The Evolutionary Landscape of SARS-CoV-2 Variant B.1.1.519 and Its Clinical Impact in Mexico City

被引：26

作者：

Cedro-Tanda, Alberto ^{[1
]}

Gomez-Romero, Laura ^{[1
]}

Alcaraz, Nicolas ^{[1
]}

de Anda-Jauregui, Guillermo ^{[1
,2
]}

Penaloza, Fernando ^{[1
]}

Moreno, Bernardo ^{[1
]}

Escobar-Arrazola, Marco A. ^{[3
]}

Ramirez-Vega, Oscar A. ^{[3
]}

Munguia-Garza, Paulina ^{[3
]}

Garcia-Cardenas, Francisco ^{[1
]}

Cisneros-Villanueva, Mireya ^{[1
]}

Moreno-Camacho, Jose L. ^{[4
]}

Rodriguez-Gallegos, Jorge ^{[4
,5
]}

Luna-Ruiz Esparza, Marco A. ^{[6
]}

Fernandez Rojas, Miguel A. ^{[6
]}

Mendoza-Vargas, Alfredo ^{[1
]}

Reyes-Grajeda, Juan Pablo ^{[1
]}

Campos-Romero, Abraham ^{[6
]}

Angulo, Ofelia ^{[7
]}

Ruiz, Rosaura ^{[7
]}

Sheinbaum-Pardo, Claudia ^{[8
]}

Sifuentes-Osornio, Jose ^{[9
]}

Kershenobich, David ^{[9
]}

Hidalgo-Miranda, Alfredo ^{[1
]}

Herrera, Luis A. ^{[1
,3
]}

机构：

[1] INMEGEN, Inst Nacl Med Genom, Perifer Sur 4809, Mexico City 14610, DF, Mexico

[2] CONACYT, Catedras CONACYT Jovenes Invest, Ave Insurgentes Sur 1582, Mexico City 03940, DF, Mexico

[3] Univ Nacl Autonoma Mexico, Unidad Invest Biomed Canc, Inst Nacl Cancerol, Inst Invest Biomed, Ave San Fernando 22,Belisario Dominguez Secc 16, Mexico City 14080, DF, Mexico

[4] Salud Digna, Clin Lab Div, Culiacan 80000, Sinaloa, Mexico

[5] Salud Digna, Mol Biol Lab, Natl Reference Ctr, Tlalnepantla De Baz 54075, Estado De Mexic, Mexico

[6] Salud Digna, Innovat & Res Dept, Culiacan 80000, Sinaloa, Mexico

[7] Secretaria Educ Ciencia Tecnol & Innovac, Av Chapultepec 49, Mexico City 06010, DF, Mexico

[8] Antiguo Palacio Ayuntamiento, Gobierno Ciudad Mexico, Ave Plaza Constituc 2, Mexico City 06010, DF, Mexico

[9] Inst Nacl Ciencias Med & Nutr Salvador Zubiran, Vasco Quiroga 15,Belisario Dominguez Secc 16, Mexico City 14080, DF, Mexico

来源：

VIRUSES-BASEL | 2021年 / 13卷 / 11期

关键词：

SARS-CoV-2; B.1.1.519; variant; effective reproduction number; phylogenetic analysis; haplotype analysis; clinical impact; significant adjusted odds ratio; COVID-19; hospitalization; COVID-19 critical outcome; REINFECTION; SOFTWARE; LINEAGE; MAFFT;

D O I：

10.3390/v13112182

中图分类号：

Q93 [微生物学];

学科分类号：

071005 ; 100705 ;

摘要：

The SARS-CoV-2 pandemic is one of the most concerning health problems around the globe. We reported the emergence of SARS-CoV-2 variant B.1.1.519 in Mexico City. We reported the effective reproduction number (Rt) of B.1.1.519 and presented evidence of its geographical origin based on phylogenetic analysis. We also studied its evolution via haplotype analysis and identified the most recurrent haplotypes. Finally, we studied the clinical impact of B.1.1.519. The B.1.1.519 variant was predominant between November 2020 and May 2021, reaching 90% of all cases sequenced in February 2021. It is characterized by three amino acid changes in the spike protein: T478K, P681H, and T732A. Its Rt varies between 0.5 and 2.9. Its geographical origin remain to be investigated. Patients infected with variant B.1.1.519 showed a highly significant adjusted odds ratio (aOR) increase of 1.85 over non-B.1.1.519 patients for developing a severe/critical outcome (p = 0.000296, 1.33-2.6 95% CI) and a 2.35-fold increase for hospitalization (p = 0.005, 1.32-4.34 95% CI). The continuous monitoring of this and other variants will be required to control the ongoing pandemic as it evolves.

引用

页数：17

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