplinary, Sewage, Drug Resistance, Bacterial, Metagenome, General Physics and Astronomy, Drug Resistance, Bacterial/genetics, Genomics, General Chemistry, General Biochemistry, Genetics and Molecular Biology, Anti-Bacterial Agents/pharmacology, Anti-Bacterial Agents
Abstract

Antimicrobial resistance (AMR) is a major threat to global health. Understanding the emergence, evolution, and transmission of individual antibiotic resistance genes (ARGs) is essential to develop sustainable strategies combatting this threat. Here, we use metagenomic sequencing to analyse ARGs in 757 sewage samples from 243 cities in 101 countries, collected from 2016 to 2019. We find regional patterns in resistomes, and these differ between subsets corresponding to drug classes and are partly driven by taxonomic variation. The genetic environments of 49 common ARGs are highly diverse, with most common ARGs carried by multiple distinct genomic contexts globally and sometimes on plasmids. Analysis of flanking sequence revealed ARG-specific patterns of dispersal limitation and global transmission. Our data furthermore suggest certain geographies are more prone to transmission events and should receive additional attention. Antimicrobial resistance (AMR) is a major threat to global health. Understanding the emergence, evolution, and transmission of individual antibiotic resistance genes (ARGs) is essential to develop sustainable strategies combatting this threat. Here, we use metagenomic sequencing to analyse ARGs in 757 sewage samples from 243 cities in 101 countries, collected from 2016 to 2019. We find regional patterns in resistomes, and these differ between subsets corresponding to drug classes and are partly driven by taxonomic variation. The genetic environments of 49 common ARGs are highly diverse, with most common ARGs carried by multiple distinct genomic contexts globally and sometimes on plasmids. Analysis of flanking sequence revealed ARG-specific patterns of dispersal limitation and global transmission. Our data furthermore suggest certain geographies are more prone to transmission events and should receive additional attention.

Published
2022
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27. Progress of the COVID-19: Persistence, Effectiveness, and Immune Escape of the Neutralizing Antibody in Convalescent Serum

Author

Liang, Dan, primary, Zhang, Guanting, additional, Huang, Mingxing, additional, Wang, Li, additional, Hong, Wenshan, additional, Li, An’an, additional, Liang, Yufeng, additional, Wang, Tao, additional, Lu, Jiahui, additional, Ou, Mengdang, additional, Ren, Zhongqiang, additional, Lu, Huiyi, additional, Zheng, Rutian, additional, Cai, Xionghui, additional, Pan, Xingfei, additional, Xia, Jinyu, additional, and Ke, Changwen, additional

Published
2022
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28. Effect of live poultry market interventions on influenza A(H7N9) virus, Guangdong, China

Author

Wu, Jie, Lu, Jing, Faria, Nuno R., Zeng, Xianqiao, Song, Yingchao, Zou, Lirong, Yi, Lina, Liang, Lijun, Ni, Hanzhong, Kang, Min, Zhang, Xin, Huang, Guofeng, Zhong, Haojie, Bowden, Thomas A., Raghwani, Jayna, He, Jianfeng, He, Xiang, Lin, Jinyan, Koopmans, Marion, Pybus, Oliver G., and Ke, Changwen

Subjects
Avian influenza -- Health aspects, Epidemics -- Health aspects, Genomics -- Health aspects, Earthquakes -- Health aspects, Cladistic analysis -- Health aspects, Poultry industry -- International economic relations -- Health aspects, Infection -- Health aspects, Phylogeny -- Health aspects, Health
Abstract

Since its first notification on March 30, 2013 (1), avian influenza A(H7N9) virus caused 3 complete epidemic waves of human infection in China, comprising 670 laboratory-confirmed clinical cases and 274 [...]

Published
2016
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30. Human Fc-Conjugated Receptor Binding Domain-Based Recombinant Subunit Vaccines with Short Linker Induce Potent Neutralizing Antibodies against Multiple SARS-CoV-2 Variants

Author

Chen, Liqing, primary, Qi, Xiaoxiao, additional, Liang, Dan, additional, Li, Guiqi, additional, Peng, Xiaofang, additional, Li, Xiaohui, additional, Ke, Bixia, additional, Zheng, Huanying, additional, Liu, Zhongqiu, additional, Ke, Changwen, additional, Liao, Guochao, additional, Liu, Liang, additional, and Feng, Qian, additional

Published
2022
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32. Characteristics of SARS-CoV-2 Delta variant-infected individuals with intermittently positive retest viral RNA after discharge

Author

Li, Lu, primary, Tang, Jingyan, additional, Xie, Zhiwei, additional, Gan, Qingxin, additional, Tang, Guofang, additional, Hu, Zhongwei, additional, Zeng, Huimin, additional, Shi, Jingrong, additional, Li, Jiaojiao, additional, Li, Yan, additional, Ke, Changwen, additional, Kang, Min, additional, Liang, Dan, additional, Lu, Huan, additional, Tong, Yuwei, additional, Deng, Xilong, additional, Liu, Jinxin, additional, Lu, Hongzhou, additional, Wang, Fuxiang, additional, Hu, Fengyu, additional, Li, Feng, additional, Zhong, Nanshan, additional, and Tang, Xiaoping, additional

Published
2022
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34. Broad and durable antibody response after vaccination with inactivated SARS-CoV-2 in individuals with a history of 2003 SARS-CoV infection

Author

Liang, Huang, primary, Zheng, Peiyan, additional, Wang, Qian, additional, Deng, Yijun, additional, Liang, Dan, additional, Yi, Haisu, additional, Cheng, Yuanyi, additional, Zhao, Xinwei, additional, Ma, Jing, additional, Yang, Yidong, additional, Hu, Peiyu, additional, Zheng, Pingqian, additional, Zhang, Yudi, additional, Huang, Shuangshuang, additional, Lin, Xiancheng, additional, Ke, Changwen, additional, Niu, Xuefeng, additional, Sun, Baoqing, additional, and Chen, Ling, additional

Published
2022
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37. A tandem-repeat dimeric RBD protein-based covid-19 vaccine zf2001 protects mice and nonhuman primates

Author

An, Yaling, primary, Li, Shihua, additional, Jin, Xiyue, additional, Han, Jian-bao, additional, Xu, Kun, additional, Xu, Senyu, additional, Han, Yuxuan, additional, Liu, Chuanyu, additional, Zheng, Tianyi, additional, Liu, Mei, additional, Yang, Mi, additional, Song, Tian-Zhang, additional, Huang, Baoying, additional, Zhao, Li, additional, Wang, Wen, additional, A, Ruhan, additional, Cheng, Yingjie, additional, Wu, Changwei, additional, Huang, Enqi, additional, Yang, Shilong, additional, Wong, Gary, additional, Bi, Yuhai, additional, Ke, Changwen, additional, Tan, Wenjie, additional, Yan, Jinghua, additional, Zheng, Yong-Tang, additional, Dai, Lianpan, additional, and Gao, George F., additional

Published
2022
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38. Association of GII.P16-GII.2 recombinant norovirus strain with increased norovirus outbreaks, Guangdong, China, 2016

Author

Lu, Jing, Fang, Ling, Sun, Limei, Zeng, Hanri, Li, Yanling, Zheng, Huanying, Wu, Siwei, Yang, Feng, Song, Tie, Lin, Jinyan, Ke, Changwen, Zhang, Yonghui, Vinje, Jan, and Li, Hui

Subjects
United States. Centers for Disease Control and Prevention, Epidemics -- Genetic aspects -- Japan -- China, Gastroenteritis -- Genetic aspects, Health
Abstract

During the past 20 years, GII.4 genotypes have been responsible for most norovirus outbreaks globally (1). New GII.4 variants have emerged every 2 or 3 years, replacing the previous dominant [...]

Published
2017
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41. Development of Receptor Binding Domain (RBD)‐Conjugated Nanoparticle Vaccines with Broad Neutralization against SARS‐CoV‐2 Delta and Other Variants

Author

Chen, Ran, primary, Zhang, Xiantao, additional, Yuan, Yaochang, additional, Deng, Xiaohui, additional, Wu, Bolin, additional, Xi, Zhihui, additional, Wang, Guanwen, additional, Lin, Yingtong, additional, Li, Rong, additional, Wang, Xuemei, additional, Zou, Fan, additional, Liang, Liting, additional, Yan, Haiping, additional, Liang, Chaofeng, additional, Li, Yuzhuang, additional, Wu, Shijian, additional, Deng, Jieyi, additional, Zhou, Mo, additional, Zhang, Xu, additional, Li, Congrong, additional, Bu, Xiuqing, additional, Peng, Yi, additional, Ke, Changwen, additional, Deng, Kai, additional, He, Xin, additional, Zhang, Yiwen, additional, Zhang, Zhenhai, additional, Pan, Ting, additional, and Zhang, Hui, additional

Published
2022
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42. Circulation of reassortant Influenza A(H7N9) viruses in poultry and humans, Guangdong Province, China, 2013

Author

Ke, Changwen, Lu, Jing, Wu, Jie, Guan, Dawei, Zou, Lirong, Song, Tie, Yi, Lina, Zeng, Xianqiao, Liang, Lijun, Ni, Hanzhong, Kang, Min, Zhang, Xin, Zhong, Haojie, He, Jianfeng, Lin, Jinyan, Smith, Derek, Burke, David, Fouchier, Ron A.M., Koopmans, Marion, and Zhang, Yonghui

Subjects
Avian influenza -- Analysis, Avian influenza viruses -- Analysis, Poultry industry -- Analysis, Health
Abstract

Human infection with a novel avian-origin influenza A(H7N9) virus was first identified in eastern China in February 2013, and a major outbreak occurred from the end of March through the [...]

Published
2014
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45. Differential Antibody Response to Inactivated COVID-19 Vaccines in Healthy Subjects

Author

Zhang, Jiaqi, primary, Xing, Shan, additional, Liang, Dan, additional, Hu, Wei, additional, Ke, Changwen, additional, He, Jinyong, additional, Yuan, Runyu, additional, Huang, Yile, additional, Li, Yizhe, additional, Liu, Dongdong, additional, Zhang, Xuedong, additional, Li, Lin, additional, Lin, Jianhua, additional, Li, Weili, additional, Teng, Xiangyun, additional, Liu, Yijun, additional, Wen, Wei, additional, Kang, Qiang, additional, Wang, Dawei, additional, Liu, Wanli, additional, and Xu, Jianhua, additional

Published
2021
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47. Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage

Author

Hendriksen, Rene S., Munk, Patrick, Njage, Patrick, van Bunnik, Bram, McNally, Luke, Lukjancenko, Oksana, Röder, Timo, Nieuwenhuijse, David, Pedersen, Susanne Karlsmose, Kjeldgaard, Jette, Kaas, Rolf S., Clausen, Philip Thomas Lanken Conradsen, Vogt, Josef Korbinian, Leekitcharoenphon, Pimlapas, van de Schans, Milou G.M., Zuidema, Tina, de Roda Husman, Ana Maria, Rasmussen, Simon, Petersen, Bent, Bego, Artan, Rees, Catherine, Cassar, Susan, Coventry, Kris, Collignon, Peter, Allerberger, Franz, Rahube, Teddie O., Oliveira, Guilherme, Ivanov, Ivan, Vuthy, Yith, Sopheak, Thet, Yost, Christopher K., Ke, Changwen, Zheng, Huanying, Baisheng, Li, Jiao, Xiaoyang, Donado-Godoy, Pilar, Coulibaly, Kalpy Julien, Jergović, Matijana, Hrenovic, Jasna, Karpíšková, Renáta, Villacis, Jose Eduardo, Legesse, Mengistu, Eguale, Tadesse, Heikinheimo, Annamari, Malania, Lile, Nitsche, Andreas, Brinkmann, Annika, Saba, Courage Kosi Setsoafia, Kocsis, Bela, Solymosi, Norbert, Thorsteinsdottir, Thorunn R., Hatha, Abdulla Mohamed, Alebouyeh, Masoud, Morris, Dearbhaile, Cormican, Martin, O’Connor, Louise, Moran-Gilad, Jacob, Alba, Patricia, Battisti, Antonio, Shakenova, Zeinegul, Kiiyukia, Ciira, Ng’eno, Eric, Raka, Lul, Avsejenko, Jeļena, Bērziņš, Aivars, Bartkevics, Vadims, Penny, Christian, Rajandas, Heraa, Parimannan, Sivachandran, Haber, Malcolm Vella, Pal, Pushkar, Jeunen, Gert Jan, Gemmell, Neil, Fashae, Kayode, Holmstad, Rune, Hasan, Rumina, Shakoor, Sadia, Rojas, Maria Luz Zamudio, Wasyl, Dariusz, Bosevska, Golubinka, Kochubovski, Mihail, Radu, Cojocaru, Gassama, Amy, Radosavljevic, Vladimir, Wuertz, Stefan, Zuniga-Montanez, Rogelio, Tay, Moon Y.F., Gavačová, Dagmar, Pastuchova, Katarina, Truska, Peter, Trkov, Marija, Esterhuyse, Kerneels, Keddy, Karen, Cerdà-Cuéllar, Marta, Pathirage, Sujatha, Norrgren, Leif, Örn, Stefan, Larsson, D. G.Joakim, Heijden, Tanja Van der, Kumburu, Happiness Houka, Sanneh, Bakary, Bidjada, Pawou, Njanpop-Lafourcade, Berthe Marie, Nikiema-Pessinaba, Somtinda Christelle, Levent, Belkis, Meschke, John Scott, Beck, Nicola Koren, Van, Chinh Dang, Tran, Doan Minh Nguyen, Kwenda, Geoffrey, Tabo, Djim adjim, Wester, Astrid Louise, Cuadros-Orellana, Sara, Amid, Clara, Cochrane, Guy, Sicheritz-Ponten, Thomas, Schmitt, Heike, Alvarez, Jorge Raul Matheu, Aidara-Kane, Awa, Pamp, Sünje J., Lund, Ole, Hald, Tine, Woolhouse, Mark, Koopmans, Marion P., Vigre, Håkan, Petersen, Thomas Nordahl, Aarestrup, Frank M., Sub RIVM, dIRAS RA-I&I RA, One Health Microbieel, dIRAS RA-I&I I&I, University of Helsinki, Food Hygiene and Environmental Health, Producció Animal, Sanitat Animal, Tilraunastöð í meinafræði að Keldum (HÍ), Institute for Experimental Pathology, Keldur (UI), Heilbrigðisvísindasvið (HÍ), School of Health Sciences (UI), Háskóli Íslands, University of Iceland, Food Hygiene and Environmental Health, Helsinki One Health (HOH), Zoonotic Antimicrobial Resistance, and Virology

Subjects
0301 basic medicine, Water microbiology, global surveillance, Sanitation, Kwantitatieve Veterinaire Epidemiologie, Drug Resistance, General Physics and Astronomy, Sewage, 02 engineering and technology, Drug resistance, Antimicrobial resistance, 413 Veterinary science, BU Veterinary Drugs, Abundance (ecology), Drug Resistance, Multiple, Bacterial, Genamengi, AMR, lcsh:Science, resistome, Ónæmisfræði, Multidisciplinary, Population Health, 021001 nanoscience & nanotechnology, 3. Good health, Europe, machine learning, Geography, Epidemiological Monitoring, 0210 nano-technology, Asia, Science, Microbial Consortia, Oceania, Article, General Biochemistry, Genetics and Molecular Biology, BU Dierbehandelingsmiddelen, 03 medical and health sciences, Antibiotic resistance, SDG 3 - Good Health and Well-being, Environmental health, Erfðafræði, Life Science, Humans, ddc:610, wastewater, Ecological epidemiology, Bacteria, business.industry, Quantitative Veterinary Epidemiology, prediction, General Chemistry, South America, Resistome, 030104 developmental biology, Genes, Socioeconomic Factors, 416 Food Science, Genes, Bacterial, Metagenomics, ENVIRONMENTAL SURVEILLANCE, Africa, North America, Metagenome, UPDATE, lcsh:Q, business, 610 Medizin und Gesundheit
Abstract

Publisher's version (útgefin grein), Antimicrobial resistance (AMR) is a serious threat to global public health, but obtaining representative data on AMR for healthy human populations is difficult. Here, we use metagenomic analysis of untreated sewage to characterize the bacterial resistome from 79 sites in 60 countries. We find systematic differences in abundance and diversity of AMR genes between Europe/North-America/Oceania and Africa/Asia/South-America. Antimicrobial use data and bacterial taxonomy only explains a minor part of the AMR variation that we observe. We find no evidence for cross-selection between antimicrobial classes, or for effect of air travel between sites. However, AMR gene abundance strongly correlates with socio-economic, health and environmental factors, which we use to predict AMR gene abundances in all countries in the world. Our findings suggest that global AMR gene diversity and abundance vary by region, and that improving sanitation and health could potentially limit the global burden of AMR. We propose metagenomic analysis of sewage as an ethically acceptable and economically feasible approach for continuous global surveillance and prediction of AMR., We are grateful to Hanne Nørgaard Nielsen, Christina Aaby Svendsen, Jacob Dyring Jensen, Birthe S. Rosenqvist Lund, Kate Vina Vibefeldt, Inge Marianne Hansen, Gunhild Larsen, Hanne Mordhorst, and Carsten Bidstrup for technical assistance. We also thank Jeffrey Edward Skiby for internal review. This study has received funding from the European Union’s Horizon 2020 research and innovation programme under grant agreement no. 643476 (COMPARE), the World Health Organization, The Villum Foundation (VKR023052), and The Novo Nordisk Foundation (NNF16OC0021856: Global Surveillance of Antimicrobial Resistance).

Published
2019
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48. Socializing One Health: an innovative strategy to investigate social and behavioral risks of emerging viral threats

Author

Saylors, Karen, Wolking, David J., Hagan, Emily, Martinez, Stephanie, Francisco, Leilani, Euren, Jason, Olson, Sarah H., Miller, Maureen, Fine, Amanda E., Thanh, Nga Nguyen Thi, Tran Minh, Phuc, Kalengkongan, Jusuf D., Kusumaningrum, Tina, Latinne, Alice, Pamungkas, Joko, Safari, Dodi, Saputro, Suryo, Bamba, Djeneba, Coulibaly, Kalpy Julien, Dosso, Mireille, Laudisoit, Anne, N'guettia Jean, Kouassi Manzan, Dutta, Shusmita, Islam, Ariful, Shano, Shahanaj, Mwanzalila, Mwokozi I., Trupin, Ian P., Gbakima, Aiah, Bangura, James, Yondah, Sylvester T., Karmacharya, Dibesh, Shrestha, Rima D., Kamta, Marcelle Annie Matsida, Mouiche, Mohamed Moctar Mouliom, Ndolo, Hilarion Moukala, Niama, Fabien Roch, Onikrotin, Dionne, Daszak, Peter, Johnson, Christine K., Mazet, Jonna A. K., Abaneh, Ola, Ababneh, Mustafa, Rafia, Jum, Sukor, Abd, Abdullah, Mohd Lufti, Abedin, Josefina, Abu-Basha, Ehab, Ali, Mohamed, Beal Akoundze, Junior, Akpaki, Joel, Al Hanandeh, Sief Addeen, Al Omari, Bilal, Al Shakil, Abdullah, Al-Zghoul, Mohammed, Albart, Stephenie Ann, Alshammari, Abdullah, Amarneh, Basil H., Ampofo, William, Andrew, Victoria, Ahn, Dao Le, Ankhanbaatar, Ulaankhuu, Anthony, Simon, Antonjaya, Ungke, Araya, Kidan, Arku, Jallah, Arshat, Norsharina, Asigbee, Theodore, Aung, Ohnmar, Awuni, Joseph, Ayukebong, James, Azian, Mohammed, Aziz, Nor Adilah, Ba, Aminata, Bassan, Ganzorig, Bagato, Ola, Bamba, Aboubacar, Bamba, Djenba, Barkhasbaatar, Ariunbaatar, Barrera, June, Basaraba, Cale, Bel-nono, Samuel, Belaganahalli, Manjunatha, Belay, Desalgen, Belkharia, Jaber, Binol, Ridzki M. F., Bird, Brian, Bista, Manisha, Biswas, Pitu, Blake, Matthew, Boatemaa, Linda, Bonason, Margret, Brandful, James, Brown, Joseph, Brownstein, John, Camara, Mamadi, Camara, Salif, Chai, Daniel, Chakraborty, Debapriyo, Chale, Hannah, Chaudhary, Ashok, Chea, Sokha, Chmura, Aleksei, Goossens, Benoit, Chow, Andrew, Churchill, Carolina, Commey, Abraham, Couacy-Hymann, Emmanuel, Coulibaly, Julien Kalpy, Cranfield, Michael, Damanik, Wirda, Damdinjav, Batchullum, Danial, Norhidayah, Dasak, Peter, David, Runie, Dawson, Patrick, Dembele, Arjouma, Deme, Awa, Desmond, James, Dewantari, Arghianditya Kresno, Dhanota, Jaseet, Dhole, Tapan, Diep, Nguyen Thi, Dionkounda, Artistide, Diop, Gaye Laye, Dodd, Kimberly, Dogby, Otilia, Dorjnyam, Tumendemberel, Dosso, Mireielle, Doumbouya, Kalil, Doumbouya, Mohamed Idriss, Doyle, Megan, Dramou, Simone, Drazenovich, Tracy, Duc Ahn, Dang, Duc Luu, Bach, Duendkae, Prateep, Duoc, Vu Trong, Duong, Tran Nhu, Duong, Veasna, Dursman, Huda, Dussart, Phillipe, Ee, Tan Jun, Ekiri, Abel, El Rifay, Amira S., El Shesheny, Rabel, El Taween, Ahmed N., Emmanuel, Zena Babu, Epstein, Jonathan H., Evans, Tierra Smiley, Fahmawi, Alaa, Fahn, Simeon, Feferholtz, Yasha, Ferdous, Jinnat, Fine, Amanda, Flora, Meerjady, Fransisco, Leilani, Fui Fui, Lem, Gabourie, Taylor, Gani, Millawati, Garbo, Michael, Gardner, Nicole, Gbamele, Marie, Ge, Xingyi, Gee, Lee Heng, Genovese, Brooke, Gibson, Alexandra, Gilardi, Kirsten, Gilbert, Martin, Gillis, Amethyst, Ginsos, Andrew, Godji Gnabro, Privat, Goldstein, Tracey, Gomaa, Moktar, Gomis, Jules, Gonzalez, Kevin, Grange, Zoe, Greig, Denise, Grodus, Michael, Gueu, Kpon Kakeuma Romeo, Gutierrez, Leticia, Haba, Dan Marcelin, Hamid, Suraya, Harris, Daniel K., Hashim, Abdul Kadir Abu, Hassan, Moushumi, Hassan, Quazar Nizamuddin, He, Qun, Hemachudha, Thiravat, Henry, Helen, Herbert, Ronald, Hijazeen, Zaidoun, Hilarion, Moukala Ndolo, Hill, Rebecca, Hoa, Nguyen Thi, Horwood, Paul, Hossain, Md. Enayet, Hossain, Saddam, Htun, Moh Moh, Hu, Ben, Hughes, Tom, Hul, Vibol, Van, Vo, Hussein, Fatima, Indola, Ghislain Dzeret, Iskandriati, Diah, Islam, Md. Tarikul, Islam, Shariful, Isnaim Ismail, Mohd, Ismail, Zuhair Bani, Iyanya, Jacques, Jaimin, Joel Judson, Jambai, Amara, Japning, Jeffrine Rovie Ryan, Japrin, Alexter, Jean Louis, Frantz, Joe, Titus, Johnson, Erica, Joly, Damien, Joshi, Jyotsna, Kalengkongan, Jusuf, Kalivogui, Douokoro, Kamara-Chieyoe, Nenneh, Kamau, Joseph, Kambale Syaluha, Eddy, Kandeil, Ahmed, Kane, Yogouba, Karesh, William, Kargo, Kandeh, Kasenda, Novie, Kayali, Ghazi, Kayed, Ahmed S., Kazwala, Rudovick, Ke, Changwen, Keates, Lucy, Kebede, Nigatu, Khamphaphongphane, Bouaphanh, Kheong, Chong Chee, Kilonzo, Christopher, Koffa, Ma-Sue, Kollie, Amos G., Kondiano, Marcel Sidik, Koropo, Michel, Kouamé Kouakou, Valere, Kouassi Koffi, Eugene, Kourouma, Mariam, Koutate, Abdoulaye Ousmane, Kowel, Citra Liv, Krou, Hermann Assemien, Kumakamba, Charles, Kutkat, Omnia, Lamah, François, Lan, Nguyen Thi, Lane, Jennifer, Lange, Christian, Larmouth, Emmanuel, Le Doux, Joseph Diffo, Leasure, Elizabeth, Leasure, Katherine, LeBreton, Mat, Lee, Jimmy, Lee, Helen, Lee, Mei Ho, Leno, Amara, Li, Hongying, Liang, Eliza, Liang, Neal, Lim, Dorothy, Lipkin, W. Ian, Liu, Jun, Lo, Modou Moustafa, Lojivis, Leonoris, Long, Nguyen Van, Lucas, Ashley, Lukusa, Jean Paul, Lungay, Victor, Lushima, Shongo, Lutwama, Julius, Ma, Wenjun, Machalaba, Catherine, Maganga, Grace, Magesa, Walter Simon, Mahmoud, Sara H., Makuwa, Maria, Makweta, Asha, Mamun, Abdullah Al, Manandhar, Prajwol, Maneeorn, Patarapol, Mann, Harjeet, Maomy, Bhele, Maptue, Victorine, Mathew, Alice, Mavoungou, Yanne Vanessa, Maw, Min Thein, Mazet, Jonna, Mbala, Placide, Mbuba, Emmanuel, Mbunwe, Eric, McIver, David, Mendelsohn, Emma, Miegakanda, Valchy Bel-Bebi, Minh, Phan Quang, Mkali, Happy, Moatasim, Yassmin, Mombouli, Jean Vivien, Monagin, Corina, Montecino-Latorre, Diego, Mossoun Mossoun, Arsene, Mostafa, Ahmed, Mouiche, Moctar, Mpassi, Romain Bagamboula, Msigwa, Alphonce, Mudakikwa, Antoine, Mugok, Laura Benedict, Mulembakani, Prime, Murray, Suzan, Musa, Fakhrul Hatta, Musabimana, Pacifique, Mutura, Samson, Mwamlima, Tunu, Mwanzanilla, Mwokozi, Myaing, Tin Tin, Myat, Theingi Win, Myo Chit, Aung, N’faly, Magassouba, N’Guettia, Manzan Jean, N’télo, Anatole, Nakimera, Sylivia, Nam, Vu Sinh, Napit, Rajindra, Nathan, Senthilvel K. S. S., Navarrete-Macias, Isamara, Ndebe, Kortu M., Ndiaye, Amadou, Ndiaye, Daouda, Negash, Yohannes, Nga, Nguyen Thi Thanh, Ngay, Ipos, Ngoc, Pham Thi Bich, Niama, Fabien, Nina, Rock Aimé, Niyonzima, Schadrack, Nkom, Felix, Nkoua, Cynthia, Noordin, Noorliza, Noviana, Rachmitasari, Nwobegahay, Julius, Nziza, Julius, O’Rourke, Daniel, O’Rourke, Tammie, Obodai, Evangeline, Okello Okwir, Ricky, Olival, Kevin, Olson, Sarah, Olva, Onkirotin Dionne, Ontiveros, Victoria, Opook, Fernandes, Panchadcharam, Chandrawathani, Pandit, Pranav, Parra, Henri-Joseph, Phuc, Tran Minh, Phuong, Nguyen Thanh, Poultolnor, Jackson Y., Pradhan, Saman, Preston, Eunah Cho, Pruvot, Mathieu, Purevtseren, Dulam, Puri, Dhiraj, Quang, Le Tin Vinh, Rachmitasari, Novie, Rahman, Kaisar, Rahman, Mizanur, Rahman, Mohammed Ziaur, Rahman, Mustafizur, Ramirez, Diana, Randhawa, Nistara, Raut, Samita, Rosario, Joseph, Ross, Albert, Ross, Noam, Rostal, Melinda, Roualdes, Pamela, Rubin, Eddy, Rumi, Aftab Uddin, Rundi, Christina, Sackie, Melkor, Sajali, Zikankuba, Samuels, Sandra G, Sango, Mathias, Saptu, Ammar Rafidah, Saraka, Daniel N’guessan, Sartee, Alvis A., Sayandouno, Sia Alida, Seck, Mame Cheikh, Sedor, Victoria, Sharma, Ajay Narayan, Sharminie, Velsri, Shehata, Mahmoud M., Sheikh, Gafur, Shi, Zhengli, Shiilegdamba, Enkhtuvshin, Shrestha, Bishwo, Shrestha, Rima, Sidibey, Mohammed, Silithammavong, Soubanh, Simon, Daniel, Sion, Emilly, Sipangkui, Symphorosa, Sitam, Frankie Thomas, Smith, Brett, Smith, Bridgette, Smith, Woutrina, Sodnom, Batsikhan, Ssebide, Benard, Suleiman, Maria, Sullivan, Ava, Sungif, Nur Amirah, Suu-Ire, Richard, Sy, Mouhamed, Takuo, Jean Michel, Talafha, Hani, Tamoufe, Ubald, Tetteh, Emmanuel, Than Toe, Aung, Thanda, Lanash, Thanh Long, Ngo, Thein, Wai Zin, Theppangna, Watthana, Thinh, Nguyen Duc, Thuy, Hoang Bich, Thuy, Nguyen Thu, Togami, Eri, Tolno, Moise Bendoua, Tolovou, Kevin, Topani, Rahmat, Tremeau-Bravard, Alexandre, Trupin, Ian, Tumushime, Jean Claude, Tun, Kyaw Yan Naing, Turay, Joseph, Uddin, Helal, Uhart, Marcela, Ureda, Nicole, Valitutto, Marc, Verasahib, Khebir, Vodzak, Megan, Wacharapluesadee, Supaporn, Wahad, Mohammad Yuery Wazlan Abdul, Watson, Brooke, Wells, Heather, White, Allison, Willoughby, Anna, Wiyatno, Ageng, Wolking, David, Yang, Xinglou, Yao, Lim Ming, Yombouno, Sayon, Young, Cristin, Zambrana-Torrelio, Carlos, Zeid, Zahidah Izzati, Zghoul, Ghadeer, Zhang, Libiao, Zhang, Yunzhi, Zhu, Guangjian, Zimmerman, Dawn, Zoumarou, Daba, Aguirre, Alonso, Aguirre, Luis, Akongo, Mark-Joel, Alandia Robles, Erika, Ambu, Laurentius, Ayala Aguilar, Glenda, Barcena, Luis, Barradas, Rosario, Basir, Misliah Mohamad, Bogich, Tiffany, Bounga, Gerard, Buchy, Philippe, Bunn, David, Byaruba, Denis, Cameron, Ken, Carroll, Dennis, Cavero, Nancy, Cespedes, Manuel, Che, Xiaoyu, Chiu, Charles, Chor, Kimashalen, Clements, Andrew, Dary Acevedo, Luz, de Almeida Campos, Angelica, De La Puente, Micaela, de Lamballerie, Xavier, de Paula, Catia, Delwart, Eric, Diffo Le Doux, Joseph, Doyle-Capitman, Catherine, Durigon, Edison, Fair, Joseph, Ferrer-Paris, José R., Formenty, Pierre, Galarza, Isabel, Garcia, Joel, Grard, Gilda, Greatorex, Zoe, Harris, Laurie, Hitchens, Peta, Ho, Mei, Hosseini, Parviez, In, Samath, Iñíguez, Volga, Jain, Komal, Jamaluddin, Abd. Aziz, Johnson, Christine, Jones, Kate, Joyner, Priscilla, Kaba, Serge, Kambale, Eddy, Kataregga, Abdulhameed, Kelly, Terra, Khammavong, Kongsy, Kilpatrick, A. Marm, Laimun, Samsir, Lee, Mei-Ho, LeRoy, Eric, Levinson, Jordan, Levy, Marc, Limachi, Rolando, Loh, Elizabeth, Lowenstine, Linda J., Luis Mollericona, José, Maganga, Ruth, Malakalinga, Joseph, Manhas, Melissa, Marra, Pete, Mbabazi, Rachael, Medellín, Rodrigo, Mendoza, Patricia, Miller, Sireeda, Miranda, Flavia, Mitchell, Megan, Mohamed, Ramlan, Mollard, Debbie, Morse, Stephen, Mouellet, Wivine, Moya, Isabel, Murillo, Yovanna, Murray, Kris, Muyembe Tamfum, Jean-Jacques, Nassar, Fernando, Nathan, Sen, Nsengimana, Olivier, Ogg Keatts, Lucy, Ojeda-Flore, Rafael, Okwir Okello, Ricky, Ondzie, Alain, Paweska, Janusz, Pereira, Alisa, Pereira, Victoria, Perez, Alberto, Perez, Jocelyn, Phon, Simorn, Reed, Patricia, Rejmanek, Dan, Rico, Oscar, Rivera, Rosario, Romero, Monica, Roy, Celina, Saepuloh, Uus, Schneider, Brad, Schwind, Jessica, Singhalath, Sinpakhome, Smith, Kristine, Suárez, Fabiola, Suzan, Gerardo, Thanh Nga, Nguyen Thi, Thomas, Kate, Ticona, Herminio, VanWormer, Elizabeth, Villar, Sandra, Weisman, Wendy, Westfall, Michael, Whittier, Chris, Wicker, Leanne, Wolfe, Nathan, Yang, Angela, Zariquiey, Carlos, Zhang, Shu-Yi, Zorine Nkouants, Baudelaire, Zainuddin, Zainal, Chrisman, Cara, Pabst, August, Shek, Amalhin, and Trostle, Murray

Subjects
0301 basic medicine, Behavioral risk, medicine.medical_specialty, Behavioural sciences, Disease, Community integration, Basic Behavioral and Social Science, 03 medical and health sciences, 0302 clinical medicine, Clinical Research, 2.3 Psychological, Behavioral and Social Science, Agency (sociology), medicine, 2.2 Factors relating to the physical environment, GE1-350, Aetiology, One health, Social science research, business.industry, Prevention, Research, Public health, PREDICT Consortium, Public relations, Focus group, Environmental sciences, Good Health and Well Being, 030104 developmental biology, One Health, Multi-disciplinary surveillance, social and economic factors, Public aspects of medicine, RA1-1270, Infection, Psychology, International development, business, 030217 neurology & neurosurgery
Abstract

In an effort to strengthen global capacity to prevent, detect, and control infectious diseases in animals and people, the United States Agency for International Development’s (USAID) Emerging Pandemic Threats (EPT) PREDICT project funded development of regional, national, and local One Health capacities for early disease detection, rapid response, disease control, and risk reduction. From the outset, the EPT approach was inclusive of social science research methods designed to understand the contexts and behaviors of communities living and working at human-animal-environment interfaces considered high-risk for virus emergence. Using qualitative and quantitative approaches, PREDICT behavioral research aimed to identify and assess a range of socio-cultural behaviors that could be influential in zoonotic disease emergence, amplification, and transmission. This broad approach to behavioral risk characterization enabled us to identify and characterize human activities that could be linked to the transmission dynamics of new and emerging viruses. This paper provides a discussion of implementation of a social science approach within a zoonotic surveillance framework. We conducted in-depth ethnographic interviews and focus groups to better understand the individual- and community-level knowledge, attitudes, and practices that potentially put participants at risk for zoonotic disease transmission from the animals they live and work with, across 6 interface domains. When we asked highly-exposed individuals (ie. bushmeat hunters, wildlife or guano farmers) about the risk they perceived in their occupational activities, most did not perceive it to be risky, whether because it was normalized by years (or generations) of doing such an activity, or due to lack of information about potential risks. Integrating the social sciences allows investigations of the specific human activities that are hypothesized to drive disease emergence, amplification, and transmission, in order to better substantiate behavioral disease drivers, along with the social dimensions of infection and transmission dynamics. Understanding these dynamics is critical to achieving health security--the protection from threats to health-- which requires investments in both collective and individual health security. Involving behavioral sciences into zoonotic disease surveillance allowed us to push toward fuller community integration and engagement and toward dialogue and implementation of recommendations for disease prevention and improved health security. Supplementary Information The online version contains supplementary material available at 10.1186/s42522-021-00036-9.

Published
2021
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49. Metabolomic analyses reveal new stage-specific features of COVID-19

Author

Jia, Hongling, primary, Liu, Chaowu, additional, Li, Dantong, additional, Huang, Qingsheng, additional, Liu, Dong, additional, Zhang, Ying, additional, Ye, Chang, additional, Zhou, Di, additional, Wang, Yang, additional, Tan, Yanlian, additional, Li, Kuibiao, additional, Lin, Fangqin, additional, Zhang, Haiqing, additional, Lin, Jingchao, additional, Xu, Yang, additional, Liu, Jingwen, additional, Zeng, Qing, additional, Hong, Jian, additional, Chen, Guobing, additional, Zhang, Hao, additional, Zheng, Lingling, additional, Deng, Xilong, additional, Ke, Changwen, additional, Gao, Yunfei, additional, Fan, Jun, additional, Di, Biao, additional, and Liang, Huiying, additional

Published
2021
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50. Correction to: Setting a baseline for global urban virome surveillance in sewage

Author

Nieuwenhuijse, David F., Oude Munnink, Bas B., Phan, My V.T., Hendriksen, Rene S., Bego, Artan, Rees, Catherine, Neilson, Elizabeth Heather, Coventry, Kris, Collignon, Peter, Allerberger, Franz, Rahube, Teddie O., Oliveira, Guilherme, Ivanov, Ivan, Sopheak, Thet, Vuthy, Yith, Yost, Christopher K., Tabo, Djim Adjim, Cuadros-Orellana, Sara, Ke, Changwen, Zheng, Huanying, Baisheng, Li, Jiao, Xiaoyang, Donado-Godoy, Pilar, Coulibaly, Kalpy Julien, Hrenovic, Jasna, Jergović, Matijana, Karpíšková, Renáta, Elsborg, Bodil, Legesse, Mengistu, Eguale, Tadesse, Heikinheimo, Annamari, Villacis, Jose Eduardo, Sanneh, Bakary, Malania, Lile, Nitsche, Andreas, Brinkmann, Annika, Saba, Courage Kosi Setsoafia, Kocsis, Bela, Solymosi, Norbert, Thorsteinsdottir, Thorunn R., Hatha, Abdulla Mohamed, Alebouyeh, Masoud, Morris, Dearbhaile, O’Connor, Louise, Cormican, Martin, Moran-Gilad, Jacob, van Passel, Mark, van de Schans, Milou G.M., Zuidema, Tina, and Koopmans, Marion P.G.

Subjects
Team Animal Drugs 1, Life Science
Abstract

The Acknowledgements section in the original version of this Article was incomplete. “This study has received funding from the European Union’s Horizon 2020 research and innovation program under Grant agreement no. 643476 (COMPARE), the World Health Organization, and The Novo Nordisk Foundation (NNF16OC0021856: Global Surveillance of Antimicrobial Resistance). We would like to thank Miranda de Graaf for the technical assistance at Erasmus MC.” now reads: “This study has received funding from the European Union’s Horizon 2020 research and innovation program under Grant agreement no. 643476 (COMPARE), the World Health Organization, and The Novo Nordisk Foundation (NNF16OC0021856: Global Surveillance of Antimicrobial Resistance). My V. T. Phan was supported by a Marie Sklodowska-Curie Individual Fellowship, funded by the EU H2020 research and innovation programme (Grant Agreement No. 799417). We would like to thank Miranda de Graaf for the technical assistance at Erasmus MC.” The original Article has been corrected.

Published
2021

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