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New Omicron Offshoot BA.2 Arrives In U.S. After Spreading In U.K., Denmark,

Just as the Omicron wave may have broken across the U.S. comes word of another version of the more transmissible variant, dubbed BA.2. It’s been nicknamed by some “stealth Omicron,” because it seems to evade identification better than its predecessor.

While other new variants that seemed worrisome — like Mu or Lambda — have had little impact, and details are still sketchy, early indications are that BA.2 seems to be spreading even in countries where the original Omicron lineage, BA.1, is dominant.

In Denmark, a country whose Covid policies are often contrasted with the U.S., BA.2 now accounts for nearly half of the test samples sequenced. In the final week of December, according to data from Statens Serum Institut under the auspices of the Danish Ministry of Health, the subvariant accounted for 20% of all Covid cases in Denmark. By the second week of January, its share had risen to approximately 45% of the total.

“During the same period, the relative frequency of BA.1 has dropped,” according to a statement from the institute. “BA.1 and BA.2 have many differences in their mutations in the most important areas. In fact, the difference between BA.1 and BA.2 is greater than the difference between the original variant and the Alpha variant.”

An initial analysis instances of BA.2 in the country “shows no differences in hospitalisations,” according to SSI. It’s also unclear how effective the current vaccines are against the subvariant.

Great Britain, Norway, France, India and Sweden are also experiencing cases of the Omicron offshoot to lesser degrees, as is the U.S. See map below and a fuller list here.

National Institute of Infectious Diseases, South Africa

BA.2 “has been designated a variant under investigation” by the UK Health Security Agency. The new version of Omicron was first detected in the U.K. on December 6, 2021, per a HSA report. To date, there have been 426 confirmed cases, with the greatest concentration centered around London.

“Early analyses suggest an increased growth rate compared to BA.1, however, growth rates have a low level of certainty early in the emergence of a variant and further analysis is needed,” reads the report.

Those reports may be inaccurate, however, since U.K. officials suspect the offshoot may be harder to identify, since it does not display a telltale sign in PCR tests which has often indicated Omicron. While a PCR test would still come up with a general positive, such samples would need to be genomically sequenced, a much more costly and time-consuming process which is less common, to ID the specific variant involved.

“Omicron BA.2 lacks the genetic deletion on the spike protein which produces S-gene target failure (SGTF) in some polymerase chain reaction (PCR) tests, which has been used as a proxy for Omicron cases previously,” reads the U.K. document.

“[I] think likely scenario is BA.2 just exacerbates what the national Omicron situation is,” said Tom Peacock, a virologist at Imperial College London.

BA.2 has protein differences from BA.1, potentially dozens, as estimated by Peacock. See the accompanying chart from South African health officials for a general sense.

ba.1 ba.1 omicron
National Institute for Communicable Diseases, South Africa

There are varying reports about where BA.2 first emerged, with some suggesting South Africa, some suggesting India and some suggesting the Philippines.

It has also been found in the U.S., according to Sinclair Broadcasting’s Seattle station, KOMO News, which reported the Washington State Health Department has confirmed two cases of BA.2, which were “found earlier this month.”

“It’s too early to tell if we are going to see more cases of this variant,” WA health department spokesperson Shelby Anderson told the outlet. “So far, fewer than 100 confirmed BA.2 cases in the U.S. have been reported.”

At least three cases have been found at Houston’s Methodist Hospital, where genomic sequencing is more robust than elsewhere.

The U.S. does not identify BA.2 as its own sublineage, while the nor the World Health Organization now does.

One anonymous Biden administration official, however, told the Washington Post on Monday that “there is concern about the omicron BA.2 variant.” Because of the increase in cases overseas, the person said the U.S. is gearing up and “paying close attention to the BA.2 variant.” .

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