UK: Delta with K417N – the “mountaineers” variant – PHE #coronavirus Delta-AY.1 update

Of the 36 cases of Delta-AY.1 (mountaineers) variant, 27 cases were known to have a vaccination status within the National Immunisation Management System (NIMS). 

“Through routine scanning of variation in Delta a small number of sequences were detected which had acquired the spike protein mutation K417N. Information suggests that there are at least 2 separate clades of Delta with K417N. One clade is large and internationally distributed with PANGO lineage designation AY.1. A second clade found in sequences uploaded to GISAID from the USA. There is limited epidemiological information available at present.

International Epidemiology
As of 7 June 2021, 63 genomes of Delta with K417N have been identified on GISAID. from Canada (1) Germany (1), Russia (1), Nepal (2), Switzerland (4), India (6), Poland (9), Portugal (12), Japan (13), USA (14).

Epidemiology
There are currently 36 cases of Delta-AY.1 in England (35 confirmed sequencing and 1 probable genotyping) plus an additional 10 sequences which include some cases in other UK nations and some genomes for which case data is being sought. The first 5 cases were sequenced on 26 April 2021 and were contacts of travellers to Nepal and Turkey. All these cases were detected in the West Midlands. Cases have been detected in 6 different regions in England (Table 21, Figure 26). The majority of cases are in younger individuals, with 2 cases of age 60 or over (Figure 27). Out of the 36 cases, there were 11 travel associated cases (6 travellers and 5 cases amongst contacts of travellers). Twelve cases have no history of travel or contact with travellers. Countries of travel included red-list countries (Nepal and Turkey), amber-list countries (Malaysia) and green-list countries (Singapore).

Of the 36 cases, 27 cases were known to have a vaccination status within the National Immunisation Management System (NIMS), when linked on NHS number. Of these, 18 cases occurred in people who were not vaccinated, 2 cases in people who had received their first dose within 21 days of specimen date, 5 cases in people who had received their  first dose more than 21 days after specimen date. There was a total of 2 cases where there were more than 14 days between the second dose of vaccine and a positive specimen. No deaths have been recorded amongst the 36 cases.”

PHE download – SARS-CoV-2 variants of concern and variants under investigation in England  – Technical briefing 15 (PDF)

 

UK: The “mountaineers variant” – B.1.617.2 with K417N mutation

 

UK: “Everest climbers could have spread potentially more infectious and vaccine resistant’ variant

 

 

Image by Simon from Pixabay

EU: ECHR throws fuel on the #coronavirus vaccination fire – backs mandatory jabs for kids

The European Court of Human Rights ruled on Thursday that democratic governments can make vaccinations obligatory, in a landmark judgement rejecting complaints brought by Czech families penalised for refusing compulsory jabs for their children.

“The… measures could be regarded as being ‘necessary in a democratic society'” the court ruled, saying that the Czech health policy was consistent with the “best interests” of children.

Our opinion: ** Is there an easier or quicker way of antagonising parents in the middle of a global viral pandemic than encouraging mandatory vaccinations? We can’t think of one. Expect severe blowback **

MedicalExpress.com report

 

Photo by CDC on Unsplash

Rapid rise of #coronavirus SARS-CoV-2 spike mutation T478K found in Mexico and several European countries

We report the distribution of the Spike mutation S:T478K and its recent growth in prevalence in the SARS-CoV-2 population. While there is currently no report of association of this variant with clinical features, S:T478K’s rapid growth may indicate an increased adaption of SARS-CoV-2 variants carrying it, particularly lineage B.1.1.222.

The distribution of this mutation is higher in North America, but we could detect it also in several European countries. The location of S:T478K in the interaction complex with human ACE2 may affect the affinity with human cells and therefore influence viral infectivity.

We detected this growth starting at the beginning of 2021, and S:T478K is, at the time of writing (March 26, 2021) characterizing almost 2.0% of all sequenced SARS-CoV-2

An in silico molecular dynamics study on the protein structure of Spike has predicted that the T478K mutation, substituting a non-charged amino acid (Threonine) with a positive one (Lysine) may significantly alter the electrostatic surface of the protein, and therefore the interaction with ACE2, drugs or antibodies, and that the effect can be increased if combined by other co-occurring Spike mutations.

Another experiment showed that T478K and T478R mutants were enriched when SARS-CoV-2 viral cultures were tested against weak neutralizing antibodies, highlighting, at least in vitro, a possible genetic route the virus can follow to escape immune recognition. Everything considered, we believe that the continued genetical and clinical monitoring of S:T478K and other Spike mutations is of paramount importance to better understand COVID-19 and be able to better counteract its future developments.

Biorxiv preprint

 

Image by Makalu from Pixabay

EMA: If you have these symptoms after vaccination with AstraZeneca #coronavirus serum seek medical help immediately

“Wheezing, chest or stomach pain, swelling or coldness in an arm or leg, severe headache or worsening or blurred vision after vaccination, persistent bleeding, small multiple bruises, reddish or purplish spots or blisters of blood under the skin” – if you have these symptoms after vaccination against Covid with AstraZeneca serum seek medical help immediately and report that you have recently been vaccinated.

Il Giorno report

 

Image by Usman Yousaf from Pixabay

#SARSCoV2 may be transported by ambient particles especially at sites close to #Covid19 infection hot-spots

According to RT-PCR and 3D-RT-PCR analysis, dual RdRP and N1 gene positivity were detected in 20 (9.8 %) of the samples. The highest percentage of virus detection on PM [particulate matter] samples was from hospital gardens in Tekirdag, Zonguldak, and Istanbul, especially in PM2.5 mode. Samples collected from two urban sites were also positive. Findings of this study have suggested that SARS CoV2 may be transported by ambient particles especially at sites close to the infection hot-spots.

https://www.medrxiv.org/content/10.1101/2021.01.24.21250391v2

 

Image by kuanish Sarsenov from Pixabay