Does anyone have a good article/video/infographic that details, step-by-step, the progression of an omicron infection through your body?

Not just what happens within the cell, but the path of a typical infection through your body, the particular cells it infects to do so, and the various ways it damages your tissues, organs and immune system.

I found this one recently about what happens in the cell itself, for your enjoyment: https://www.youtube.com/watch?v=XlOi2hVGtg0

The lifecycle of SARS-CoV-2. Scientific version

YouTube

@BattlingBeaver

It pretty much blindly does this to every cell. It hits cells with more ACE2 receptors more often.

It works its way mechanically through the nose, lungs, and then into the bloodstream, and from there to whereever it can get (brain, etc.)

It also produces special chemicals to screw up the immune system, I don't fully understand those but they're documented. That could use a video.

@neroden That's what I'm hoping to do, I just bought new animation software.

I know the basics, but I'm not certain of the details of the progression. I want to detail it in a way that describes which cells in the nasal cavities are infected, then how it progresses to T Cells using them to transport around to other organs, what it does to those T Cells, which organs it tends to hit first, and also how it can progress up the olfactory nerve to invade certain parts of the brain.

1/2

@neroden And most importantly, I want basic timelines, so "around 3 hours after exposure, X begins to occur" "by the time you develop symtoms, the average person has Y copies of the virus in their body, and it has infected Z number of organs"
2/2
@BattlingBeaver @neroden I really don't think it's deterministic enough to make any specific statements about what specifically will happen or when
@BattlingBeaver @neroden examples of things that can happen would be good though!

@toba @BattlingBeaver

It definitely seems to be quite random which organs it hits hardest. Every cell in the body has ACE2 receptors, so I think it's luck which determines whether it hammers your brain or your kidneys.

It seems to go mucus membranes->blood->rest of body, I don't think one can be more specific than that

@neroden @toba
But for a "typical" mild case (I use that term lightly) we have an approximate timeline of the progress.

I want to show how it reaches the different organs (there are a few mechanisms, including use of the T Cells for transport*) and which tissues in those organs they are infecting, and perhaps list what kind of comorbidities for other diseases and medical issues that damage can cause.

* Edited to remove: fairly early on, which doesn't get discussed in mainstream content much

@BattlingBeaver @neroden I think you'll need to provide some references with this either way but "typical" and "examples of common things" are pretty similar conceptually. It's just important IMO to avoid giving too much of an impression of determinism or predicability.
@BattlingBeaver @neroden somehow I've never heard of this use of tcells to migrate around. Do you have a reference for this? I know in more severe cases it can end up in plasma (viremia) https://pubmed.ncbi.nlm.nih.gov/34374761/#:~:text=Conclusions%3A%20Visualization%20of%20virus%20particles,not%20with%20neutralizing%20antibody%20titers.
Severe Acute Respiratory Syndrome Coronavirus 2 Viremia Is Associated With Coronavirus Disease 2019 Severity and Predicts Clinical Outcomes - PubMed

Visualization of virus particles in plasma indicates that SARS-CoV-2 RNAemia is due, at least in part, to viremia. The levels of SARS-CoV-2 RNAemia correlate strongly with disease severity, patient outcome, and specific inflammatory biomarkers but not with neutralizing antibody titers.

PubMed
@BattlingBeaver @neroden and less commonly in less severe cases, I should add

@toba @neroden

Hmmm... I was under the impression that the T Cell infection was a regular mechanism, vs a rarity, but it appears to be more associated with severe disease.

"Infected T lymphocytes not only lost the ability to control viral infection but may also carry viruses to other parts of the body through blood circulation."
https://www.nature.com/articles/s41392-022-00919-x

ACE2-independent infection of T lymphocytes by SARS-CoV-2 - Signal Transduction and Targeted Therapy

SARS-CoV-2 induced marked lymphopenia in severe patients with COVID-19. However, whether lymphocytes are targets of viral infection is yet to be determined, although SARS-CoV-2 RNA or antigen has been identified in T cells from patients. Here, we confirmed that SARS-CoV-2 viral antigen could be detected in patient peripheral blood cells (PBCs) or postmortem lung T cells, and the infectious virus could also be detected from viral antigen-positive PBCs. We next prove that SARS-CoV-2 infects T lymphocytes, preferably activated CD4 + T cells in vitro. Upon infection, viral RNA, subgenomic RNA, viral protein or viral particle can be detected in the T cells. Furthermore, we show that the infection is spike-ACE2/TMPRSS2-independent through using ACE2 knockdown or receptor blocking experiments. Next, we demonstrate that viral antigen-positive T cells from patient undergone pronounced apoptosis. In vitro infection of T cells induced cell death that is likely in mitochondria ROS-HIF-1a-dependent pathways. Finally, we demonstrated that LFA-1, the protein exclusively expresses in multiple leukocytes, is more likely the entry molecule that mediated SARS-CoV-2 infection in T cells, compared to a list of other known receptors. Collectively, this work confirmed a SARS-CoV-2 infection of T cells, in a spike-ACE2-independent manner, which shed novel insights into the underlying mechanisms of SARS-CoV-2-induced lymphopenia in COVID-19 patients.

Nature
@BattlingBeaver @neroden yeah, I know some types get infected and drop in counts for some patients. I'm wondering about the correctness of suggesting they commonly "ride along" to other tissues, v.s. the mechanism of that being loose virions in circulating plasma.
@BattlingBeaver @neroden the word "may" is doing a lot of work in your quote.
@toba
Yes I've edited that bit in my statement (I'm new to Mastadon, if you know how to do strikethroughs, it would be much appreciated) it's clearly not as common as I thought it was.
@BattlingBeaver I'm still weirded out by editability myself, no idea about formatting! Thx for engaging and discussing! I'm interested in seeing what you come up with. Do you have any connections to People's CDC or WHN? I can introduce you if you like.. I'm sure you could get review and support
@toba I'm in Canada, and work with a group called COVID-19 Resources Canada. (I'm on the social media rather than scientist side) We have a data discussion meeting tonight where I'm sure I can get some more resources or a point in the right direction of who to hit up for something comprehensive :)
@BattlingBeaver That would be good to see.

@Heartsonycgr

If I can gather the right info, I'll make the video myself

(It will NOT be the quality of the one I posted)

@BattlingBeaver
Oh that one you posted is an #amazing one. I didn’t have the #Youtube link just the direct one from their website.. Which prob doesn’t have #commercials .. I #digress

This is my favorite #CovidPSA #PSA #sarscov2 I posted 9/2020 & imo not enough people have seen it! Back in 2020 it was at 14K views… Too bad it never went #viral as it #definitely kept me in line🖤

https://youtube.com/watch?v=YFLXaWxNFrQ

This is for Wuhan & Omicron MUCH faster so time would change ..by a lot

How the Coronavirus Could Take Over Your Body

YouTube

@Lorrrraaaaine That's a great video, but it's focused on larger droplet transmission and only really looks at the effect on the lungs (completely understandable for when it was made)

Thank you for sharing, I love the presentation they used!

@BattlingBeaver
It’s been a minute since I re-watched it. I think I see what you mean… I feel like I’ve read article describing how it hides in reservoirs but don’t recall seeing it. What a #fantastic #idea !

#visualization is powerful

Will keep a look out for #vivid #descriptions 🖤 as I don’t think what you’re looking for exists in video yet

I’ve been trying to describe how #sarscov2 hijacks the body & actually sent that video you posted to in an attempt to show serious #implications

@Lorrrraaaaine I've had an awful time trying to describe it to others as well, I have the tidbits, but not the overall general process or timeline, or an updated map for omicron (as it doesn't tend to go into the lungs in the same way as it used to)

I have the supreme privileged of my birthday falling around Cyber Monday, so when my SO asked me what I wanted this year I said ANIMATION SOFTWARE so I can start making better videos to communicate what most people don't know :D

@BattlingBeaver
I’m so EXCITED for you!!!
Idk if you need anything in Adobe suite ever, but lmk as I have Creative Cloud membership but I literally never use it… so feel like it’s a waste. I’d feel better if it was being used:) And especially for a good cause🤩⭐️✨💫💗
@Lorrrraaaaine Thank you so much, I may just take you up on your offer at some point 😍
@BattlingBeaver a related video came to mind. In case you haven't seen this.. on how the virus is carried in aerosols https://youtu.be/ZfmmJnG7le8
#COVIDisAirborne: Multiscale ComputationalMicroscopy of Delta SARS-CoV-2 in a Respiratory Aerosol

YouTube