Genome Sequences of Three SARS-CoV-2 P.1 Strains Identified from Patients Returning from Brazil to Italy

Compagni, Emiliano Delli; Jurisic, Lucija; Caporale, Marco; Bacà, Federico; Scialabba, Silvia; Fanì, Sara; Perullo, Alessia; Toro, M. García del; Marchegiano, Alice; Martino, Michele; Giacomo, Daniela Di; Romualdi, Teresa; Verzulli, Serena; Ciarrocchi, Eugenia; Secondini, Barbara; Giuseppe, M. Di; Irelli, Roberta; Lorenzo, Alessio Di; Valleriani, Fabrizia; Berjaoui, Shadia; Puglia, Ilaria; Curini, Valentina; Mangone, Iolanda; Lorusso, Alessio

doi:10.1128/mra.00177-21

Cited by 5 publications

(7 citation statements)

References 10 publications

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“…Thus, the surge of P.1 in this area strongly implies the possibility of reinfection [ 9 ]. An earlier study reported the presence of P.1 in three returning travelers from Brazil to Abruzzo sampled on 18 January 2021 [ 23 ], although we show here that this small cluster did not lead to (detectable) subsequent transmission events. A second study reported the presence of P.1 in a returning traveler from Brazil [ 28 ].…”

Section: Discussioncontrasting

confidence: 71%

“…The B.1.1.7 lineage appeared in all three areas within a five-day period, first in Central Italy (14 December) and five days later in both the North and South (19 December for both lineages) ( Figure 1 b). The first P.1 sequences were identified on 7 January 2021 in Central Italy in travelers returning from Brazil [ 23 ]. This lineage was subsequently found on 21 January and 12 February in North and South Italy, respectively.…”

Section: Resultsmentioning

confidence: 99%

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Emergence and Spread of SARS-CoV-2 Lineages B.1.1.7 and P.1 in Italy

Giallonardo

Puglia

Curini

et al. 2021

Viruses

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Italy’s second wave of SARS-CoV-2 has hit hard, with more than three million cases and over 100,000 deaths, representing an almost ten-fold increase in the numbers reported by August 2020. Herein, we present an analysis of 6515 SARS-CoV-2 sequences sampled in Italy between 29 January 2020 and 1 March 2021 and show how different lineages emerged multiple times independently despite lockdown restrictions. Virus lineage B.1.177 became the dominant variant in November 2020, when cases peaked at 40,000 a day, but since January 2021 this is being replaced by the B.1.1.7 ‘variant of concern’. In addition, we report a sudden increase in another documented variant of concern—lineage P.1—from December 2020 onwards, most likely caused by a single introduction into Italy. We again highlight how international importations drive the emergence of new lineages and that genome sequencing should remain a top priority for ongoing surveillance in Italy.

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Section: Discussioncontrasting

confidence: 71%

Section: Resultsmentioning

confidence: 99%

Emergence and Spread of SARS-CoV-2 Lineages B.1.1.7 and P.1 in Italy

Giallonardo

Puglia

Curini

et al. 2021

Viruses

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“…Furthermore, P.1 is still disseminating in all Brazilian regions as well as in other countries. 5,7,30,39,40 P.1 and P2 lineages have become predominant because of the high dissemination in the last months as clearly demonstrated in both skyline plots in this study. Also, the rates of nucleotide and amino acid substitutions were statistically higher in the P.1 lineage than P.2, suggesting a potential for greater transmissibility for the P.1 lineage.…”

Section: Discussionsupporting

confidence: 62%

“…Two main SARS-CoV-2 VOIs, P.1 and P.2, were discovered through active genomic surveillance performed in all regions of the country, both characterized by specific sets of significant amino acid substitutions: L18F, T20N, P26S, D138Y, R190S, K417T, E484K, N501Y, H655Y, and T1027I. 7,18,20,24,[39][40][41] In addition, both VOIs rapidly spread in the last 6 months. 7,8,19,20,24,[41][42][43] P.2 was first detected in July 2020 and represented 20% of all sequenced SARS-CoV-2 from this month until February 2021.…”

Section: Discussionmentioning

confidence: 99%

Temporal spread and evolution of SARS‐CoV‐2 in the second pandemic wave in Brazil

Wolf

Kipper

Borges

et al. 2021

Journal of Medical Virology

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Severe acute respiratory syndrome coronavirus-2 (SARS-CoV-2) pandemic spread rapidly and this scenario is concerning in South America, mainly in Brazil that presented more than 21 million coronavirus disease 2019 cases and 590 000 deaths.The recent emergence of novel lineages carrying several mutations in the spike protein has raised additional public health concerns worldwide. The present study describes the temporal spreading and evolution of SARS-CoV2 in the beginning of the second pandemic wave in Brazil, highlighting the fast dissemination of the two major concerning variants (P.1 and P.2). A total of 2507 SARS-CoV-2 whole-genome sequences (WGSs) with available information from the country (Brazil) and sampling date (July 2020-February 2021), were obtained and the frequencies of the lineages were evaluated in the period of the growing second pandemic wave. The results demonstrated the increasing prevalence of P.1 and P.2 lineages in the period evaluated. P.2 lineage was first detected in the middle of 2020, but a high increase occurred only in the last trimester of this same year and the spreading to all Brazilian regions. P.1 lineage emerged even later, first in the North region in December 2020 and really fast dissemination to all other Brazilian regions in January and February 2021. All SARS-CoV-2 WGSs of P.1 and P.2 were further separately evaluated with a Bayesian approach. The rates of nucleotide and amino acid substitutions were statistically higher in P.1 than P.2 (p < 0.01). The phylodynamic analysis demon-

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“…Nasopharyngeal swab specimens were collected in the Abruzzo region between March and May 2021, and they were sent to the Istituto Zooprofilattico Sperimentale dell’Abruzzo e Molise (IZSAM) for SARS-CoV-2 RNA detection prior to genome sequencing ( 11 ). The SARS-CoV-2 diagnosis procedure was performed as previously described ( 12 ). An aliquot of 200 μl inactivated nasopharyngeal swab transport medium was employed for RNA extraction.…”

Section: Announcementmentioning

confidence: 99%