Genome Sequences of SARS-CoV-2 P.1 (Variant of Concern) and P.2 (Variant of Interest) Identified in Uruguay

Panzera, Yanina; Goñi, Natalia; Calleros, Lucía; Ramos, Natália; Frabasile, Sandra; Marandino, Ana; Tomás, Gonzalo; Techera, Claudia; Grecco, Sofía; Fuques, Eddie; Ramas, Viviana; Cóppola, Leticia; Flieller, María Rosa; Morel, Noelia; Cortinas, Maria-Noel; Mogdasy, Cristina; Arbiza, Juan; Delfraro, Adriana; Pérez, Ruben; Chiparelli, Héctor

doi:10.1128/mra.00410-21

Cited by 7 publications

(5 citation statements)

References 8 publications

(8 reference statements)

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“…11 crucial mutations in the spike protein, with 5 mutations within NTD (L18F, T20N, P26S, D138Y, R190S), 3 in RBD (K417T, E484K, N501Y), 2 in the C-terminal domain of S1 and near the furin cleavage site (D614G, H655Y), and 1 in S2 (T1027I) are reported (Fig. 6 C) [ 71 ]. K417T mutation may help the Gamma variant to latch onto cells.…”

Section: Emergence and Classification Of New Sars-cov-2 Variantsmentioning

confidence: 99%

Waves and variants of SARS-CoV-2: understanding the causes and effect of the COVID-19 catastrophe

et al. 2021

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Graphical abstract The coronavirus disease-19 has left a permanent mark on the history of the human race. Severe acute respiratory syndrome coronavirus-2 is a positive-sense single-stranded RNA virus, first reported in Wuhan, China, in December 2019 and from there took over the world. Being highly susceptible to mutations, the virus's numerous variants started to appear, and some were more lethal and infectious than the parent. The effectiveness of the vaccine is also affected severely against the new variant. In this study, the infectious mechanism of the coronavirus is explained with a focus on different variants and their respective mutations, which play a critical role in the increased transmissibility, infectivity, and immune escape of the virus. As India has already faced the second wave of the pandemic, the future outlook on the likeliness of a third wave with respect to the Indian variants such as kappa, delta, and Delta Plus is also discussed. This review article aims to reflect the catastrophe of the variants of SARS-CoV-2 and the possibility of developing even more severe variants in the near future.

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Section: Emergence and Classification Of New Sars-cov-2 Variantsmentioning

confidence: 99%

Waves and variants of SARS-CoV-2: understanding the causes and effect of the COVID-19 catastrophe

et al. 2021

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“…This variant spread outside of Brazil and was found in other nations around the world. For example, it was found in numerous locations in Italy, according to Di Giallonardo et al (2021), and was also discovered in Uruguay and Japan at the same time [189,190].…”

Section: Gammamentioning

confidence: 97%

Biological Properties of SARS-CoV-2 Variants: Epidemiological Impact and Clinical Consequences

Hoteit

Yassine

2022

Vaccines

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Severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) is a virus that belongs to the coronavirus family and is the cause of coronavirus disease 2019 (COVID-19). As of May 2022, it had caused more than 500 million infections and more than 6 million deaths worldwide. Several vaccines have been produced and tested over the last two years. The SARS-CoV-2 virus, on the other hand, has mutated over time, resulting in genetic variation in the population of circulating variants during the COVID-19 pandemic. It has also shown immune-evading characteristics, suggesting that vaccinations against these variants could be potentially ineffective. The purpose of this review article is to investigate the key variants of concern (VOCs) and mutations of the virus driving the current pandemic, as well as to explore the transmission rates of SARS-CoV-2 VOCs in relation to epidemiological factors and to compare the virus’s transmission rate to that of prior coronaviruses. We examined and provided key information on SARS-CoV-2 VOCs in this study, including their transmissibility, infectivity rate, disease severity, affinity for angiotensin-converting enzyme 2 (ACE2) receptors, viral load, reproduction number, vaccination effectiveness, and vaccine breakthrough.

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“…In Uruguay, the first COVID-19 case was detected on March 13rd, 2020, and restrictive measures including restriction of social gathering, closing of school and borders were immediately established. Thus, though several local outbreaks occurred, epidemic waves were avoided until October 2021, when cases started to increase steadily [40,41]. Most of the earlier outbreaks were reported from Rivera, a city bordering Brazil.…”

Section: Plos Onementioning

confidence: 99%

Wastewater surveillance of SARS-CoV-2 genomic populations on a country-wide scale through targeted sequencing

et al. 2023

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SARS-CoV-2 surveillance of viral populations in wastewater samples is recognized as a useful tool for monitoring epidemic waves and boosting health preparedness. Next generation sequencing of viral RNA isolated from wastewater is a convenient and cost-effective strategy to understand the molecular epidemiology of SARS-CoV-2 and provide insights on the population dynamics of viral variants at the community level. However, in low- and middle-income countries, isolated groups have performed wastewater monitoring and data has not been extensively shared in the scientific community. Here we report the results of monitoring the co-circulation and abundance of variants of concern (VOCs) of SARS-CoV-2 in Uruguay, a small country in Latin America, between November 2020—July 2021 using wastewater surveillance. RNA isolated from wastewater was characterized by targeted sequencing of the Receptor Binding Domain region within the spike gene. Two computational approaches were used to track the viral variants. The results of the wastewater analysis showed the transition in the overall predominance of viral variants in wastewater from No-VOCs to successive VOCs, in agreement with clinical surveillance from sequencing of nasal swabs. The mutations K417T, E484K and N501Y, that characterize the Gamma VOC, were detected as early as December 2020, several weeks before the first clinical case was reported. Interestingly, a non-synonymous mutation described in the Delta VOC, L452R, was detected at a very low frequency since April 2021 when using a recently described sequence analysis tool (SAM Refiner). Wastewater NGS-based surveillance of SARS-CoV-2 is a reliable and complementary tool for monitoring the introduction and prevalence of VOCs at a community level allowing early public health decisions. This approach allows the tracking of symptomatic and asymptomatic individuals, who are generally under-reported in countries with limited clinical testing capacity. Our results suggests that wastewater-based epidemiology can contribute to improving public health responses in low- and middle-income countries.

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Genome Sequences of SARS-CoV-2 P.1 (Variant of Concern) and P.2 (Variant of Interest) Identified in Uruguay

Cited by 7 publications

References 8 publications

Waves and variants of SARS-CoV-2: understanding the causes and effect of the COVID-19 catastrophe

Waves and variants of SARS-CoV-2: understanding the causes and effect of the COVID-19 catastrophe

Biological Properties of SARS-CoV-2 Variants: Epidemiological Impact and Clinical Consequences

Wastewater surveillance of SARS-CoV-2 genomic populations on a country-wide scale through targeted sequencing

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