This blog is a way of sharing the information and resources that have helped me to recover my son Roo from an Autism Spectrum Disorder. What I have learned is to view our symptoms as the results of underlying biological cause, which can be identified and healed. I say "our symptoms" because I also have a neuro-immune disorder called Myalgic Encephalomyelitis.

And, of course, I am not a doctor (although I have been known to impersonate one while doing imaginative play with my son)- this is just our story and information that has been helpful or interesting to us. I hope it is helpful and interesting to you!


Friday, December 17, 2021

COVID 19 Spread and Variants

How COVID spreads:

This video discusses the transmissibility of COVID 19 on airplanes- do masks help?

COVID-19 most contagious in first 5 days of illness, study finds
This article reports on a study published in The Lancet medical journal that found that people with COVID 19 infections were most contagious during the first 5 days after developing symptoms. The study also looked at viral load and viral shedding.

How coronavirus spreads outdoors vs. indoors

Community and Close Contact Exposures Associated with COVID-19 Among Symptomatic Adults ≥18 Years in 11 Outpatient Health Care Facilities — United States, July 2020
"Findings from a case-control investigation of symptomatic outpatients from 11 U.S. health care facilities found that close contact with persons with known COVID-19 or going to locations that offer on-site eating and drinking options were associated with COVID-19 positivity. Adults with positive SARS-CoV-2 test results were approximately twice as likely to have reported dining at a restaurant than were those with negative SARS-CoV-2 test results."

Omicron:

Classification of Omicron (B.1.1.529): SARS-CoV-2 Variant of Concern

Omicron - How does a variant become dominant?

Primary symptoms of Omicron include tiredness, headaches, muscle and body pain, and sometimes a sore throat.  Fewer sick people seem to be seeking care.  Lateral flow tests don't appear to work on the first day, but do work until the end of 5 days from symptom onset.  The omicron variant is replacing the delta variant.  Approximately 75% of hospitalized patients were admitted for other reasons and the COVID finding is incidental.  The omicron variant seems to have incorporated a gene from another coronavirus that causes the common cold, which appears to be contributing to omicron being more transmissable but less virulent.  Pfizer is claiming that their vaccine is effective against omicron for those who have had 3 doses, and still mostly effective for those who've had 2, but they aren't releasing the actual data.  This is only looking at antibody levels (titers) but not t-cells which are arguably more significant.

Omicron Found Mostly in Vaccinated Americans So Far  (12/12/2021)
"Through the first week of this month, the CDC had confirmed a total of 43 cases of Omicron in the U.S. Thirty-four, or nearly 80 percent, of those cases involved fully vaccinated individuals—14 of whom had also received booster shots. Twenty-five of those infected with the virus were between the ages of 18 and 39, and 10 of the cases were among adults 40 to 64 years old, while four cases were children and four were seniors. Nearly all the Omicron cases were said to be mild, with symptoms such as coughing, congestion and fatigue. Only one of the cases required hospitalization. There were no deaths."

 "Preliminary data on Omicron also suggests that the virus may be resistant to COVID vaccines. A recent study conducted by researchers at the Africa Health Research Institute in South Africa shows that Omicron “significantly reduces antibodies” generated by Pfizer/BioNTech’s experimental messenger RNA (mRNA) BNT162b2 biologic. The researchers found a 41-fold reduction in the ability of the antibodies to neutralize the Omicron variant compared with the original SARS-CoV-2 virus.

“We seem to see a drastic reduction in neutralizing activity, far more than with previous variants,” said virologist Florian Krammer, PhD of the Icahn School of Medicine at Mount Sinai, New York. “Little activity was left in vaccinated individuals.”

Did Omicron catch a Cold? Unique mutation found in the Omicron variant Layman explanation

Preliminary outcome data from South Africa

Unvaccinated people are getting sicker than vaccinated ones, but still cases are mild.  So far there is no need for oxygen, average hospital stay has decreased from 8.5 days to 2.8 days, no COVID-related death in the previous 2 weeks in children. 

Plasma Neutralization of the SARS-CoV-2 Omicron Variant
"Although these findings indicate that the omicron variant shows an unprecedented degree of neutralizing antibody escape, they also suggest that boosting and promoting affinity maturation of antibodies in persons who have previously been infected or vaccinated, with the use of existing Wuhan-hu-1–based vaccine immunogens, will provide additional protection against infection with the omicron variant and subsequent disease."

Can the Omicron BA.2 be the end? Transmissibility, Immunity Escape, Natural Immunity & Severity

Earlier Variants
SARS-CoV-2 variants D614G, B.1.1.7 (alpha), B.1.617.1 (kappa), B.1.617.2 (delta), P.1 (gamma), B.1.429 (epsilon), and B.1.351 (beta).

Tracking the Mutations of the SARS-CoV-2 Virus
"As is the nature of viruses, the SARS-CoV-2 virus that causes COVID-19 disease symptoms continues to mutate. Some scientists estimate it evolves at a rate of two new mutations every month, although most changes are minor and considered clinically unimportant."

This article goes on to explain the naming system used for variants of the SARS CoV 2 virus based on the Greek alphabet.  It makes the point that naming a variant based on the region or country where it was first found creates problems for that area and people whose ancestry is from that area, resulting in economic hardship, and hate crimes to name a few.  Additionally variants do not necessarily originate in the same place where they are first found.

"The first four SARS-CoV-2 variants to fall under the new guidelines are those originally referred to as the U.K./Kent (B.1.1.7), South Africa (B.1.351), Brazil (P.1) and India (B.1.617.2) variants, hereafter referred to as the Alpha, Beta, Gamma, and Delta variants, respectively, following in order of detection. Two variants first identified in the U.S. (B.1.427/429 and B.1.526) were quickly dubbed Epsilon and Iota, respectively. New variants are expected to adhere to the same system of using the Greek alphabet."

 Neutralization of the SARS-CoV-2 Mu Variant by Convalescent and Vaccine Serum

SARS-CoV-2 May Have Another Door Into Cells | 
Evidence suggests that the virus SARS Cov 2 can enter cells through the receptor ACE2, which has been known for awhile, but may also be able to enter through another protein called CD 147 (Cluster of Differentiation 147).  It is also called Emmprin, M6, or Basigin).  Many other viruses, including measles, HIV, and the original SARS COV virus can also use this protein to enter and infect cells.  This receptor is involved in cellular communication and coordination so it is found on many kinds of cells in many body systems.  Production of CD147 increases when blood sugar is high which might explain why people with diabetes have a higher risk from COVID.  Research so far shows that CD147 is also more commonly expressed in people with asthma, obesity, COPD, and hypertension.  This may also explain some skin rashes and blood clotting that seem to be symptoms of some COVID infections.  Antibodies, including those for COVID, can stick to red blood cells and make them "sticky" and prone to clotting.  Red blood cells don't have ACE2 receptors but they do have CD147 receptors (this is the same receptor that malaria parasites use to get into them).  Endothelial cells also express CD147 and this might explain how the virus causes high blood pressure.  A medication called Meplazumab binds to CD147 so that viruses can't use it and preliminary research sows that this drug helps reduce the severity of COVID infection.  The antibiotic Azithromycin also seems to block the CD147 receptor and is also used to treat malaria, so maybe it will be an effective option?

Understanding what's driving coronavirus mutations | COVID-19 Special
High infection rates can lead to more variants because more infections means more opportunities for the virus to mutate.  Increased mutations can lead to variants of the virus that are more transmissible, more deadly, and less responsive to vaccines.  The variant in Brazil is spreading despite the fact that about 75% of the population had been exposed to the virus previously, which could mean that either immunity doesn't last long or that the virus has mutated enough that it can evade the antibodies.  mRNA vaccines can be updated to target the new variants in as little as 6 weeks.  A researcher explains that every new infection of the coronavirus is an opportunity for it to mutate and some of these mutations will make it more virulent, more transmissible, and/or more deadly.  Limiting transmission of infections reduces the possibility that mutated strains will be passed on and spread.  It is not known how much, if at all, vaccination will prevent or reduce transmission of the virus.  The vaccine trials conducted so far (as of January 2021) did not investigate whether the vaccines led to what is called "sterilizing immunity", which is when a pathogen can't reproduce enough in a person to shed enough to be able to infect others.  This can happen if a person's immune response to the pathogen is so fast and effective that the pathogen can't gain a foothold and is eliminated.

How British Scientists Found the More Infectious Coronavirus Variant
"One mutation the patient had, labeled 69-70del, changes the shape of the spike protein. Another, N501Y, can help the protein bind more tightly to human cells."

"Eventually, British scientists detected 23 mutations that distinguished these genomes from the earliest known version in Wuhan, China — enough to be a considered a new variant, since labeled B.1.1.7.""The variant is now estimated to account for more than 80 percent of positive cases in London and at least a quarter of infections elsewhere in England, and has turned up in more than 50 countries." (from Jan 22, 2021)

A New COVID 19 Variant is Spreading in Europe
As many European countries are fighting a second wave of COVID cases, a new variant of the SARS Cov 2 virus has been found to be active in some (but not all) of these new rising numbers. It seems to have originated in Spain and traveled quickly throughout Europe. It seems to spread very effectively (possibly moreso than the original variant) and is now the dominant variant in some countries. We are being told that this won't change the effectiveness of a vaccine if/when one is introduced, or that the illness caused by this variant is any different. 

Vaccine Breakthrough Infections with SARS-CoV-2 Variants
"These observations indicate a potential risk of illness after successful vaccination and subsequent infection with variant virus, and they provide support for continued efforts to prevent and diagnose infection and to characterize variants in vaccinated persons. (Funded by the National Institutes of Health and others.)"

Viral Dynamics of SARS-CoV-2 Variants in Vaccinated and Unvaccinated Persons