What we know about the new coronavirus variant detected in South Africa

November 26, 2021
What we know about the new coronavirus variant detected in South Africa


Global authorities have reacted with alarm to a coronavirus variant detected in South Africa, with the EU, Britain and India among those announcing stricter border controls as scientists seek to determine if the mutation is vaccine-resistant.

Where and when was the new variant found?

South African scientists doing genomic sequencing detected the new variant — called B.1.1.529 — on Tuesday, in samples from Nov. 14-16.

On Wednesday, South African scientists sequenced more genomes, informed the government that they were concerned and asked the World Health Organization to convene its technical working group on virus evolution for Friday.

The country has identified around 100 cases of the variant, mostly from its most populated province, Gauteng.

Where else has it been identified?

South African scientists say early signs from diagnostic laboratories suggest it has spread rapidly in Gauteng and may already be present in the country’s other eight provinces.

The country’s daily infection rate nearly doubled on Thursday to 2,465. South Africa’s National Institute for Communicable Diseases (NICD) did not attribute the resurgence to the new variant, though local scientists suspect it is the cause.

Botswana detected four cases, all foreigners who arrived on a diplomatic mission and have since left the country.

People wait to get vaccinated at a shopping mall in Johannesburg on Friday. Advisers to the World Health Organization are holding a special session to flesh out information about a worrying new variant of the coronavirus that has emerged in South Africa. (Denis Farrell/The Associated Press)

Hong Kong has one case, in a traveller from South Africa, and Israel has one in a traveller returning from Malawi.

The variant is relatively easy to distinguish in PCR tests from delta, the dominant COVID-19 variant and the most infectious so far. Unlike delta, it has a mutation known as the S-gene drop-out.

Why is it worrying scientists?

All viruses — including SARS-CoV-2, the virus that causes COVID-19 — change over time. Most changes have little or no impact on their properties.

However, some changes may affect how easily they spread, their severity or the performance of vaccines against them.

This one has drawn scrutiny because it has more than 30 mutations of the spike protein that viruses use to get into human cells, U.K. health officials say.

That is about double the number of delta, and makes this variant substantially different from the original coronavirus that current COVID vaccines were designed to counteract.

South African scientists say some of the mutations are associated with resistance to neutralizing antibodies and enhanced transmissibility, but others are not well understood, so its full significance is not yet clear.

People line up to get on an Air France flight to Paris at OR Tambo International Airport in Johannesburg on Friday. A slew of nations moved to implement flight bans on Friday in reaction to news of the new, potentially more transmissible coronavirus variant. (Jerome Delay/The Associated Press)

U.K. Health Security Agency Chief Medical Adviser Dr. Susan Hopkins told BBC radio some mutations had not been seen before, so it was not known how they would interact with the other ones, making it the most complex variant seen so far.

So more tests will be needed to confirm if it’s more transmissible, infectious or can evade vaccines.

The work will take a few weeks, the World Health Organization’s technical lead on COVID-19, Maria van Kerkhove, said on Thursday. In the meantime, vaccines remain a critical tool to contain the virus.

No unusual symptoms have been reported following infection with the B.1.1.529 variant and, as with other variants, some individuals are asymptomatic, South Africa’s NICD said.

What has the World Health Organization said?

The UN agency will decide if it should be designated a variant of interest or variant of concern. The latter label would be applied if there is evidence that it is more contagious and vaccines work less well against it, and it would be given a Greek name.

The WHO has so far identified four variants “of concern” — alpha, beta, gamma and delta.

Two variants of interest are lambda, identified in Peru in December 2020, and mu, identified in Colombia in January.

What has Canada said?

It was not yet clear what, if anything, Canadian health officials might do in response to news of the new variant. In brief remarks on Friday, Transport Minister Omar Alghabra said discussions are ongoing — and urged Canadians to get vaccinated and follow public health advice.

Canada’s top doctor, Theresa Tam, and other officials are expected to hold a briefing on COVID-19 later in the day.

In a media statement, Conservative Leader Erin O’Toole urged the federal government to ban all non-essential travel to and from southern Africa.


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