Trial study protocol and details of prior approval for human subjects research.

(PDF)</p

Sociodemographic, epidemiological, and clinical data of the 570 subjects included in the present study.

Sociodemographic, epidemiological, and clinical data of the 570 subjects included in the present study.</p

Results from RT-qPCR and BAT for the entire sample.

Results from RT-qPCR and BAT for the entire sample.</p

Full resource spectra for 48 mean positive samples and 48 negative samples.

Light red and light blue colors represent the "distribution" of the sample, while dark colors are the average result. Light gray (not an additional graphic) shows the blend of color shades, representing the standard deviation of the 48 samples mean for positive and negative groups.</p

Data source and results of BAT and TR-PCR to SARS-CoV-2.

(XLSX)</p

CONSORT 2010 checklist of information to include when reporting a randomised trial*.

(PDF)</p

ROC curve for the entire sample.

ROC curve for the entire sample.</p

Flow diagram for the BAT SARS-CoV-2 test validation.

Flow diagram for the BAT SARS-CoV-2 test validation.</p

Separation capabilities between clear and non-clear samples based on biomaterial spectral signatures, where the X-axis was the THz frequency range, and the Y-axis was the measurable index for differentiation ability (0.0 to 1.0).

Separation capabilities between clear and non-clear samples based on biomaterial spectral signatures, where the X-axis was the THz frequency range, and the Y-axis was the measurable index for differentiation ability (0.0 to 1.0).</p

Table_1_Molecular characterization of a new SARS-CoV-2 recombinant cluster XAG identified in Brazil.pdf

Recombination events have been described in the Coronaviridae family. Since the beginning of the SARS-CoV-2 pandemic, a variable degree of selection pressure has acted upon the virus, generating new strains with increased fitness in terms of viral transmission and antibody scape. Most of the SC2 variants of concern (VOC) detected so far carry a combination of key amino acid changes and indels. Recombination may also reshuffle existing genetic profiles of distinct strains, potentially giving origin to recombinant strains with altered phenotypes. However, co-infection and recombination events are challenging to detect and require in-depth curation of assembled genomes and sequencing reds. Here, we present the molecular characterization of a new SARS-CoV-2 recombinant between BA.1.1 and BA.2.23 Omicron lineages identified in Brazil. We characterized four mutations that had not been previously described in any of the recombinants already identified worldwide and described the likely breaking points. Moreover, through phylogenetic analysis, we showed that the newly named XAG lineage groups in a highly supported monophyletic clade confirmed its common evolutionary history from parental Omicron lineages and other recombinants already described. These observations were only possible thanks to the joint effort of bioinformatics tools auxiliary in genomic surveillance and the manual curation of experienced personnel, demonstrating the importance of genetic, and bioinformatic knowledge in genomics.</p