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金砖国家的新冠疫情:里程碑、应对措施及分子流行病学

"The COVID-19 pandemic in BRICS: Milestones, interventions, and molecular epidemiology".

作者信息

van Wyk Stephanie, Moir Monika, Banerjee Anindita, Bazykin Georgii A, Biswas Nidhan K, Sitharam Nikita, Das Saumitra, Ma Wentai, Maitra Arindam, Mazumder Anup, Karim Wasim Abdool, Lamarca Alessandra Pavan, Li Mingkun, Nabieva Elena, Tegally Houriiyah, San James Emmanuel, Vasconcelos Ana Tereza R, Xavier Joicymara S, Wilkinson Eduan, de Oliveira Tulio

机构信息

Centre for Epidemic Response and Innovation (CERI), School of Data Science and Computational Thinking, Stellenbosch University, Stellenbosch, South Africa.

BRICS-National Institute of Biomedical Genomics, Kalyani, West Bengal, India.

出版信息

PLOS Glob Public Health. 2024 Dec 20;4(12):e0003023. doi: 10.1371/journal.pgph.0003023. eCollection 2024.

Abstract

Brazil, Russia, India, China, and South Africa (BRICS) are a group of developing countries with shared economic, healthcare, and scientific interests. These countries navigate multiple syndemics, and the COVID-19 pandemic placed severe strain on already burdened BRICS' healthcare systems, hampering effective pandemic interventions. Genomic surveillance and molecular epidemiology remain indispensable tools for facilitating informed pandemic intervention. To evaluate the combined manner in which the pandemic unfolded in BRICS countries, we reviewed the BRICS pandemic epidemiological and genomic milestones, which included the first reported cases and deaths, and pharmaceutical and non-pharmaceutical interventions implemented in these countries. To assess the development of genomic surveillance capacity and efficiency over the pandemic, we analyzed the turnaround time from sample collection to data availability and the technologies used for genomic analysis. This data provided information on the laboratory capacities that enable the detection of emerging SARS-CoV-2 variants and highlight their potential for monitoring other pathogens in ongoing public health efforts. Our analyses indicated that BRICS suffered >105.6M COVID-19 infections, resulting in >1.7M deaths. BRICS countries detected intricate genetic combinations of SARS-CoV-2 variants that fueled country-specific pandemic waves. BRICS' genomic surveillance programs enabled the identification and characterization of the majority of globally circulating Variants of Concern (VOCs) and their descending lineages. Pandemic intervention strategies first implemented by BRICS countries included non-pharmaceutical interventions during the onset of the pandemic, such as nationwide lockdowns, quarantine procedures, the establishment of fever clinics, and mask mandates- which were emulated internationally. Vaccination rollout strategies complemented this, some representing the first of their kind. Improvements in BRICS sequencing and data generation turnaround time facilitated quicker detection of circulating and emerging variants, supported by investments in sequencing and bioinformatic infrastructure. Intra-BRICS cooperation contributed to the ongoing intervention in COVID-19 and other pandemics, enhancing collective capabilities in addressing these health challenges. The data generated continues to inform BRICS-centric pandemic intervention strategies and influences global health matters. The increased laboratory and bioinformatic capacity post-COVID-19 will support the detection of emerging pathogens.

摘要

巴西、俄罗斯、印度、中国和南非(金砖国家)是一组在经济、医疗保健和科学领域有着共同利益的发展中国家。这些国家应对多种综合征,而新冠疫情给本就负担沉重的金砖国家医疗体系带来了巨大压力,阻碍了有效的疫情干预措施。基因组监测和分子流行病学仍然是促进明智的疫情干预不可或缺的工具。为了评估疫情在金砖国家的发展情况,我们回顾了金砖国家疫情的流行病学和基因组里程碑事件,包括首次报告的病例和死亡情况,以及这些国家实施的药物和非药物干预措施。为了评估疫情期间基因组监测能力和效率的发展,我们分析了从样本采集到数据可用的周转时间以及用于基因组分析的技术。这些数据提供了有关实验室能力的信息,这些能力能够检测出新兴的新冠病毒变体,并突出了它们在当前公共卫生工作中监测其他病原体的潜力。我们的分析表明,金砖国家遭受了超过1.056亿例新冠感染,导致超过170万人死亡。金砖国家检测到了新冠病毒变体复杂的基因组合,这些组合引发了各国特有的疫情浪潮。金砖国家的基因组监测计划能够识别和表征全球大部分正在传播的关注变体(VOC)及其衍生谱系。金砖国家首先实施的疫情干预策略包括在疫情初期实施非药物干预措施,如全国范围的封锁、检疫程序、设立发热门诊和强制戴口罩等,这些措施在国际上得到了效仿。疫苗接种推广策略对此起到了补充作用,其中一些是首创的。金砖国家测序和数据生成周转时间的改善,在测序和生物信息基础设施投资的支持下,促进了对正在传播和新兴变体的更快检测。金砖国家内部的合作有助于对新冠疫情及其他疫情的持续干预,增强了应对这些健康挑战的集体能力。所产生的数据继续为以金砖国家为中心的疫情干预策略提供信息,并影响全球卫生事务。新冠疫情后实验室和生物信息能力的提升将有助于检测新兴病原体。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/aeae/11661601/f82f741ab187/pgph.0003023.g001.jpg

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