Trevor Bedford Profile picture
Aug 31, 2021 14 tweets 7 min read Read on X
I'm not an immunologist, but I've been trying to read into the literature on waning immunity to SARS-CoV-2 and to understand the recent NIH, CDC, FDA booster recommendation (hhs.gov/about/news/202…). I'll share some takeaways here. 1/14
Previous studies in other viruses found that the potency and the concentration of circulating antibodies in an individual is often predictive of their protection to infection or illness after exposure. 2/14
This potency + concentration is commonly quantified as the titer required to neutralize 50% of viral plaques in a lab assay. These assays are run by diluting sera from an individual and seeing what dilution causes loss of neutralization. 3/14
If you look at neutralization titers after immunization by either mRNA vaccine you'll see modest titers after the first dose, but substantial titers after the second dose. 2-4 weeks after second dose titers begin to decline (Doria-Rose et al nejm.org/doi/full/10.10…). 4/14 Image
The phase 3 trials had most endpoints collected between in the initial ~2-3 months after second doses were given, during which time titers would have been near their peak. 5/14
Gilbert et al (medrxiv.org/content/10.110…) looks at the degree to which an individual's titer during the Moderna phase 3 trial determined their risk of acquiring symptomatic COVID-19 illness, finding that breakthrough infections were associated with lower titers. 6/14 Image
A similar relationship is observed between average titer generated by a particular vaccine and its measured efficacy (Khoury et al nature.com/articles/s4159…), further suggesting that neutralization titer can be used to predict degree of protection from symptomatic illness. 7/14 Image
The question becomes whether a ~5-fold reduction in titer 6 months after second dose is enough to impact vaccine effectiveness. @IsraelMOH looks at this directly by measuring incidence in individuals vaccinated at different dates (figure by @FT ft.com/content/23cdbf…). 8/14 Image
There may be other confounders here, but the critical one of age is directly controlled for by looking at incidence and vaccination date across age groups. Also, keep in mind that the unvaccinated cohort contains individuals with immunity through natural infection. 9/14
Importantly, @IsraelMOH observes a large difference between symptomatic illness and hospitalization, where protection against symptomatic illness waned, while protection against hospitalization remained robust (figure from slide deck gov.il/BlobFolder/rep…). 10/14 Image
This result of differential waning between symptomatic illness and severe illness is replicated by Tartof et al (papers.ssrn.com/sol3/papers.cf…) looking at outcomes in a Kaiser Permanente cohort. 11/14 Image
Work by @rishirajgoel et al (biorxiv.org/content/10.110…) identifies a potential mechanism in which although antibody responses partially wane over 6 months, memory B cell responses show more durability. 12/14 Image
Memory response kicking in after breakthrough infection would explain results from Chia et al (biorxiv.org/content/10.110…) and from @StephenKissler et al (medrxiv.org/content/10.110…) showing that viral load declines more rapidly in vaccinated individuals. 13/14 ImageImage
Even if protection against severe outcomes remains robust, observed waning suggests that boosters will be necessary to reduce circulation. Delta has generated a late summer wave, but steady state is likely a winter "COVID season" with vaccination recommended beforehand. 14/14

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More from @trvrb

Dec 5, 2022
Currently, the US is reporting about 54k daily cases of COVID-19 (16 per 100k per capita) and the UK is reporting about 4k (6 per 100k). This seems comfortingly low compared to even this summer's BA.5 wave and let alone last winter's BA.1 wave. Figure from @OurWorldInData. 1/16
However, at this point, nearly all infections will be in individuals with prior immunity from vaccination or infection and this combined with a roll back in testing makes it unclear how to interpret current case counts compared to previous time periods. 2/16
We're interested in the case detection rate or the ratio of underlying new infections compared to reported cases. Throughout much of 2020 and 2021, I had a working estimate of 1 infection in ~3.5 getting reported as a case. 3/16
Read 16 tweets
Aug 16, 2022
Largely through partial immune escape, lineage BA.5 viruses resulted in sizable epidemics throughout much of the world. However, in most countries these epidemics are now beginning to wind down. What do we expect after BA.5? 1/10
Lineage BA.2.75 (aka 'Centaurus') has been high on watch lists due to sustained increase in frequency in India combined with the presence of multiple mutations to spike protein. We now have enough sampled BA.2.75 viruses from outside India to make some initial conclusions. 2/10
If we look at frequency data we see sustained logistic growth of BA.2.75 in India, Japan, Singapore and the US. Critically, in India it is clearly displacing BA.5. 3/10
Read 10 tweets
Aug 3, 2022
Based on the experience in winter 2020/2021, seasonal influence on SARS-CoV-2 transmission is quite clear, but much of the Northern Hemisphere is currently experiencing large summer epidemics driven the spread of evolved BA.5 viruses. 1/11
It's necessarily fraught to try to make predictions of seasonal circulation patterns going forwards, but we can gain some intuition from simple epidemiological models. 2/11
In particular, we can use an SIRS system in which individuals go from Susceptible to Infected to Recovered, and then return to the Susceptible class due to immune waning / antigenic drift of the virus. 3/11
Read 12 tweets
Jul 20, 2022
There seems to be a worry that telling people we've exited the "pandemic phase" will lead to further reduced precautions. As always however, I think it's best not to conduct messaging for intended behavioral effect and just try to make scientifically accurate statements. 1/5
Given vaccination and infection, the US and global population now has widespread immunity to SARS-CoV-2 and deaths per-infection are about 10 times lower than they were pre-immunity in 2020 with a ballpark IFR of 0.05% (though this will vary by immunity and age demographics). 2/5
You can see this reduction in mortality rate in looking at projections of deaths from lagged-cases keyed to early case fatality rate. 3/5
Read 5 tweets
Jun 27, 2022
The @US_FDA VRBPAC committee will be meeting tomorrow to discuss variant-specific COVID-19 vaccines (fda.gov/advisory-commi…). Based on present observations, I would argue that the most important metric to optimize are titers against BA.4/BA.5 viruses. 1/10
We've seen repeated replacement of SARS-CoV-2 variants during 2022, first of Delta by Omicron BA.1 and then by sub-lineages of Omicron, with BA.2 replacing BA.1 and now with BA.4/BA.5 replacing BA.2. 2/10
Viruses have been evolving to be higher fitness through both increases in intrinsic transmissibility (seen in BA.2 vs BA.1) as well as escape from existing population immunity (seen in Omicron vs Delta as well as BA.4/BA.5 vs BA.2). 3/10
Read 10 tweets
Jun 3, 2022
Global monkeypox confirmed and suspected cases compiled by @globaldothealth show initial rapid increase as case-based surveillance comes online, followed by slower continued growth. 1/10
This is data from github.com/globaldothealt… and has had a 7-day smoothing applied and all y-axes are shown on a log scale. 2/10
If we focus on the last 11 days, we can see steady exponential growth in global cases with a ~7.7 day doubling. 3/10
Read 11 tweets

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