How the spread of Omicron went from patient zero to all around the globe

Published

4 years ago

November 29, 2021

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The speed with which new variants of the COVID-19 virus spread around the world can leave government’s scrambling to catch up. What is sometimes more remarkable is the speed with which those new variants are detected.

It has taken barely two weeks from the initial testing of ‘patient zero’, before potentially the entire globe is readying itself to examine COVID test samples to see if they contain the Omicron variant.

Patient zero, called n=1 or the index case by the scientific community, arrived at Hong Kong International Airport on 11 November, having flown in from South Africa via Doha in Qatar, on flight QR818.

He had been in South Africa for almost three weeks, and had tested negative the day before he began his trip there.

On his return to the territory on the Qatar Airways flight, the 36-year-old was in seat 31A, and was showing no symptoms when he checked into the Regal Airport Hotel in Chek Lap Kok, to begin his mandatory quarantine. He also tested negative on his return.

Hong Kong has some of the most stringent regulations on arrival in the world.

Anyone coming from a “high-risk” country can only board flights for the territory if they are fully-vaccinated Hong Kong residents and even then they have to undergo compulsory isolation for 21 days in a designated quarantine hotel when they arrive.

While in quarantine, they must undergo six COVID tests and then they must monitor themselves for the following seven days, after which they are tested again 26 days after the day of their arrival.

The man in question had fulfilled all the requirements, having received the Pfizer vaccine on 13 May and 4 June, and outwardly there were no signs his case was anything unusual.

But two days into his quarantine, he was tested again, on 13 November, and after showing a high viral load was sent to hospital the next day.

Meanwhile, another passenger that had arrived in Hong Kong the day before the man who later became patient zero, was staying in a room opposite him on the fifth floor of the same quarantine hotel.

He tested negative twice before, on 18 November, a result showed he too had a high viral load and he was also rushed to hospital.

Like all arrivals who test positive after coming to Hong Kong, they were give case numbers – 12388 and 12404.

Early conclusions from Hong Kong’s health authorities were that case 12404 might have been infected with the variant as air flowed into the corridor when case 12388 opened his hotel room door as he was not wearing a surgical mask.

While the test results from the Hong Kong travellers were being analysed, other researchers in South Africa and Botswana were also looking into a newly emerging variant.

Just three days after the Hong Kong traveller went to his quarantine hotel, a number of people were being routinely tested in the South African province of Gauteng.

At around the same time, South Africa, and particularly Gauteng, began to see a sudden uptick in cases.

South African scientists began to come to the conclusion they were seeing something new after detecting a group of related SARS-CoV-2 viruses that were turning up in large numbers, compared to other variants.

Out of the specimens collected between 14 and 23 November, more than 70% were of the same type.

They raised the alarm on 22 November.

The next day the new variant was picked up by GISAID, the open-access database of flu viruses and coronavirus variants that has been critical to spreading news around the world about emerging forms of COVID-19.

On 24 November, it was given a new name under the criteria given to emerging COVID variants – B.1.1.529.

On the same day, the new variant was reported to the World Health Organisation, which convened its technical advisory group – similar to WHO’s equivalent to SAGE – to assess what should be done.

The UK, responding to the rapidly evolving situation, designated the virus type a variant under investigation, VUI-21NOV-01, on 25 November.

As it did so, cases in South Africa were shooting up.

Professor Sharon Peacock of COG-UK Genomics UK Consortium, which oversees sequencing in the UK, said on Friday: “The number of recorded COVID-19 infections on 16 November 2021 was 273 cases. By 25 November this had risen to more than 1,200 cases.

“More than 80% of these were from Gauteng province. Cases in Gauteng province initially appeared to be clustered, but over time there has been more widespread dispersal of infections across the province.

“An analysis of the R value (a measure of growth rate) is 1.47 for South Africa as a whole, but initial estimates for Gauteng province are 1.93. Based on this measurement, it indicates that growth rate of cases is considerably higher in Gauteng province than the rest of the country.

“Around 100 B.1.1.529 genomes have now been identified in South Africa, mostly from Gauteng province. But this region is also where the sequencing has been targeted, and the question is whether the variant is present over a wider geographic area.”

In total, according to the European Centre for Disease Control, South African investigators examined 77 samples in Gauteng taken between 12 and 20 November looking for a specific mutation that suggested Omicron was present, and found it in all cases.

The results, say the ECDC, suggest that Omicron is already dominant in Gauteng and is present in significant proportions in most parts of South Africa.

The question is, what does this mean for the rest of the world?

It is clear that Omicron has been in the UK for several days.

After one of the first cases in England was revealed to have been identified in Brentwood, Essex County Council said staff, customers and delivery workers who visited a branch of KFC on Brentwood High Street on Friday 19 November, between 1pm and 5pm, should take a PCR test immediately – suggesting a person with the variant was in the restaurant at the time.

Likewise, they asked anyone in the congregation of the town’s Trinity Church on Sunday 21 November to do the same.

Essex’s director of public health Dr Mike Gogarty told the BBC’s World At One programme that the person in question was tested on 20 November and has contracted the variant from someone who had been in contact with someone who had been to South Africa – in a clear case of community transmission.

He said: “We are talking probably about two weeks from now since that person returned from Africa.”

Both the UK cases identified on Saturday, which also included one in Nottingham, were linked to travel in South Africa. A third case in the London borough of Westminster, who had previously been in southern Africa, has since left the country.

But while South Africa, like the UK, has an effective system to sequence COVID test samples, many other countries in Africa do not.

Omicron has been detected early in Botswana, but there are concerns it may be widespread in several other nations in southern Africa.

Some 98 samples were sequenced in Botswana to allow the identification of six cases of Omicron by Friday, reported the ECDC, but in the same period countries like Kenya sequenced just five cases, with no Omicron cases.

Israel, one of the world’s most vaccinated countries, said on Friday it had also detected the country’s first case of Omicron in a traveller who had returned from Malawi. Two other suspected cases were also placed in isolation.

On that day, as the world became aware of the extent of the spread, markets reacted with oil prices plunging and airlines shares suffering major losses.

A case was also confirmed in Belgium and on Saturday suspected cases were reported in Germany, Italy and the Czech Republic.

Denmark and Australia announced two cases and the Netherlands identified 13 Omicron cases in dozens of COVID-positive travellers from South Africa on Sunday.

On Monday, further cases were announced in Portugal, where 13 players and staff members of Lisbon soccer team Belenenses were found to be positive for the variant even though only one player had been recently to South Africa.

Countries across the planet have reacted by closing their borders or reintroducing severe travel restrictions.

While scientists have raised the alarm, and have said they expected it to spread, many say there is no more cause for concern in terms of the impact on people, than there might have been if the Delta variant stays dominant.

Reacting to the news cases had been discovered in Scotland, Professor Rowland Kao, the Sir Timothy O’Shea Professor of Veterinary Epidemiology and Data Science at the University of Edinburgh, said: “It is now clear that the Omicron variant has been spreading around the world for some days, if not weeks prior to the alarms being raised, and this is only to be expected for a virus which transmits as easily as SARS-CoV-2, and with international travel now substantial (even though not quite at the level pre-pandemic).

“Evidence of community spread in two locations in Scotland (ie cases with no obvious risks other than community spread) and no obvious source yet, are strong indicators that we shall see more cases in Scotland arise over the next few days and weeks.

“As always, anything individuals can do to mitigate spread (physical distancing, taking lateral flow tests when appropriate and being aware of COVID symptoms and testing) will be beneficial.

“However it is important to remember that the omicron variant may not pose an increased health risk – it may in fact cause milder infections. However we shall only know for sure in the next few weeks.”

World

Fierce battle for frontline towns where Ukraine’s soldiers are surrounded

Published

8 hours ago

November 23, 2025

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Fierce battle for frontline towns where Ukraine's soldiers are surrounded

Footage geolocated by Sky News showed Russian soldiers walking through the Shakhtarskyi neighbourhood on the outskirts of Pokrovsk on Thursday.

The video sheds light on the situation in this key frontline area, as Russian forces slowly encroach on Myrnohrad, the satellite town to Pokrovsk, and one of its last remaining outposts.

Videos geolocated by Sky News show fighting intensifying in recent weeks, as Russian forces attempt to gain control of the towns and their network of road and rail intersections.

Gaining control here would give Russia a base from which to access key cities further north that form part of Ukraine’s “fortress belt”.

Russian forces are advancing from all directions, according to the Institute for the Study of War (ISW), with only one small opening to the northwest of Myrnohrad remaining.

Estimated to be only 3km wide by military experts, this withdrawal corridor is patrolled by Russian drone units which monitor the area for moving vehicles and those who may attempt to leave on foot.

Russian forces have been advancing on Myrnohrad since late October.

Video from a Ukrainian unit in Myrnohad, posted on 29 October, shows a Russian vehicle attempting to enter the town from the northeast. The tank is attacked and soldiers attempting to enter on foot are targeted.

Video posted on 3 November shows Russian forces on the ground in the south of the town.

By 8 November, Russian strikes begin to pummel the northeast of Myrnohrad, the location of many of the town’s high-rise buildings, at that time, held by Ukrainian forces.

George Barros, Russia Team & Geospatial Intelligence Team Lead at ISW, told Sky News that Russian strategy in Pokrovsk has been to erode Ukrainian logistical capacity using drones and artillery over the course of several months.

“After denying supply lines and degrading the frontline forces by essentially cutting them off from behind and starving them out in their positions, then the Russians move forward with their infantry and frontal assaults,” Barros explained.

Capture the flag

For a brief period, it looked as though Russian forces had captured Myrnohrad.

Videos posted on 13 November appeared to show a Russian flag flying over the Myrnohrad mine.

However, video posted the following day showed a Ukrainian drone shooting it down.

Both Russian and Ukrainian forces continue to fight for control of Myrnohrad, with videos posted on the 19 and 20 November showing Russian airstrikes on Ukrainian positions in the town, and Ukrainian drone strikes targeting Russian forces on foot.

While the exact numbers of Russian and Ukrainian forces in the area remains unclear, reports indicate that three key Russian units are active in Pokrovsk and Myrnohrad, and are advancing on the towns from the north and south.

A number of Ukrainian units remain inside the towns, including the 145th Assault regiment and the 32nd, 35th, 38th and 155th Brigades. Reports indicate that more Ukrainian units have been moved into surrounding areas to hold the withdrawal corridor open.

Sky News reached out to the Ukrainian brigades still in Myrnohrad, but they declined to comment, citing military regulations.

Strategic significance

Natia Seskuria, associate international security fellow at the Royal United Services Institute (RUSI), explained that the area is important for the Ukrainians to keep and the Russians to take because of its strategic position.

“Situated at a major road and rail intersection in Donetsk Oblast, Pokrovsk has functioned as a central artery for moving troops, equipment, and supplies to Ukrainian units deployed along the surrounding front.”

Russia “would gain a platform to redirect its offensive efforts toward Ukraine’s principal defensive urban centres… including Kramatorsk and Slovyansk,” Seskuria said.

Ukrainian and Russian soldiers in Pokrovsk have fought intensely and at close quarters over the last month.

In late October US-made Black Hawk helicopters containing specialist troops directed by Ukrainian military intelligence entered Pokrovsk to try to keep the town.

But as Russian troops advance, Myrnohrad is becoming the last stronghold of Ukrainian forces in the area.

Uncertain future

At least up until 12 November, there were still civilians living in Pokrovsk and Myrnohrad, despite strikes on buildings in both cities.

A post made on that day by the Donetsk state regional administration estimated 1,200 people remain living in Pokrovsk and 900 in Myrnohrad.

Evacuation is only possible with the help of the military or police, and it is not clear how many have evacuated in the 11 days since.

Barros of ISW says gaining Pokrovsk would increase Russia’s leverage at the negotiating table.

“If the Russians can successfully convince enough international leaders that, okay, the Russians took Pokrovsk, they’re going to take the next thing, and they’re going take the thing, so now let’s negotiate, then that is a strategic victory for the Russians.”

Production by Michelle Inez Simon, Visual Investigations Producer.

The Data x Forensics team is a multi-skilled unit dedicated to providing transparent journalism from Sky News. We gather, analyse and visualise data to tell data-driven stories. We combine traditional reporting skills with advanced analysis of satellite images, social media and other open source information. Through multimedia storytelling we aim to better explain the world while also showing how our journalism is done.

World

Torrential rain triggers deadly flooding and landslides in Vietnam

Published

8 hours ago

November 23, 2025

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Torrential rain triggers deadly flooding and landslides in Vietnam

Torrential rain, flooding and landslides has left more than 100 people dead or missing in Vietnam.

Rainfall has exceeded 74.8in (1.9 metres) in some parts of central Vietnam over the past week.

The region is a major coffee production belt and home to popular beaches, but it is also prone to storms and floods.

Fatalities have been reported in Dak Lak province and the neighbouring Khanh Hoa province.

Footage has been released by local police of a dramatic rescue, involving a drone which airlifted a stranded man to safety from an island in the middle of the Serepok River, Dak Lak province.

The government estimates the flooding has cost the economy around 8.98 trillion dong (£260m).

More than 235,000 houses were flooded and nearly 80,000 hectares of crops were damaged, Vietnam’s disaster agency said.

On Thursday, VietnamNet newspaper said that a suspension bridge on Da Nhim River in Lam Dong province had been swept away.

Video footage posted online showed the bridge being swallowed by the river in just a few seconds.

Naval forces have been deployed to help stranded citizens in Khanh Hoa, the Vietnam News Agency reported, adding that floodwaters had reached record highs in many areas.

Photos shared in state media reports showed residents, including children, sitting on the roofs of flooded houses in Khanh Hoa, Gia Lai and Dak Lak provinces.

A seven-year-old girl was rescued late on Wednesday in Da Lat, the capital of Lam Dong province, after being buried by a landslide, the Nhan Dan newspaper reported.

The landslide, triggered by heavy rain, knocked down and buried part of the house where the girl was staying.

She was pulled out after an hour and a half and was taken to hospital with a broken leg, according to the report.

World

Several airlines cancel Venezuela flights after ‘hazardous situation’ warning

Published

8 hours ago

November 23, 2025

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Several airlines cancel Venezuela flights after 'hazardous situation' warning

Three international airlines have cancelled flights departing from Venezuela after a “potentially hazardous situation” warning.

The US Federal Aviation Administration (FAA) on Saturday issued an alert to airlines flying over the country, citing the “worsening security situation and heightened military activity in or around Venezuela“.

The US is poised to launch a new phase of operations related to the South American nation in the coming days, four US officials said.

The exact timing or scope of the operations, as well as whether President Donald Trump has made the final decision to act, have not yet been established.

Brazil’s Gol, Colombia’s Avianca and TAP Air Portugal cancelled their flights from the capital, Caracas, in north Venezuela, on Saturday, according to Flightradar24 and the official website of Simon Bolivar Maiquetia International Airport.

TAP Air Portugal confirmed it cancelled flights scheduled for Saturday and next Tuesday.

“This decision follows information issued by the United States aviation authorities, which indicates that safety conditions in Venezuelan airspace are not guaranteed,” the airline said.

The Trump administration has been considering Venezuela-related options to tackle what it has portrayed as President Nicolas Maduro’s role in supplying illegal drugs that have killed Americans.

Venezuela’s president has denied having any links to the illegal drug trade.

Mr Maduro, who is celebrating his 63rd birthday on Sunday and has been in power since 2013, has claimed Mr Trump is looking to oust him and that Venezuelan citizens and the military will rally against any such attempt.

Aeronautica Civil de Colombia said in a statement there were “potential risks” of flying in the Maiquetia area “due to the deterioration of security conditions and increased military activity in the region”.

Spain’s Iberia also said it was cancelling its flights to Caracas from Monday until further notice.

Reports of looming action have been growing in recent weeks as the US military has deployed forces to the Caribbean, amid heightened tensions with Venezuela. The Pentagon referred questions to the White House and the CIA declined to comment.

There has been a huge US military build-up in the region, including the US Navy’s largest aircraft carrier, USS Gerald R Ford, at least eight other warships, and F-35 aircraft.

The build-up in the Caribbean has been rumbling on for months, and Mr Trump has authorised covert CIA operations in Venezuela.

The US plans on Monday to designate the Cartel de los Soles, a Venezuela-based alleged criminal group, a foreign terrorist organisation for what the US sees as its role in importing illegal drugs into America, officials said.