Persistence and Evolution of SARS-CoV-2 in an Immunocompromised Host.
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ABSTRACT:
SUBMITTER: Choi B
PROVIDER: S-EPMC7673303 | biostudies-literature | 2020 Dec
REPOSITORIES: biostudies-literature
Publications
Persistence and Evolution of SARS-CoV-2 in an Immunocompromised Host.
Choi Bina B Choudhary Manish C MC Regan James J Sparks Jeffrey A JA Padera Robert F RF Qiu Xueting X Solomon Isaac H IH Kuo Hsiao-Hsuan HH Boucau Julie J Bowman Kathryn K Adhikari U Das UD Winkler Marisa L ML Mueller Alisa A AA Hsu Tiffany Y-T TY Desjardins Michaël M Baden Lindsey R LR Chan Brian T BT Walker Bruce D BD Lichterfeld Mathias M Brigl Manfred M Kwon Douglas S DS Kanjilal Sanjat S Richardson Eugene T ET Jonsson A Helena AH Alter Galit G Barczak Amy K AK Hanage William P WP Yu Xu G XG Gaiha Gaurav D GD Seaman Michael S MS Cernadas Manuela M Li Jonathan Z JZ
The New England journal of medicine 20201111 23
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Project description:BackgroundSARS-CoV-2 is responsible for the ongoing global pandemic, and the continuous emergence of novel variants threatens fragile populations, such as immunocompromised patients. This subgroup of patients seems to be seriously affected by intrahost viral changes, as the pathogens, which are keen to cause replication inefficiency, affect the impaired immune system, preventing efficient clearance of the virus. Therefore, these patients may represent an optimal reservoir for the development of new circulating SARS-CoV-2 variants. The following study aimed to investigate genomic changes in SARS-CoV-2-positive immunocompromised patients over time.MethodsSARS-CoV-2-positive nasopharyngeal swabs were collected at different time points for each patient (patient A and patient B), extracted and then analyzed through next-generation sequencing (NGS). The resulting sequences were examined to determine mutation frequencies, describing viral evolution over time.Case presentationPatient A was a 53-year-old patient with onco-hematological disease with prolonged infection lasting for 51 days from May 28th to July 18th, 2022. Three confirmed SARS-CoV-2-positive samples were collected on May 28th, June 15th and July 4th. Patient B was 75 years old and had onco-hematological disease with prolonged infection lasting for 146 days. Two confirmed positive SARS-CoV-2 samples were collected at the following time points: May 21st and August 18th.ConclusionHeat map construction provided evidence of gain and/or loss of mutations over time for both patients, suggesting within-host genomic evolution of the virus. In addition, mutation polymorphisms and changes in the SARS-CoV-2 lineage were observed in Patient B. Sequence analysis revealed high mutational pattern variability, reflecting the high complexity of viral replication dynamics in fragile patients.
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