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

• • •

Missing some Tweet in this thread? You can try to force a refresh
 

Keep Current with Trevor Bedford

Trevor Bedford Profile picture

Stay in touch and get notified when new unrolls are available from this author!

Read all threads

This Thread may be Removed Anytime!

PDF

Twitter may remove this content at anytime! Save it as PDF for later use!

Try unrolling a thread yourself!

how to unroll video
  1. Follow @ThreadReaderApp to mention us!

  2. From a Twitter thread mention us with a keyword "unroll"
@threadreaderapp unroll

Practice here first or read more on our help page!

More from @trvrb

13 Sep
New (not yet peer-reviewed) work by Katie Kistler and @huddlej in the lab assessing adaptive evolution in SARS-CoV-2 across the viral genome. 1/12
biorxiv.org/content/10.110…
We measure adaptive evolution by correlating mutations in different regions of the genome with growth of clade frequency. For this, we use a viral phylogeny of ~10k genomes sampled equitably through space and time across the pandemic (nextstrain.org/groups/blab/nc…). 2/12
If mutations to a region result in fitter viruses, clades bearing these mutations should expand more rapidly. We find that the S1 domain of spike accumulates protein-coding (nonsynonymous) changes rapidly and that clades with more S1 mutations tend to grow in frequency. 3/12
Read 12 tweets
7 Sep
It looks like we're about at the peak of the Delta SARS-CoV-2 wave in the US (figure based on @CDCGov data). A thread on current circulation patterns and the impact of Delta. 1/14
This inflection point in case loads at the country-level is due to decline in some states (such as FL and LA) and growth in others (such as OH and WV). Figure shows cases per 100k population on a log axis to emphasis state-level growth and decline. 2/14
Using previously described method to split cases by variant frequency (), we see a striking pattern in which most states have a moderate spring wave comprised of a mix of Alpha and other variants, but show a large Delta wave in the summer. 3/14
Read 17 tweets
30 Jun
How big of a wave of #COVID19 do we expect in the US from the Delta variant? Here I describe a simple approach to this question and attempt a rough back-of-the-envelop estimate. 1/16
First off, epidemic size is determined by two primary factors:
1. Efficiency of onward transmission from an index case, commonly quantified as R0
2. Size of susceptible pool
2/16
Given a specified R0, we can calculate final epidemic size in a simple SIR model with the following equation where Z is final epidemic size. For initial R0 of 1.1, an epidemic is expected to infect 18% of the susceptible population. 3/16
Read 18 tweets
24 Jun
Jesse Bloom's preprint has, of course, caused quite a stir. I wanted to try to explain a bit about the "rooting issue" discussed in the manuscript and also provide some hopefully clarifying phylogenetic trees. 1/15
For this post, I've made a @nextstrain "build" targeted at SARS-CoV-2 genomes from Dec 2019 through Jan 2020, totaling 549 viruses. All code is here: github.com/blab/ncov-earl… and should be reproducible using a download of @GISAID data. 2/15
There is genetic diversity within these very early samples with much of it arising from a split in early transmission chains into lineage A and lineage B viruses (lineage B as in B.1.1.7). Lineage A and lineage B viruses are separated by mutations at sites 8782 and 28144. 3/15
Read 15 tweets
22 Jun
An update on genomic surveillance in the US and spread of the Delta variant (PANGO lineage B.1.617.2, Nextstrain clade 21A). At this point, 95% of viruses circulating in the US are "variant" viruses that have been designated as "Variant of Concern" or "Variant of Interest". 1/12 Image
This update mirrors how I was looking at the rise of P.1 across the US in May. 2/12
Here, we can look at frequencies of different variant lineages through time and across states where it's clear that variant viruses and in particular B.1.617.2 viruses are continuing to increase in frequency. 3/12 Image
Read 12 tweets
2 Jun
With the publication of the Science letter, the Overton window for discussion of "lab leak" hypothesis has shifted dramatically. We now have mainstream scientific opinions that largely range between "lab leak can be dismissed" and "both zoonosis and lab leak are viable". 1/8
I am in the both are plausible camp. The data (as it exists) is consistent with zoonosis, but it's also consistent with lab leak. Parsing the relative probabilities of the two depends on multiple lines of evidence and is necessarily assumption ridden. 2/8
However, I think that there is a philosophical divide among scientists in how to assess hypotheses that perhaps explains some of the gap in opinion. Ie, is zoonosis the "null" hypothesis that we need significant evidence to reject or are we comparing two competing hypotheses? 3/8
Read 8 tweets

Did Thread Reader help you today?

Support us! We are indie developers!


This site is made by just two indie developers on a laptop doing marketing, support and development! Read more about the story.

Become a Premium Member ($3/month or $30/year) and get exclusive features!

Become Premium

Too expensive? Make a small donation by buying us coffee ($5) or help with server cost ($10)

Donate via Paypal Become our Patreon

Thank you for your support!

Follow Us on Twitter!

:(