The Chilean COVID-19 Genomics Network Biorepository: A Resource for Multi-Omics Studies of COVID-19 and Long COVID in a Latin American Population
Date Issued
2024
Author(s)
Signore
IA Donoso
G Bocchieri
P Tobar-Calfucoy
EA Yáñez
CE Carvajal-Silva
L Silva
AX Otth
C Cappelli
C Valenzuela Jorquera
H Zapata-Contreras
D Espinosa-Parrilla
Y Zúñiga-Pacheco
P Fuentes-Guajardo
M Monardes-Ramírez
VA Kochifas Velasquez
P Muñoz
CA Dorador
C García-Araya
J Campillay-Véliz
CP Echeverria
C Santander
RA Cerpa
LC Martínez
MF Quiñones
LA Lamoza Galleguillos
ER Saez Hidalgo
J Nova-Lamperti
E Sanhueza
S Giacaman
A Acosta-Jamett
G Verdugo
C Plaza
A Verdugo
C Selman
C Verdugo
RA Colombo
University of Atacama
DOI
10.3390/genes15111352
Abstract
Although a lack of diversity in genetic studies is an acknowledged obstacle for personalized medicine and precision public health, Latin American populations remain particularly understudied despite their heterogeneity and mixed ancestry. This gap extends to COVID-19 despite its variability in susceptibility and clinical course, where ethnic background appears to influence disease severity, with non-Europeans facing higher hospitalization rates. In addition, access to high-quality samples and data is a critical issue for personalized and precision medicine, and it has become clear that the solution lies in biobanks. The creation of the Chilean COVID-19 Biorepository reported here addresses these gaps, representing the first nationwide multicentric Chilean initiative. It operates under rigorous biobanking standards and serves as one of South America's largest COVID cohorts. A centralized harmonization strategy was chosen and included unified standard operating procedures, a sampling coding system, and biobanking staff training. Adults with confirmed SARS-CoV-2 infection provided broad informed consent. Samples were collected to preserve blood, plasma, buffy coat, and DNA. Quality controls included adherence to the standard preanalytical code, incident reporting, and DNA concentration and absorbance ratio 260/280 assessments. Detailed sociodemographic, health, medication, and preexisting condition data were gathered. In five months, 2262 participants were enrolled, pseudonymized, and sorted by disease severity. The average Amerindian ancestry considering all participant was 44.0% [SD 15.5%], and this value increased to 61.2% [SD 19.5%] among those who self-identified as Native South Americans. Notably, 279 participants self-identified with one of 12 ethnic groups. High compliance (>90%) in all assessed quality controls was achieved. Looking ahead, our team founded the COVID-19 Genomics Network (C19-GenoNet) focused on identifying genetic factors influencing SARS-CoV-2 outcomes. In conclusion, this bottom-up collaborative effort aims to promote the integration of Latin American populations into global genetic research and welcomes collaborations supporting this endeavor. Interested parties are invited to explore collaboration opportunities through our catalog, accessible online. C1 [Signore, Iskra A.; Bocchieri, Pamela; Colombo, Alicia] Univ Chile, Dept Anat Pathol, Fac Med, Santiago 8380453, Chile. [Donoso, Gerardo; Colombo, Alicia] Univ Chile Clin Hosp HCUCH, Serv Anat Pathol, Santiago 8380453, Chile. [Tobar-Calfucoy, Eduardo A.; Yanez, Cristian E.; Carvajal-Silva, Laura] Univ Chile, Inst Biomed Sci ICBM, Human Genet Program, Fac Med, Santiago 8380453, Chile. [Silva, Andrea X.; Cappelli, Claudio; Valenzuela Jorquera, Hector] Univ Austral Chile, AUSTRAL Omics, Vice Rectors Off Res Dev & Artist Creat, Valdivia 5090000, Chile. [Silva, Andrea X.] Univ Austral Chile, Inst Environm & Evolutionary Sci, Fac Sci, Valdivia 5090000, Chile. [Otth, Carola] Univ Austral Chile, Inst Clin Microbiol, Fac Med, Valdivia 5090000, Chile. [Zapata-Contreras, Daniela; Espinosa-Parrilla, Yolanda; Zuniga-Pacheco, Paula] Magallanes Univ, Sch Med, Punta Arenas 6210005, Chile. [Zapata-Contreras, Daniela; Espinosa-Parrilla, Yolanda; Zuniga-Pacheco, Paula] Magallanes Univ, Ctr Educ Healthcare & Invest CADI UMAG, Evolutionary & Med Genom Magallanes GEMMa, Punta Arenas 6210005, Chile. [Espinosa-Parrilla, Yolanda] Interuniv Ctr Hlth Aging, Punta Arena 6210005, Chile. [Fuentes-Guajardo, Macarena] Univ Tarapaca, Dept Med Technol, Fac Hlth Sci, Arica 1010197, Chile. [Monardes-Ramirez, Virginia A.; Kochifas Velasquez, Pia] Salvador Hosp, Clin Lab Tech Area Mol Biol, Santiago 7500922, Chile. [Munoz, Christian A.] Univ Antofagasta, Dept Med Technol, Fac Hlth Sci, Antofagasta 1240000, Chile. [Dorador, Cristina; Garcia-Araya, Jonathan] Univ Antofagasta, Antofagasta Inst, Lab Microbial Complex & Funct Ecol, Antofagasta 1240000, Chile. [Dorador, Cristina; Garcia-Araya, Jonathan] Univ Antofagasta, Biotechnol Dept, Antofagasta 1240000, Chile. [Campillay-Veliz, Claudia P.] Univ Antofagasta, Fac Marine Sci & Biol Resources, Lab Mol Virol, Antofagasta 1240000, Chile. [Echeverria, Cesar] Univ Atacama, Lab Mol Biol Nanomed & Genom, Fac Med, Copiapo 1533601, Chile. [Santander, Rodolfo Alejandro] Emergency Publ Assistance Hosp, Santiago 8330145, Chile. [Santander, Rodolfo Alejandro] Emergency Med Assistance Serv SAMU, Punta Arenas 6200000, Chile. [Cerpa, Leslie C.; Martinez, Matias F.; Quinones, Luis Abel; Verdugo, Ricardo Alejandro] Univ Chile, Dept Basic & Clin Oncol DOBC, Fac Med, Santiago 8380453, Chile. [Cerpa, Leslie C.; Martinez, Matias F.; Quinones, Luis Abel] Latin Amer Network Implementat & Validat Clin Pha, Madrid 28015, Spain. [Martinez, Matias F.; Quinones, Luis Abel] Univ Chile, Sch Chem & Pharmaceut Sci, Dept Pharmaceut Sci & Technol, Santiago 8380494, Chile. [Lamoza Galleguillos, Eduardo Roberto] Univ Chile, Dept Basic Clin Oncol DOBC, Lab Chem Carcinogenesis & Pharmacogenet, Fac Med, Santiago 8380453, Chile. [Saez Hidalgo, Juan] Univ Chile, Fac Phys & Math Sci, Dept Comp Sci, Santiago 8370458, Chile. [Nova-Lamperti, Estefania] Univ Concepcion, Clin Biochem & Immunol Dept, Fac Pharm, Concepcion 4070383, Chile. [Sanhueza, Sergio] Univ Frontier, Ctr Excellence Translat Med, Fac Med, Temuco 4781176, Chile. [Giacaman, Annesi; Acosta-Jamett, Gerardo; Verdugo, Cristobal] Univ Austral Chile, Inst Vet Prevent Med, Fac Vet Sci, Valdivia 5090000, Chile. [Acosta-Jamett, Gerardo; Verdugo, Cristobal; Verdugo, Claudio] Univ Austral Chile, Ctr Surveillance & Evolut Infect Dis, Valdivia 5090000, Chile. [Plaza, Anita; Verdugo, Claudio] Univ Austral Chile, Inst Anim Pathol, Fac Vet Sci, Valdivia 5090000, Chile. [Selman, Carolina] Arturo Lopez Perez Fdn, Santiago 7500921, Chile. [Verdugo, Ricardo Alejandro] Univ Talca, Inst Interdisciplinary Res, Talca 3460000, Chile. [Verdugo, Ricardo Alejandro] Univ Talca, Sch Med, Talca 3460000, Chile. C3 Universidad de Chile; Universidad de Chile; Universidad Austral de Chile; Universidad Austral de Chile; Universidad Austral de Chile; Universidad de Magallanes; Universidad de Magallanes; Universidad de Tarapaca; Universidad de Chile; Universidad de Antofagasta; Universidad de Antofagasta; Universidad de Antofagasta; Universidad de Antofagasta; Universidad de Atacama; Universidad de Chile; Universidad de Chile; Universidad de Chile; Universidad de Chile; Universidad de Concepcion; Universidad Austral de Chile; Universidad Austral de Chile; Universidad Austral de Chile; Universidad de Talca; Universidad de Talca
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