Dr Sikhulile Moyo was analysing Covid-19 samples in his lab in Botswana last week when he noticed they looked startlingly different from others.
Within days, the world was ablaze with the news that the coronavirus had a new variant of concern — one that appears to be driving a dramatic surge in South Africa and offering a glimpse of where the pandemic might be headed.
New cases in South Africa have burgeoned from about 200 a day in mid-November to more than 11,500 on Thursday. In the week since Omicron was detected in the country's most populous province, Gauteng, infections have surged 300 per cent, Health Minister Joe Phaahla said Friday.
The variant has also now spread to all eight other provinces, he added. Even with the rapid increase, infections are still below the 25,000 daily new cases that South Africa reported in the previous surge, in June and July.
Little is known about the new variant, but the spike in South Africa suggests it might be more contagious, said Moyo, the scientist who may have been the first to identify the new variant, though researchers in neighbouring South Africa were close on his heels. Omicron has more than 50 mutations, and scientists have called it a big jump in the evolution of the virus.
It's not clear if the variant causes more serious illness or can evade the protection of vaccines. Phaahla noted that only a small number of people who have been vaccinated have gotten sick, mostly with mild cases, while the vast majority of those who have been hospitalised were not vaccinated.
But in a worrisome development, South African scientists reported that Omicron appears more likely than earlier variants to cause reinfections among people who have already had a bout with Covid-19.
"Previous infection used to protect against Delta, and now with Omicron it doesn't seem to be the case," one of the researchers, Anne von Gottberg of the University of Witwatersrand, said at a World Health Organisation briefing on Thursday.
While the study did not examine the protection offered by vaccination, von Gottberg said: "We believe that vaccines will still, however, protect against severe disease."
The findings, posted online Thursday, are preliminary and haven't yet undergone scientific review.
South Africa's hospitals are so far coping with the surge, even those in Gauteng province, which accounts for more than 70 per cent of all new infections, Phaahla said.
The picture could change because most of those infected thus far have been younger people, who generally do not get as sick as older patients. But Moyo expressed hope that vaccines would continue to work against the variant.
"I have a lot of hope from the data that we see that those vaccinated should be able to have a lot of protection," he said.
That dovetails with what officials from WHO in Asia said Friday.
While warning that cases could well rise quickly because of Omicron, Dr Takeshi Kasai, WHO regional director for the Western Pacific, said the measures used against the Delta variant — which itself caused surges the world over — should remain at the core of the response.
"The positive news in all of this is that none of the information we have currently about Omicron suggests we need to change the directions of our response," Kasai said.
That means continuing to push for higher vaccination rates, abiding by social-distancing guidelines, and wearing masks, among other measures, said WHO Regional Emergency Director Dr Babatunde Olowokure.
While more than three dozen countries worldwide have reported Omicron infections, the numbers so far are small outside of South Africa. That has led many countries to race to impose travel restrictions on visitors from southern Africa — a move WHO officials said may buy some time, though the agency previously urged against the closing of borders.
The travel restrictions have been severely criticised by South Africa, which says it is being punished for being transparent and moving so quickly to alert the world to Omicron. WHO said it was notified by the country on November 24 about the new variant.
"What we must reemphasise is that while our scientists and those in Botswana were the first discover and report on the variant, no one knows where it originated," Phaahla said.