The SARS-CoV-2 variant classification scheme

The virus that causes covid-19 is officially called SARS-CoV-2. This website gives the definition of the various elements of this virus.

Viruses like SARS-CoV-2 continuously evolve as changes in the genetic code (genetic mutations) occur during replication of the genome. A lineage is a genetically closely related group of virus variants derived from a common ancestor. A variant has one or more mutations that differentiate it from other  variants of the SARS-CoV-2 viruses. As expected, multiple variants of SARS-CoV-2 have been documented in the United States and globally throughout this pandemic. To inform local outbreak investigations and understand national trends, scientists compare genetic differences between viruses to identify variants and how they are related to each other.

Key Definitions:

  • Mutation: A mutation refers to a single change in a virus’s genome (genetic code). Mutations happen frequently, but only sometimes change the characteristics of the virus.
  • Lineage: A lineage is a group of closely related viruses with a common ancestor. SARS-CoV-2 has many lineages; all cause COVID-19.
  • Variant: A variant is a viral genome (genetic code) that may contain one or more mutations. In some cases, a group of variants with similar genetic changes, such as a lineage or group of lineages, may be designated by public health organizations as a Variant of Concern (VOC) or a Variant of Interest (VOI) due to shared attributes and characteristics that may require public health action.

When the Omicron was labeled as a ‘variant of concern’, that label is one of four that is used to classify the nature of the danger the variant poses, which are in increasing order: Variant Being Monitored (VBM), Variant of Interest (VOI), Variant of Concern (VOC), and Variant of High Consequence (VOHC), the last being the most alarming. Delta and Omicron are the only two in the VOC category, while there are ten in the VBM category, including the Alpha and other variants with Greek letter labels that did not get much publicity.

There are none as yet that fall into the VOI nor (thankfully) the VOHC categories. One shudders to think what a VOHC variant would do.

Monarch butterflies

I wrote earlier about the amazing migration of the monarch butterfly. This tiny creature does the same trek of thousands of miles each year even though their lifetimes are so short that any given butterfly will do it only once.

This website gives more information.

Some monarch butterflies are able to fly for a migration of 2500 miles. Most of them can find their ways to their ancestors’ winter homes when they go there, and then find their ways back to the places they left in spring. This ability made them seem like the strongest, smartest, and toughest of all butterflies. In much of their range they are also the biggest butterflies, with wingspans up to four inches (10cm).

[Read more…]

Film review: Don’t Look Up (2021)

Netflix has just released a new star-studded dark comedy that sends up the current times in which we live. The film is allegorical, particularly of the Trump era.

The story begins with a graduate student (Jennifer Lawrence) who discovers that a 10 km wide comet is headed straight for the Earth and will collide with it in just over six months, destroying the planet. Along with her advisor (Leonardo DiCaprio) and a top government scientist (Rob Morgan) they try to alert the Trump-like president (Meryl Streep) but she, along with her idiot son (Jonah Hill, no prizes for guessing who he is based on) who is her chief-of-staff, does not take the threat seriously enough and instead worries more about her poll numbers and how to use the news to her political advantage. The news media represented the form of a happy-talk TV show with co-anchors (Cate Blanchett and Tyler Perry) also make light of the situation.
[Read more…]

Radiation paradoxes 7: Accelerating frames and the general theory of relativity

(Previous posts in this series: Part 1, Part 2, Part 3, Part 4, Part 5, Part 6)

At this point, we need to take a slight detour and examine more closely the role of accelerating frames because that is central to resolving the paradox that started this series if posts, of whether an electric charge falling freely under gravity radiates or not. The discussion up to this point has seemed to privilege inertial frames when it came to discussing the laws of physics. This was because we knew how to transform physical quantities between any two inertial frames, using Galilean transformations for Newtonian motion at low speeds and Lorentz transformations when we needed more accurate results or were dealing with speeds comparable to that of light in the regime of special relativity. But transforming between inertial frames and accelerating ones was another story.

Einstein used the insight that any two masses will fall at the same rate in a gravitational field to argue that the distinction between inertial frames (where the laws of physics such as Maxwell’s equations are supposedly valid) and non-inertial frames (where they are not) should not matter and that we should be able to find transformational relations between them.
[Read more…]

Seeing the universe in its infancy

Yesterday NASA’s James Webb Space Telescope was successfully launched into space from French Guiana, using the European Space Agency’s Ariane 5 rocket. If all goes well, within the next year we will be seeing images of when the universe was in its infancy.

Here is a quick overview of the telescope.

The launch is just the first stage of a very complex journey in which engineers have said that there are many delicate steps that need to go right and the failure of any one could ruin the mission.The telescope is a truly extraordinary piece of engineering design.

The James Webb – named after a former Nasa administrator – will spend a month on its journey and will then need a further five months to get ready. First, its enormous gold-plated 6.5 metre mirror and its huge, tennis-court-sized sunshield need to unfurl; they were folded origami-style to fit into the nose cone of the Ariane 5. Then its instruments will have to be carefully calibrated. In all, hundreds of release mechanisms need to work perfectly in order for the telescope to succeed.

[Read more…]

Radiation paradoxes 6: Getting rid of gravity

(Previous posts in this series: Part 1, Part 2, Part 3, Part 4, Part 5)

The fact that all masses accelerate at the same rate when subjected to purely gravitational forces but do not do so for any other type of force indicates the singular nature of gravity. Another peculiarity of gravity is that although we can shield bodies from the effects of other forces, we cannot shield them from gravitational forces. Although the concept of gravity has been around for a long time and we have used it to explain so much, from the motion of planets to terrestrial events, gravity remains a somewhat mysterious force, difficult to incorporate into more general schemes. Attempts to create unified theories of all the forces have been foiled by gravity. Trying to unify quantum mechanics with gravity has also proven to be extremely difficult, resisting the most determined efforts from some the best minds in physics, including Einstein. This is partly because gravity, unlike electric and magnetic forces, is a non-linear force and non-linear forces are notoriously difficult to handle mathematically.
[Read more…]

The variable rate of the Earth’s rotation

Recall how in one of my recent posts on the radiation paradoxes, I spoke about how you can measure the spinning rate of the Earth by looking at the stars and also by measurements taken purely on the Earth and that these two methods produce results that are remarkably close. This was used in support of the claim by Bishop Berkeley that it was the stars that exerted a dynamical influence on the Earth and that our motion was relative to, not space itself as Newton thought, which he felt was an unobservable entity and thus had no relevance.

The rate at which the Earth is spinning on its axis is not fixed though. Over time it has been slowing down, meaning that the days have been getting longer. Around 600 million years ago, the day was about 21 of our present hours. But a new wrinkle appeared in the last half century in that the rate of rotation was increasing slightly and this caused problems. As our ability to measure time became more accurate with the adoption of atomic clocks, this required the regular adoption of the so-called ‘leap second’, which was a second added to clocks to bring them back into sync with the time as measured with respect to the stars.
[Read more…]

Military looks askance at religious exemptions for vaccines

Some people who do not want to get the vaccine but are required to do so because of their work are claiming the right to a religious exemption. At least when it comes to the military, they are finding that a very tough sell.

More than 12,000 military service members refusing the COVID-19 vaccine are seeking religious exemptions, and so far they are having zero success.

That total lack of approvals is creating new tensions within the military, even as the vast majority of the armed forces have gotten vaccinated.

The services, urgently trying to keep the coronavirus pandemic in check by getting troops vaccinated, are now besieged with exemption requests they are unlikely to approve. Meanwhile, troops claiming religious reasons for avoiding the shots are perplexed because exemptions are theoretically available, yet seem impossible to obtain.

Obtaining a religious exemption is rooted in a process that predates the pandemic and has been used for decisions such as whether troops on duty can wear head coverings or beards for religious reasons.

In addition to discussions with chaplains to determine whether they have a “sincerely held belief,” troops must meet with commanders and medical personnel. The final decision is made higher up the chain of command and is also based on whether the person’s vaccine exemption will pose a risk to mission accomplishment, unit cohesion, the health and safety of the force, and military readiness.

Even in the past, few troops have cleared those hurdles to get religious exemptions. And because the pandemic can directly affect the force’s health and readiness, the bar is even higher, so military leaders aren’t surprised by the lack of approved exemptions.

[Read more…]

Why catalytic converters are being increasingly stolen

It is increasingly common for the catalytic converters on cars to be stolen. This is because the precious metal that forms a key element of the converters has become more expensive. That element is a rare one called rhodium which is, by weight, reportedly the most expensive element on the planet, beating out gold and silver and other precious metals. It is one of the rarest, just one part in a billion, compared with 5% for iron.

The converter on regular fuel vehicles is simple: a stainless steel shell surrounds a ceramic honeycomb monolith— that monolith is coated with three important precious metals: platinum, palladium, and rhodium. 

As the car’s exhaust passes through this honeycomb the metals heat up and act as catalysts: turning carbon monoxide into carbon dioxide, unburned hydrocarbons to H20 and C02, and nitrous oxides into nitrogen and Carbon-dioxide.  

Because these metals, and especially rhodium are so stable and durable they can perform this function over an extremely long lifetime of the car part—suffering very little loss in performance.

[Read more…]

Radiation paradoxes 5: Mass

On the surface mass, like space, seems like a simple and straightforward concept but there are deep subtleties involved here too. In order to bring out the subtleties about mass, I had a practice of asking students in my introductory physics classes to explain what they understood when they spoke of the mass of some object. The would usually give some vague formulation along the lines ‘the amount of stuff’ it has. When I pressed them by asking how that differs from their concept of volume, they would sharpen their answer, usually saying that volume was a measure of the amount of space that was occupied by the object but mass was a measure of how heavy it was. There are teachers who insist that we must emphasize that mass and weight are different but I am not one of them. After all, we all know from experience that objects with greater mass are heavier to lift. The intuitive idea that mass has a relationship to weight is a good enough starting point for learning about the subtleties of mass.
[Read more…]