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Concern over the highly evolved omicron subvariant BA.2.86 is easing as the first batch of preliminary studies on the virus suggests it may not be as immune evasive or dangerous as its numerous mutations suggest.

But the good news is tempered by the latest COVID-19 data, which shows increasing rates of hospitalizations, emergency department visits, and deaths—all driven by the current gang of circulating omicron subvariants, led in the US by EG.5, FL.1.5.1 and XBB.1.16.6 . No single variant is dominant globally, though EG.5 is on the rise.

In the US, hospitalizations are up nearly 16 percent since last week, and deaths have risen almost 18 percent in that time. Test positivity is also on a steep incline, according to the latest Centers for Disease Control and Prevention data .

Enlarge / Transmission electron micrograph of a SARS-CoV-2 virus particle isolated from a patient sample and cultivated in cell culture. (credit: Getty | BSIP )

A remarkably mutated coronavirus variant classified as BA.2.86 seized scientists' attention last week as it popped up in four countries, including the US.

So far, the overall risk posed by the new subvariant is unclear. It's possible it could lead to a new wave of infection; it's also possible (perhaps most likely) it could fizzle out completely. Scientists simply don't have enough information to know. But, what is very clear is that the current precipitous decline in coronavirus variant monitoring is extremely risky.

In a single week, BA.2.86 was detected in four different countries, but there are only six genetic sequences of the variant overall —three from Denmark, and one each from Israel, the UK, and the US (Michigan). The six detections suggest established international distribution and swift spread. It's likely that more cases will be identified. But, with such scant data, little else can be said of the variant's transmission or possible distribution.

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For a fourth consecutive summer, COVID-19 is on the rise, though this year's warm-weather wave appears milder than those in the emergency period of the pandemic.

COVID-19 indicators of hospital admissions, emergency department visits, test positivity, and wastewater levels have all been increasing in the past month, with a peak not yet clearly in sight, according to data tracking by the Centers for Disease Control and Prevention. From June 10 to July 29, test positivity rose from 4.1 percent to 8.9 percent. For reference, the most recent winter wave had a peak test positivity of 10.6 percent on December 31, 2022.

On the brighter side, however, weekly COVID-19 hospital admissions and deaths continue to be at their lowest points since the start of the pandemic. For now, deaths do not appear to be rising, though there are lags in data reporting. Weekly new hospital admissions are ticking up only slightly—with admissions rising to about 8,000 in the week of July 22, up from around 6,300 the week of June 24.

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People in the US transmitted the pandemic coronavirus to white-tailed deer at least 109 times, and the animals widely spread the virus among themselves, with a third of the deer tested in a large government-led study showing signs of prior infection. The work also suggests that the ubiquitous ruminants returned the virus to people in kind at least three times.

The findings, announced this week by the US Department of Agriculture, are in line with previous research, which suggested that white-tailed deer can readily pick up SARS-CoV-2 from humans, spread it to each other , and, based on at least one instance in Canada, transmit the virus back to humans .

But the new study , led by the USDA's Animal and Plant Health Inspection Service (APHIS), provides a broader picture of deer transmission dynamics in the US and ultimately bolsters concern that white-tailed deer have the potential to be a virus reservoir. That is, populations of deer can acquire and harbor SARS-CoV-2 viral lineages, which can adapt to their new hosts and spill back over to humans, causing new waves of infection. It's conceivable that viruses moving from deer to humans could at some point qualify as new variants, potentially with the ability to dodge our immune protections built up from past infection and vaccination.

Enlarge / Security guards stand in front of the closed Huanan Seafood Wholesale Market in the city of Wuhan, in the Hubei Province, on January 11, 2020, where the Wuhan health commission said that the man who died from a respiratory illness had purchased goods. (credit: Getty | NOEL CELIS )

A group of independent, international researchers has released its full analysis of newly uncovered metagenomic data collected by the Chinese Centers for Disease Control and Prevention in January and February of 2020. The data closely links SARS-CoV-2 to the genetic tracks of wild animals, particularly raccoon dogs , sold at the Huanan Wholesale Seafood Market in Wuhan, China, the early epicenter of the COVID-19 pandemic, the group's analysis says.

The full analysis provides additional, compelling evidence that the pandemic coronavirus made its leap to humans through a natural spillover, with a wild animal at the market acting as an intermediate host between the virus' natural reservoir in horseshoe bats and humans. It was authored by 19 scientists, led by Michael Worobey, an evolutionary biologist at the University of Arizona; Kristian Andersen, a virologist at the Scripps Research Institute in California; and Florence Débarre, a theoretician who specializes in evolutionary biology at France's national research agency, CNRS.

Prior to the release of the full analysis late Monday, information on the findings was only made public through media reports and statements from the World Health Organization, which was briefed on the analysis last week. But, the raw metagenomic data behind the analysis is still not publicly available. It was briefly posted on a public genetic database called the Global Initiative on Sharing Avian Influenza Data (GISAID) as recently as earlier this month, and the international researchers were able to download it during that window of availability. But, administrators for the database quickly removed the data after its discovery, saying the removal was at the request of the submitter, a researcher at China CDC.

Enlarge / A raccoon dog at the Chapultpec Zoo in Mexico City on August 6, 2015. (credit: Getty | ALFREDO ESTRELLA/ )

Newly obtained genetic data from the Chinese Center for Disease Control and Prevention (China CDC) links the pandemic coronavirus SARS-CoV-2 to animals—specifically raccoon dogs—at the Huanan Seafood Wholesale Market in Wuhan, where the earliest COVID-19 cases centered, a group of independent scientists told the World Health Organization this week.

The genetic data came from environmental swabs collected at the market by China CDC in January of 2020. The existence of these swabs was previously known, as was the fact that they were positive for SARS-CoV-2 genetic material. But in late January of this year, scientists at China CDC uploaded—and then later removed—additional genetic data from these swabs to a public genetic database called GISAID, the WHO said. That additional data, which had not been previously disclosed, indicates that the SARS-CoV-2-positive swabs also contained genetic material from humans and animals, particularly large amounts of genetic material that closely matches that of raccoon dogs.

Raccoon dogs—foxlike animals whose faces closely resemble those of raccoons—are known to be susceptible to SARS-CoV-2 infection and were known to be sold at the market.

Enlarge / A microscope image of Streptococcus pyogenes , a common type of group A strep. (credit: Getty | BSIP )

In the wake of the COVID-19 pandemic and amid a tall wave of respiratory viruses, health officials in Colorado and Minnesota documented an unusual spike in deadly, invasive infections from Streptococcus bacteria late last year, according to a study published this week by the Centers for Disease Control and Prevention .

The spike is yet another oddity of post-pandemic disease transmission, but one that points to a simple prevention strategy: flu shots.

The infections are invasive group A strep , or iGAS for short, which is caused by the same group of bacteria that cause relatively minor diseases, such as strep throat and scarlet fever. But iGAS occurs when the bacteria spread in the body and cause severe infection, such as necrotizing fasciitis (flesh-eating disease), toxic shock syndrome, or sepsis. These conditions can occur quickly and be deadly.

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Surviving a bout of COVID-19 can significantly increase the risk of developing a range of long-term gastrointestinal symptoms and conditions—from constipation and diarrhea to chronic acid reflux, pancreatitis, and inflammation of the bile ducts—according to a study published this week in Nature Communications .

The study likely confirms what many long COVID patients already know all too well. But the analysis is among the largest and most comprehensive to evaluate the boost in relative and absolute risks, drawing on medical records from more than 11,652,484 people in the Department of Veterans Affairs databases.

The study was led by clinical epidemiologist Ziyad Al-Aly at the VA Saint Louis Health Care System in Saint Louis. With colleagues, Al-Aly examined medical records of over 154,000 people who had COVID-19 between March 2020 and January 2021. The researchers then compared the COVID survivors' rates of gastrointestinal problems in the year after their infection to the rates seen in two control cohorts. One was a contemporary cohort of over 5.6 million people who went from the March 2020 to January 2021 without any evidence of a COVID-19 infection. The other was of 5.8 million people who were tracked for a year before the pandemic, which served as a control for unreported COVID-19 cases in the contemporary cohort.