T. Ryan Gregory Profile picture
Jan 26, 2023 β€’ 14 tweets β€’ 6 min read β€’ Read on X
Hello Canada! πŸ‡¨πŸ‡¦

A few things you might not know about the pandemic...
🧡

1/
πŸ‡¨πŸ‡¦ Did you know that 2022 was the deadliest year of the pandemic in Canada?

thestar.com/news/analysis/…

2/
πŸ‡¨πŸ‡¦ Did you know that Canada recently passed 50,000 COVID deaths?

globalnews.ca/news/9414775/c…

3/
πŸ‡¨πŸ‡¦ Did you know that more Canadians have died of COVID than died in World War II?

(πŸ‡ΊπŸ‡Έ Also, did you know that more of our American neighbours have died of COVID than dies in combat in every war they've fought since 1775?)

4/ The number of confirmed COV...
πŸ‡¨πŸ‡¦ Did you know that the *lowest* number of COVID patients in hospital has been increasing through 5 waves of Omicron and that the troughs have all been higher than the *peak* of the Delta wave?

5/ Waves of hospitalizations i...
πŸ‡¨πŸ‡¦ Did you know that summer 2022 had twice as many deaths as summer 2021?

6/ There were twice as many de...Since summer 2022, wastewat...
πŸ‡¨πŸ‡¦ Did you know that the main issue with Omicron variants is no longer "tsunamis" caused by individual variants, but rising sea level with high and low tide? This imposes sustained pressure on the healthcare system.

(Image with area under the curve courtesy of @allard)

7/ Wastewater signal in Ontari..."Curve showing 5 waves...
πŸ‡¨πŸ‡¦ Did you know that 15% of Canadians infected with COVID (1.4 million people) report long-term symptoms?

www150.statcan.gc.ca/n1/daily-quoti…

8/
πŸ‡¨πŸ‡¦ Did you know that there are now more than 700 Omicron subvariants, and that many of them can escape prior immunity and are resistant to available treatments?

9/ Evolutionary relationships,...Evolutionary relationships,...Evolutionary tree showing t...
πŸ‡¨πŸ‡¦ Did you know that mitigation measures like high-quality (N95) masks worn properly, ventilation, air filtration, and avoiding high risk contact are all variant-proof?

10/
πŸ‡¨πŸ‡¦ Did you know that the pandemic is not over?

11/ Waves of hospitalizations i...
Quick note about the not-low lows of hospitalizations since Omicron. Same pattern happening in various places (New York, UK, France, Denmark, etc.).

Here's hospital *admissions for COVID* in England: Hospital admissions for COV...Hospitalizations in Canada,...Hospitalizations in New Yor...
Belgium, Italy, Switzerland, Japan, Australia, Israel... Hospitalizations in Japan. ...Hospitalizations in Austral...Hospitalizations in Israel....Hospitalizations in Italy, ...

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More from @TRyanGregory

Jun 24
Lower acute severity of SARS-CoV-2 vs. 2020-2022 is welcome, but there's a danger in reading too much into it, in the same way that it's misguided to deny climate change because it's been cold where you live.

A few thoughts as to why our optimism should be cautious.

🧡
1. The lower acute severity seen right now is very likely due to host immunity, not to a reduction in inherent virulence. That immunity comes from two sources: vaccination and past infection (or both, so-called "hybrid immunity").

Cont'd...
There are issues with relying on "hybrid immunity" to keep us safer from severe acute illness:

i. It doesn't necessarily stop transmission. More infections means more variant evolution, often specifically in the direction of increased immune escape. Increased immune escape over time
Read 12 tweets
Jun 23
Confused about the variants you're hearing about most right now? Here they are, explained. 🧡
XBB.1.5 ("Kraken")

What it is: A descendant of XBB, which was a recombinant between two BA.2 lineages.

Status: Not circulating anymore.

Why relevant: It is the variant targeted by current vaccine boosters. XBB.1.5 vs. XBB mutations. From cob-spectrum.org
BA.2.86 ("Pirola")

What it is: A highly divergent variant that evolved within a single host who was infected for a year. Descended from BA.2.

Status: Not circulating anymore.

Why relevant: Most of what is circulating now descended from it, having replaced the XBBs. BA.2.86 vs. BA.2 mutations. From cob-spectrum.org
Read 7 tweets
Jun 18
We have both continuous and continual SARS-CoV-2 variant evolution happening. What do I mean? 🧡
Viruses evolve at (at least) two levels: among hosts and within hosts. Among hosts, the main determinant of viral fitness (i.e., reproductive success and continued existence of that lineage) is getting into new hosts.
In very general terms, traits like transmissibility and infectiousness are under selection at the among-host (interhost) level. When there is some degree of immunity in the population, characteristics like immune escape also become very relevant to viral fitness.
Read 24 tweets
Jun 15
Is SARS-CoV-2 running out of evolutionary space? Is variant evolution slowing down? Is immune escape unlikely anymore? Let's explore. 🧡
Here are some phylogenies (evolutionary trees) of the major SARS-CoV-2 variant lineages from . One is in radial format, the other unrooted, but they show the same information and are both scaled to divergence (number of mutations). nextstrain.org

Evolutionary tree of SARS-CoV-2 variants, radial format, scaled to divergence. "Omicron" variants are vastly more divergent and diverse than the other variants that received Greek letters in 2021.
Evolutionary tree of SARS-CoV-2 variants, unrooted format, scaled to divergence. "Omicron" variants are vastly more divergent and diverse than the other variants that received Greek letters in 2021.
And here are some plots of mutations over time, again from . There is no sign of this rate of accumulation of mutations slowing down (if anything, more recent variants are above the trend line). nextstrain.org
Mutations over time for SARS-CoV-2 variants.
Read 9 tweets
May 19
When you're accustomed to extreme privilege, feeling uncomfortable becomes feeling unsafe, and those feelings become more important than other people's lives.
And that's the most generous explanation for why one of these bothers some folks way more than the other. There are far more disturbing explanations, of course.
The pro-Palestine encampment at the University of Toronto
Destruction of a neighbourhood in Gaza
β€œI have almost reached the regrettable conclusion that the Negro’s great stumbling block in the stride toward freedom is not the White Citizens Councilor or the Ku Klux Klanner but the White moderate who is more devoted to β€˜order’ than to justice.” - MLK

cnn.com/2022/01/15/opi…
Read 4 tweets
Apr 4
The best we get now is *relative* lows. Here are numbers of hospital patients with COVID in Canada. It's as low as it has been since the first Omicron wave (early 2022), on par with the relative lull of mid-summer 2023. But still much higher than summer 2020 and summer 2021. Hospitalizations in Canada
*Maybe* it will continue to drop as thr weather warms and if there are no new major variants that displace JN.1* in the meantime (fingers crossed, and wastewater signal is low), but the reality is that the baseline has never come back down in Canada post-Omicron.
Relative lows do not mean no risk, they mean less risk. If you've been putting off doing things while cases were higher, a relative low is a better (but again, not risk-free) time to do them than during a relative high, obviously.

Read 4 tweets

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