Genetic Variant Linked to Side Effects from mRNA vaccines

Some people react to the COVID-19 mRNA vaccines with side effects such as fever, fatigue, chills, and feeling unwell.  While the CDC maintains that these side effects are normal, people’s reaction to the vaccine varies greatly – from no reaction to more severe reactions.

Age, of course, plays a role in how much of an immune response you will mount to any vaccine.

Genetics is the other known factor in immune system response to vaccination. Researchers know that some people will not produce antibodies to the measles vaccine or the mumps vaccine – based on their genetics. Other studies outline which genetic variants are linked to a better immune response to the flu virus. (Read more: Vaccine Response and Your Genes)

Genetic variants and the COVID-19 vaccines:

We now have some information about genetic interactions with the Pfizer and Moderna mRNA vaccines for COVID-19. I’m sure more studies will come on this topic, but it is exciting to see the results from a large genetic-based study on the immune system response side effects to the vaccine.

Let’s dig into the details of this study on genetics and side effects from mRNA vaccines. (Currently, in preprint, read it for yourself):

The study used survey information combined with DNA data from approximately 17,000 people in the US (mainly Nevada). The survey asked about previous COVID-19 infections before vaccination (7.3%)

Side effects reported:

The results of the vaccine reactions portion of the survey were as follows:

Vaccine Reaction % reporting
Extreme difficulties / unable to perform daily routine 1,029 (8.0%)
Severe difficulties with daily routine 1,237 (9.6%)
Moderate difficulties with daily routine 2,597 (20.2%)
Mild difficulties with daily routine 3,502 (27.2%)
No difficulties with daily routine 4,500 (35.0%)

In breaking down the results by manufacturer and by dose, the second dose of the Moderna shot had the most ‘severe or extreme’ reactions at 19.5%, with Johnson & Johnson coming in at 17.7% having a severe or extreme reaction.

While the study focused on the genetic variants linked with side effects, their results show that a prior COVID-19 infection was linked to greater side effects (which is what other studies and many anecdotes have shown). The <55 age group also had links to a greater risk of side effects, which makes sense with immune response declining in aging.

Of note in this study is that the median age of participants is 58. Many participants may not have shown side effects due to an attenuated immune response in older individuals. Also important here, when it comes to the genetic part of the study, is that the vast majority of participants are of European or Hispanic ancestry. Thus, the genetic results may or may not hold true for other population groups.

Here is the participant breakdown:

Genetics and side effects:

The researchers did a genome-wide association study, which looks across the whole genome to see if there is a statistical link to an outcome based on a genetic variant.

The results showed that there was a sizeable statistical link to a variant in the HLA-A gene. The HLA-A gene is also associated with an individual’s immune response to mumps, chickenpox, shingles, and other viruses.[ref]

Specifically, the side effects from the Pfizer vaccine were shown to be linked to HLA-A*0301 at the odds ratios below:

The researchers used rs2571381 as a proxy for HLA-A*03:01.

Check your genetic data for rs2571381 (23andMe v4 i5015047):

  • C/C: typical
  • C/T: likely 1 HLA-A*03:01 alleles, 2-fold increased risk of severe or extreme side effects from Pfizer COVID-19 vaccine, possibly increased risk for severe or extreme side effects from Moderna
  • T/T: likely 2 HLA-A*03:01 alleles, greater than the 2-fold increased risk of severe or extreme side effects from Pfizer COVID-19 vaccine, possibly increased risk for severe or extreme side effects from Moderna

Members: Your genotype for rs2571381 is , or i5018047 is

How common is this genotype? Almost a third of Caucasians carry this HLA type. It varies a bit in other population groups.

 

Conclusion:

What can you do with this information?

To state the obvious, if you have the HLA-A*03:01 type, you may want to plan for time off if getting the Pfizer vaccine – especially after the second dose and if you are under age 55. With boosters now being required in many places to be ‘fully vaccinated’, it will be interesting to see if this same increase in risk holds true for the third shot.

This HLA type is only linked to side effects from the vaccine. As far as I can find, it has not been linked to the severity of reaction to the SARS-CoV-2 virus in any of the genetic studies on COVID severity.

Research studies have been announced that are investigating whether some people are genetically less likely to get SARS-CoV-2. It is likely that HLA types will play a role in susceptibility, but we will have to wait for those studies to be published.


Related Genes and Topics

TLR7: Susceptibility to COVID-19
In recent research, mutations in TLR7 (a sensor in our innate immune system) might cause severe Covid-19 in a small minority of healthy people.

Research roundup: Preventing and mitigating COVID-19
An introduction to a series of articles on the research into things that may help to mitigate some of your risk in SARS-Cov-2 infections.

Genetic risk and Guillain-Barré syndrome
This article dives into the research on Guillain-Barré syndrome, explaining the course of the disease, and covering the genetic variants that increase the relative risk of this serious autoimmune disease.

COVID-19 & Genetics: Who gets sick and why?
Not everyone gets sick when exposed to the SARS-CoV-2 virus. While there are many factors that come into play here, research points to genetics as playing a role. Several good genetic studies have recently been released showing which genes are important in COVID-19 susceptibility. Learn more and check your genes.

References:

Bolze PhD , Alexandre. “HLA-A*03:01 Is Associated with Increased Risk of Fever, Chills, and More Severe Reaction to Pfizer-BioNTech COVID-19 Vaccination.” MedRxiv, Nov. 2021, https://www.medrxiv.org/content/10.1101/2021.11.16.21266408v2.full.pdf+html.

Tian, Chao, et al. “Genome-Wide Association and HLA Region Fine-Mapping Studies Identify Susceptibility Loci for Multiple Common Infections.” Nature Communications, vol. 8, no. 1, Sept. 2017, p. 599. www.nature.com, https://doi.org/10.1038/s41467-017-00257-5.




Author Information:   Debbie Moon
Debbie Moon is the founder of Genetic Lifehacks. She holds a Master of Science in Biological Sciences from Clemson University and an undergraduate degree in engineering from Colorado School of Mines. Debbie is a science communicator who is passionate about explaining evidence-based health information. Her goal with Genetic Lifehacks is to bridge the gap between the research hidden in scientific journals and everyone's ability to use that information. To contact Debbie, visit the contact page.