Nov 27, 2021: In response to the new variant outbreak growing in the southern part of the African continent, Europe as a unit, the US and many other countries, have limited travel from South Africa and adjacent countries.
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The World Health Network thanks South Africa for sounding the alarm and congratulates countries for responding rapidly, much faster and more decisively than with the original spread of the Coronavirus and the successive variants.
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The new variant has been rapidly growing in an expanding region of Johannesburg leading to an increase from 1% to 30% in positivity in just two weeks. This increase is likely due to both evasion of prior immunity as well as a higher underlying transmissibility.
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Locally the effective R value increased from less than 1 to almost 2 in less than a month
The variant has many more mutations than previous variants, at least 30 of which are reported to be associated with the spike protein, potentially allowing evasion of prior immunity..
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..whether due to infection or vaccination. Beta had three mutations in the critical receptor binding area, Delta had two, Omicron has ten.
An infected traveler to Hong Kong is reported to have infected another in a room across the hall...
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One of two travelers to Belgium came there infected from Egypt. Five infected travelers arriving in Israel included one arriving from Malawi. These travelers included transits in Turkey, Dubai, Ethiopia and Jordan.
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Although empirical data is still lacking, Omicron’s extensive mutations imply a high risk that this variant evades vaccine immunity, which would bring us back to square one, but with a much faster spreading virus.
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What is to be done to prevent Omicron from spreading?
Given that the Omicron variant may at least partially evade the protection offered by vaccines, it is important that all countries expand public health and social measures to limit COVID-19 transmission.
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The public must be warned about the importance of public health measures in addition to vaccination to safeguard their own health and family members’.
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These measures include mask use, ventilation and filtration and other airborne precautions, as well as physical distancing to reduce transmission; and testing and contact tracing to limit the size of clusters.
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It is crucial that all countries introduce risk-based border controls. These measures include:
Implementing travel restrictions from all countries with known or suspected cases.
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Introducing universal quarantine and at least 2 testings (at arrival and exit) for travel across borders, for example, requiring a minimum 10 days quarantined in a government facility, pre-travel PCR tests, and testing on arrival and during quarantine
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Expanding contact tracing to identify all persons who may have come in contact with the traveller since his/her entry through establishment of Omicron specific surveillance
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Creating awareness and increased voluntary disclosure of travel to affected countries, especially during the last two weeks, through involvement of Media.
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South Africa’s early warning should be acknowledged and help should be provided to them with the challenge of responding to the Omicron outbreak.
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Mystery: Why so high infection rate of passengers arriving in Amsterdam? 61/600 = ~10%
Especially since tested negative prior to departure.
Maybe families/groups pre-infected.
Maybe groups on prior connecting flights infected on the way.
Or, Maybe Omicron infects fast
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Attached is a comparison of Delta (orange) with prior variants (green) showing Delta has much more rapid onset of positive PCR test: about 10% of infections in two days.
If Omicron is even faster, perhaps waiting room or on same flight infections are responsible.
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It has been clarified that tests were not required before the flight. This makes it possible that there were a higher number of people who were infected before the flight. Still, the percentage is much higher than would be expected even in this case.
Japanese government: Japanese nationals traveling from Eswatini Zimbabwe Namibia Botswana South Africa Lesotho must quarantine at gov accommodations for 10 days and take COVID tests on 3rd, 6th, 10th days. Japan has not yet opened up to foreign nationals
“The last thing we need is to bring in a new variant that will cause even more problems,” German Health Minister Jens Spahn said. The member nations of the EU have experienced a massive spike in cases recently.
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"EU Commission President Ursula von der Leyen said flights will have to “be suspended until we have a clear understanding about the danger posed by this new variant, and travelers returning from this region should respect strict quarantine rules.”
Very rough estimate of Nu variant mortality is 8X original variant based upon the current rough estimate of transmissibility, assuming they track each other.
Corrections welcome.
(Figure type labeled Nu)
Error range (estimated in this way) is 3X-12X
Transmission rate depends significantly on the density of viral particles in airborne particles, which depends on the rate of generation of the virus. The severity of the disease also depends on the replication rate of the virus. Previous variants are consistent with this.
We do not know that the existing vaccines will prevent infection or severe disease. The extent of mutation indicates the opposite. Just as at the beginning of the COVID pandemic, uncertainty means risk should not be taken. Have we learned the lesson?
Infections we know about today happened a few days to two weeks ago.
Infections that happened today will only be known in a few days to two weeks from now.
Where should we stop travel from? Everywhere.
Only then will we stop it from getting most places.
Update on the new B.1.1.529 variant spreading rapidly in South Africa.
Cases are increasing nationally with R=1.47 after recent decline. Cases are not growing everywhere. They are growing particularly in Gauteng.
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Gauteng is a small province containing Johanesburg, the largest city in South Africa. The Test positivity has been at about 1% and is still at 1% in much of the province, but one area, Tshwane, has part with positivity at 30%.
This increase happened within two weeks.
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The estimated R value of the local increase is 1.93, significantly larger than the national value (1.47).