Bacterial immunity to viruses is incredible. We have so much more to learn and unlock to master not only genome engineering with CRISPR-Cas systems, but also the next generation of gene editing and modulating tools as well as replicating adaptive, genomic immunity.
What is bacterial adaptive immunity? When phages (viruses that infect bacteria) insert their genetic materials into bacteria, bacteria use a host of evolved genetic immunity techniques to fend off invaders.
In animals, our adaptive immune systems rely primarily on B cells to generate antibodies and T cells to generate T cell receptors that continuously evolve to bind to and neutralize invaders such as viruses, bacteria, fungi and parasites.
While mammalian cells are able to mount responses to certain components of viruses, bacteria, and pathogens based on specific characteristics (lipids, sugars and DNA or RNA) appearing inside of the cell, our “intracellular” immune responses are nowhere as advanced as bacteria.
If mammals had the kind of intracellular adaptive immune responses as bacteria do, we’d be able to “learn” what kind of genetic sequences are introduced by different kinds of viruses, for instance, and would then be able to destroy specific sequences of RNA and DNA.
Imagine if humans had the adaptive intracellular immune response of bacteria! We could respond to SARS, HIV, and other viruses by directly snipping out or destroying specific genetic sequences that don’t belong. Our cells would learn how to destroy viruses before they form.
As gene therapy and editing becomes more widespread and practical across entire physiological systems, and inserting large sequences of DNA into the genome becomes possible (see @jgooten @omarabudayyeh work on huge gene insertions), this will become possible.
In 100 years, humans could very well eliminate viruses from being infectious, and add an arsenal of intracellular immunity techniques that have evolved over billions of years in bacteria to complement our adaptive and innate immune systems.
Incidentally, CRISPR gene editing is the genome engineering toolbox that lets us edit and modulate specific genes at a whim. The way that bacteria do this naturally was originally adapted for engineering apps with work out of @doudna_lab + Charpantier labs, as well as @zhangf.
Exciting years are ahead for the future of medicine, decoding biology, learning from other organisms, and improving the wellbeing and health span of life on Earth.

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More from @nanogenomic

Jan 30
SARS-BLOCK peptides docking with the ACE2 receptor
Using the original SARS-CoV-1 structure and the new sequence of SARS-CoV-2, we were able to design and simulate efficacious peptide inhibitors of SARS-CoV-2 binding to the ACE2 receptor in 5 hours in February of 2020. These peptides effectively block the virus that causes COVID.
These sorts of approaches can be applied to far more than infectious disease. @Ligandal has developed a broad approach for simulating and designing synthetic peptides that can bind to virtually any class of surface markers, with many applications.
Read 8 tweets
Jan 24
@Ligandal is honored to be featured on @CrisprMedicine's list of Companies to Follow in 2022!

There are many companies that have various gene editing materials, and a small subset of companies that specialize in delivery of the gene editing, gene-reprogramming instructions.
See the full list here!
crisprmedicinenews.com/companies/
In order to create the next generation of precision genetic medicine, a number of approaches will have to be used to engineer cells, tissue and organs to be free of disease states or programmed to carry out specific functions, such as killing cancer cells.
Read 4 tweets
Jan 19
How does light exposure affect circadian rhythms and sleep cycles? This review article provides an analysis of many studies exploring the effects of different wavelengths and durations of light exposure on sleep. I was curious about blue vs. red-orange:

tandfonline.com/doi/abs/10.108…
“Appleman et al. (2013) conducted a 12-day study where 21 subjects, randomly divided into two groups, received either short-wavelength (blue, peak 476 nm) light for 2h in the morning and light filtered (<535 nm) with orange-tinted glasses for 3h in the evening (advance group)…”
“…or at opposite times, that is orange-tinted glasses in the morning and blue light in the evening (delay group). Subjects kept their normal schedule for the first 5d and received morning and evening light exposures the following 7d in addition to a fixed sleep schedule…”
Read 8 tweets
Jan 13
EXPONENTIAL THINKING

…and why it is so important to understand with pandemics…

🧵
Some basic math on exponents:
y = x(r^n)
d = x(r^n)/c

If r is # of people infected per case (R0)
x is starting # of cases
n is number of exponential infection increases
1/c is fraction of cases leading to death

Then y is cases at time point n and d is deaths at time point n.
People must understand that cases increasing exponentially more (e.g. if r is twice as high between omicron and delta / wildtype) means that half, quarter or even 1/10th lethality per case will yield more deaths than if this exponent isn’t in place.
Read 6 tweets
Dec 31, 2021
We can do better.
I am an optimistic realist. I believe in our capacity to harness technology to improve the world and offset almost any kind of problem. The progress of scientific innovation is stunning and there is much to be grateful for. However, it is not a time to pat ourselves on the back.
Two years in, and messages like this were swiftly ignored and continue to be downplayed. We are not through the woods yet.
Read 8 tweets

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