BREAKING! Brazil Reports Emergence Of A Recombined Variant As A Result Of A Co-Infection Involving the Delta Subvariant AY.33 With Gamma Variant P.1
Source: Recombinant Variants Dec 26, 2021 2 years, 10 months, 3 weeks, 6 days, 11 hours, 50 minutes ago
Recombinant Variants: Researchers from Brazil have reported the emergence of a new SARS-CoV-2 variant that emerged as a result of a recombinant event involving a human host that was co-infected with both the Delta AY.33 subvariant and the Gamma P.1 variant.
Have A Heart And Do Not Ignore This Appeal For Help! Please help us this Christmas. Support this website and also our research and community initiatives by making a donation. Your help saves lives directly and indirectly. Thank You.
https://www.thailandmedical.news/p/sponsorship
Although it was just one isolated case involving intra-host SARS-CoV-2 recombination during a coinfection by the variants of concern, the case report highlights the seriousness of more such recombinant events taking place as more Delta subvariants are emerging and spreading globally while the Omicron variant is also fast enveloping most countries. To make matters worse, there are still clusters of various other old and also emerging variants scattered across the globe and because of the ease at which coronaviruses recombine, the probability of newer and maybe more concerning recombinant variants emerging is very high.
The case report involving the recombination of the Delta AY.33 variant with the Gamma variant P.1 in a human host as a result of co-infection was published on a preprint server and is currently being peer reviewed.
https://www.researchsquare.com/article/rs-1159806/v1
Ever since the first reports of patients coinfected by two genetically-distinct lineages of SARS-CoV-2 emerged, the scientific community raised concerns about the recombination of intra-host viral RNA sequences as a possible mechanism underlying the debut of novel variants.
Typically, viral recombination events occur at a relatively high frequency among betacoronaviruses. Nevertheless, the few existing studies about recombination between genetically-distinct lineages of SARS-CoV-2 are restricted to detect the inter-host dissemination of genomes post-recombination events.
However, the high genomic similarity between the current co-circulating lineages challenges the identification of these events.
The
Recombinant Variants study team from Brazil reports the first case of intra-host SARS-CoV-2 recombination during a coinfection by the variants of concern (VOC) AY.33 (Delta) and P.1 (Gamma) supported by sequencing reads harboring a mosaic of lineage-defining mutations.
In late July, a 32-year-old male with mild flu-like symptoms of fever, headache, cough, fatigue, and sore throat was referred to the Santo Antônio de Pádua municipal health department in the northeastern region of the state of Rio de Janeiro, Brazil. After two days from the onset of symptoms, the diagnosis of COVID-19 was confirmed by SARS-CoV-2 reverse transcriptase polymerase chain reaction (RT-PCR) assay of a nasopharyngeal swab. Given the mild symptoms, no hospitalization
was required and the patient was quarantined at home. The patient did not report any comorbidities and had not been vaccinated by the time the sample was collected.
Whole-genome sequencing analysis detected 73 intra-host single nucleotide variants (iSNVs) with allele frequency > 5% and depth > 100 reads. Of these, 26 were lineage-defining mutations exclusively found in the variant of concern (VOC) Gamma (P.1) and 32 were from Delta AY.33. By using a hypergeometric distribution approach1, the study team estimated an overall haplotype frequency of approximately 16% and 82% for Delta and Gamma, respectively. Nevertheless, two iSNVs characteristic of VOC Delta (ORF1ab: I1091V - AF = 94%; and ORF7b: T40I - AF = 70%) were found with a high frequency in our analysis, suggesting that some genomic copies from Gamma haplotype could also harbor the same mutations.
Have A Heart And Do Not Ignore This Appeal For Help! Please help us this Christmas. Support this website and also our research and community initiatives by making a donation. Your help saves lives directly and indirectly. Thank You.
https://www.thailandmedical.news/p/sponsorship
The study team then sought to investigate the occurrence of within-host recombination events between the two lineages using next-generation sequencing.
In theory, mutations characteristic of Gamma should be kept in different reads from those defining mutations of Delta. The team divided the SARS-CoV-2 genome into windows with at least 100 nucleotides, which is smaller than the read length of the Illumina COVIDSeq Test (Illumina) sequencing kit used in this study.
By utilizing next-generation sequencing reads intersecting regions that simultaneously overlap lineage-defining mutations from Gamma and Delta, the study team was able to identify a total of six recombinant regions across the SARS-CoV-2 genome within a sample. Four of them mapped in the spike gene and two in the nucleocapsid gene.
The study team detected mosaic reads harboring a combination of lineage-defining mutations from each VOC.
To their knowledge, this is the first report of intra-host RNA-RNA recombination between two lineages of SARS-CoV-2, which can represent a threat to public health management during the COVID-19 pandemic due to the possibility of the emergence of viruses with recombinant phenotypes.
The study team did not detect the circulation of recombinant sequences in the state, so far. However, Gamma and Delta variants were notable by causing an elevated number of Covid-19 cases and deaths in Brazil and worldwide, respectively. Both VOC are known to enhance SARS-CoV-2 transmissibility and induce an immune-scape response. Therefore, recombination between both sequences could represent the emergence of novel variants of concern with new phenotypic combinations.
Have A Heart And Do Not Ignore This Appeal For Help! Please help us this Christmas. Support this website and also our research and community initiatives by making a donation. Your help saves lives directly and indirectly. Thank You.
https://www.thailandmedical.news/p/sponsorship
For the latest on
Recombinant Variants, keep on logging to Thailand Medical News.
It was fortunate that the garbage Indian media did not get hold of this research first or else just like the fake news that they were spreading about the emergence of the Delmicron variant which is non-existence as of now, the garbage Indian media and ‘experts’ would have labelled this new recombined variant as the
GAY Variant ie
Gamma plus
AY.33 plus also considering that patient in question was also a gay male.
https://www.thailandmedical.news/news/delmicron-strain-is-not-in-existence-yet-garbage-indian-media-and-so-called-ignorant-indian-experts-spreading-fake-news
