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. 2022 Dec 2;12(12):2001.
doi: 10.3390/jpm12122001.

SARS-CoV-2 Variants in COVID-19 Disease: A Focus on Disease Severity and Vaccine Immunity in Patients Admitted to the Emergency Department

Marta Fogolari  1   2 , Maria Francesconi  1   2 , Lucia De Florio  1   2 , Marta Giovanetti  3   4 , Roberta Veralli  1   5 , Cecilia De Flora  1   2 , Antonello Maruotti  6 , Fabio Scarpa  7 , Silvia Spoto  8 , Federica Sambuco  9 , Elisabetta Riva  1   5 , Massimo Ciccozzi  1   10 , Silvia Angeletti  1   2
Affiliations

SARS-CoV-2 Variants in COVID-19 Disease: A Focus on Disease Severity and Vaccine Immunity in Patients Admitted to the Emergency Department

Marta Fogolari et al. J Pers Med. .

Abstract

Tracking SARS-CoV-2 variants along with vaccinations are fundamental for severe COVID-19 disease prevention. A study was performed that focused on 43 patients with the SARS-CoV-2 infection who were admitted to the Emergency Department. RT-PCR-positive nasopharyngeal samples were sequenced using the MiSeq II system for variant detection. The main reason for Emergency Department admission was COVID-19 (67%), followed by other causes (33%); 51% patients were unvaccinated or vaccinated with a single dose and 49% had completed the vaccination course with two or three doses. Among the vaccinated group, 38% were admitted for COVID-19, versus 94.5% of the unvaccinated group. After admission, 50% of the vaccinated group and 36% of the unvaccinated group were discharged and allowed to go home, and 80% of the unvaccinated had no major comorbidities; 63% needed hospital admission and 5% required a stay in the Intensive Care Unit. Of these, 37% were vaccinated with 3 doses, 11% with two doses, 4% with a single dose, and 48% were unvaccinated. The 70% of the vaccinated patients who were admitted to hospital presented major comorbidities versus 38% of the unvaccinated group. Two unvaccinated patients that needed intensive care had relevant comorbidities and died. Genome sequencing showed the circulation of three omicron and two pure sub-lineages of omicron, including 22 BA.1, 12 BA.1.1, and 7 BA.2. Data showed the SARS-CoV-2 national and international migration patterns and how vaccination was useful for severe COVID-19 disease prevention.

Keywords: COVID-19; SARS-CoV-2; VOC; omicron; sequencing; vaccination.

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Conflict of interest statement

The authors declare no conflict of interest.

Figures

Figure 1
Figure 1
Causes for Emergency Department admission in the study population.
Figure 2
Figure 2
Genome coverage plotted against the mean threshold value of the RT-PCR cycle (CT score); colors represent different omicron sub-lineages (panel A). Frequency and distribution of the SARS-CoV-2 omicron sub-lineages from the whole-genome sequences generated within the study (panel B).
See this image and copyright information in PMC

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