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研究领域生物科学生态学气候变化的进化影响
基因组监测揭示了COVID-19流行病连接的动态变化

基因组监测揭示了COVID-19流行病连接的动态变化

Nathaniel L Matteson ¹, Gabriel W Hassler ², Ezra Kurzban ¹, Madison A Schwab ¹, Sarah A Perkins ¹, Karthik Gangavarapu ³, Joshua I Levy ¹, Edyth Parker ¹, David Pride ⁴, Abbas Hakim ⁵, Peter De Hoff ⁵, Willi Cheung ⁵, Anelizze Castro-Martinez ⁶, Andrea Rivera ⁷, Anthony Veder ⁷, Ariana Rivera ⁷, Cassandra Wauer ⁷, Jacqueline Holmes ⁷, Jedediah Wilson ⁷, Shayla N Ngo ⁷, Ashley Plascencia ⁷, Elijah S Lawrence ⁷, Elizabeth W Smoot ⁷, Emily R Eisner ⁷, Rebecca Tsai ⁷, Marisol Chacón ⁷, Nathan A Baer ⁷, Phoebe Seaver ⁷, Rodolfo A Salido ⁷, Stefan Aigner ⁷, Toan T Ngo ⁷, Tom Barber ⁷, Tyler Ostrander ⁷, Rebecca Fielding-Miller ⁸, Elizabeth H Simmons ⁹, Oscar E Zazueta ¹⁰, Idanya Serafin-Higuera ¹¹, Manuel Sanchez-Alavez ¹², Jose L Moreno-Camacho ¹³, Abraham García-Gil ¹³, Ashleigh R Murphy Schafer ¹⁴, Eric McDonald ¹⁴, Jeremy Corrigan ¹⁴, John D Malone ¹⁴, Sarah Stous ¹⁴, Seema Shah ¹⁴, Niema Moshiri ¹⁵, Alana Weiss ¹, Catelyn Anderson ¹, Christine M Aceves ¹, Emily G Spencer ¹, Emory C Hufbauer ¹, Justin J Lee ¹, Alison J King ¹, Karthik S Ramesh ¹, Kelly N Nguyen ¹, Kieran Saucedo ¹, Refugio Robles-Sikisaka ¹, Kathleen M Fisch ¹⁶, Steven L Gonias ¹⁷, Amanda Birmingham ¹⁸, Daniel McDonald ¹⁸, Smruthi Karthikeyan ¹⁸, Natasha K Martin ¹⁹, Robert T Schooley ¹⁹, Agustin J Negrete ²⁰, Horacio J Reyna ²⁰, Jose R Chavez ²⁰, Maria L Garcia ²⁰, Jose M Cornejo-Bravo ²¹, David Becker ²², Magnus Isaksson ²², Nicole L Washington ²², William Lee ²², Richard S Garfein ²³, Marco A Luna-Ruiz Esparza ²⁴, Jonathan Alcántar-Fernández ²⁴, Benjamin Henson ²⁵, Kristen Jepsen ²⁵, Beatriz Olivares-Flores ²⁶, Gisela Barrera-Badillo ²⁶, Irma Lopez-Martínez ²⁶, José E Ramírez-González ²⁶, Rita Flores-León ²⁶, Stephen F Kingsmore ²⁷, Alison Sanders ²⁸, Allorah Pradenas ²⁸, Benjamin White ²⁸, Gary Matthews ²⁸, Matt Hale ²⁸, Ronald W McLawhon ²⁸, Sharon L Reed ²⁸, Terri Winbush ²⁸, Ian H McHardy ²⁹, Russel A Fielding ²⁹, Laura Nicholson ²⁹, Michael M Quigley ²⁹, Aaron Harding ³⁰, Art Mendoza ³⁰, Omid Bakhtar ³⁰, Sara H Browne ³¹, Jocelyn Olivas Flores ³², Diana G Rincon Rodríguez ³³, Martin Gonzalez Ibarra ³³, Luis C Robles Ibarra ³⁴, Betsy J Arellano Vera ³⁵, Jonathan Gonzalez Garcia ³⁶, Alicia Harvey-Vera ³⁷, Rob Knight ³⁸, Louise C Laurent ⁶, Gene W Yeo ³⁹, Joel O Wertheim ⁴⁰, Xiang Ji ⁴¹, Michael Worobey ⁴², Marc A Suchard ⁴³, Kristian G Andersen ¹, Abraham Campos-Romero ²⁴, Shirlee Wohl ¹, Mark Zeller ¹

Nathaniel L Matteson ¹, Gabriel W Hassler ², Ezra Kurzban ¹

¹Department of Immunology and Microbiology, Scripps Research, La Jolla, CA, USA.
²Department of Computational Medicine, University of California, Los Angeles, Los Angeles, CA, USA.
³Department of Biomathematics, David Geffen School of Medicine at UCLA, University of California, Los Angeles, Los Angeles, CA, USA; Department of Immunology and Microbiology, Scripps Research, La Jolla, CA, USA.
⁴Department of Pathology, University of California, San Diego, La Jolla, CA, USA; Department of Medicine, University of California, San Diego, La Jolla, CA, USA.
⁵Expedited COVID Identification Environment (EXCITE) Laboratory, Department of Pediatrics, University of California, San Diego, La Jolla, CA, USA; Department of Obstetrics, Gynecology, and Reproductive Sciences, University of California, San Diego, La Jolla, CA, USA; COVID-19 Detection, Investigation, Surveillance, Clinical, and Outbreak Response, California Department of Public Health, Richmond, CA, USA.
⁶Expedited COVID Identification Environment (EXCITE) Laboratory, Department of Pediatrics, University of California, San Diego, La Jolla, CA, USA; Department of Obstetrics, Gynecology, and Reproductive Sciences, University of California, San Diego, La Jolla, CA, USA; Sanford Consortium of Regenerative Medicine, University of California, San Diego, La Jolla, CA, USA.
⁷Expedited COVID Identification Environment (EXCITE) Laboratory, Department of Pediatrics, University of California, San Diego, La Jolla, CA, USA.
⁸Herbert Wertheim School of Public Health and Human Longevity Science, University of California, San Diego, La Jolla, CA, USA; Division of Infectious Disease and Global Public Health, University of California, San Diego, La Jolla, CA, USA.
⁹Academic Affairs, University of California, San Diego, La Jolla, CA, USA.
¹⁰Department of Epidemiology, Secretaria de Salud de Baja California, Tijuana, Baja California, Mexico.
¹¹Centro de Diagnostico COVID-19 UABC, Tijuana, Baja California, Mexico.
¹²Centro de Diagnostico COVID-19 UABC, Tijuana, Baja California, Mexico; Department of Molecular Medicine, Scripps Research, La Jolla, CA, USA.
¹³Clinical Laboratory Department, Salud Digna, A.C, Tijuana, Baja California, Mexico.
¹⁴County of San Diego Health and Human Services Agency, San Diego, CA, USA.
¹⁵Department of Computer Science and Engineering, University of California, San Diego, La Jolla, CA, USA.
¹⁶Department of Obstetrics, Gynecology, and Reproductive Sciences, University of California, San Diego, La Jolla, CA, USA; Center for Computational Biology and Bioinformatics, University of California San Diego, La Jolla, CA, USA.
¹⁷Department of Pathology, University of California, San Diego, La Jolla, CA, USA.
¹⁸Department of Pediatrics, University of California, San Diego, La Jolla, CA, USA.
¹⁹Division of Infectious Disease and Global Public Health, University of California, San Diego, La Jolla, CA, USA.
²⁰Facultad de Ciencias de la Salud Universidad Autonoma de Baja California Valle de Las Palmas, Tijuana, Baja California, Mexico.
²¹Facultad de Ciencias Quimicas e Ingenieria, Universidad Autonoma de Baja California, Tijuana, Baja California, Mexico.
²²Helix, San Mateo, CA, USA.
²³Herbert Wertheim School of Public Health and Human Longevity Science, University of California, San Diego, La Jolla, CA, USA.
²⁴Innovation and Research Department, Salud Digna, A.C, Tijuana, Baja California, Mexico.
²⁵Institute for Genomic Medicine, University of California, San Diego, La Jolla, CA, USA.
²⁶Instituto de Diagnóstico y Referencia Epidemiológicos (InDRE), Ciudad de México, CDMX, Mexico.
²⁷Rady Children's Institute for Genomic Medicine, San Diego, CA, USA.
²⁸Return to Learn, University of California, San Diego, La Jolla, CA, USA.
²⁹Scripps Health, La Jolla, San Diego, CA, USA.
³⁰Sharp Healthcare, San Diego, CA, USA.
³¹Division of Infectious Disease and Global Public Health, University of California, San Diego, La Jolla, CA, USA; Specialist in Global Health, Encinitas, CA, USA.
³²Facultad de Ciencias Quimicas e Ingenieria, Universidad Autonoma de Baja California, Tijuana, Baja California, Mexico; University of HealthMx, Tijuana, Baja California, Mexico.
³³University of HealthMx, Tijuana, Baja California, Mexico; Facultad de Medicina, Universidad Xochicalco, Tijuana, Baja California, Mexico.
³⁴University of HealthMx, Tijuana, Baja California, Mexico; Instituto de Seguridad y Servicios Sociales de los Trabajadores del Estado, Tijuana, Baja California, Mexico.
³⁵University of HealthMx, Tijuana, Baja California, Mexico; Instituto Mexicano del Seguro Social, Tijuana, Baja California, Mexico.
³⁶University of HealthMx, Tijuana, Baja California, Mexico; SIMNSA, Tijuana, Baja California, Mexico.
³⁷University of California, San Diego, La Jolla, CA, USA.
³⁸Department of Computer Science and Engineering, University of California, San Diego, La Jolla, CA, USA; Department of Pediatrics, University of California, San Diego, La Jolla, CA, USA; Department of Bioengineering, University of California, San Diego, La Jolla, CA, USA.
³⁹Expedited COVID Identification Environment (EXCITE) Laboratory, Department of Pediatrics, University of California, San Diego, La Jolla, CA, USA; Sanford Consortium of Regenerative Medicine, University of California, San Diego, La Jolla, CA, USA; Department of Cellular and Molecular Medicine, University of California, San Diego, La Jolla, CA, USA.
⁴⁰Department of Medicine, University of California, San Diego, La Jolla, CA, USA.
⁴¹Department of Mathematics, School of Science and Engineering, Tulane University, New Orleans, LA, USA.
⁴²Department of Ecology and Evolutionary Biology, University of Arizona, Tucson, AZ, USA.
⁴³Department of Human Genetics, University of California, Los Angeles, Los Angeles, CA, USA.

⁰Department of Immunology and Microbiology, Scripps Research, La Jolla, CA, USA.

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2023年十二月15日

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在PubMed上查看摘要

概括

此摘要是机器生成的。

基因组监测显示COVID-19的传播范围跨越地区和国际边界. 放松干预增加了远距离的联系,凸显了共同控制疫情的必要性.

科学领域

流行病学
基因组监测
公共卫生

背景情况

基因组监测已经取得显著进展,使得疫情的出现和传播能够得到详细的跟踪.
在COVID-19大流行期间,基因组数据突出显示了严重急性呼吸综合征冠状病毒2 (SARS-CoV-2) 血统进口和持续性的变化.
这些变化受到公共卫生干预和不断变化的连接模式的影响.

研究的目的

调查当地COVID-19流行病的驱动因素.
了解受流动性和公共卫生干预影响的区域和国际传播如何影响流行病的动态.
在相互关联的全球流行病背景下重新定义"本地"的概念.

主要方法

基因组数据与流动性和流行病学数据的整合.
通过相邻和遥远的地理位置分析传播模式.
评估动态流动模式和放宽公共卫生干预措施对流行病连接性的影响.

主要成果

当地的COVID-19流行主要是由区域传播引起的,包括跨境传播.
公共卫生干预措施的放松导致远距离地点之间的连接增加.
动态移动模式促进了附近和偏远地区之间的大量传播.
变化的连接模式显然影响了当地COVID-19的发病率.

结论

流行病研究中的"本地"定义由于相互联系而复杂.
为了有效预防和减轻疫情,跨境的合作干预至关重要.
了解动态连接对于控制传染病传播至关重要.

关键词:

美国冠状病毒基因组流行病学行动性人类遗传学旅行限制病毒测序

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