Ciro Santilli really liked the battle mode on this.
www.lgcstandards-atcc.org/products/all/49896.aspx:
- £355.00 in 2019
- biosafety level: 2
Size: 300 x 600 nm
Reproduction time: www.quora.com/unanswered/How-long-do-Mycoplasma-bacteria-take-to-reproduce-under-optimal-conditions
Has one of the smallest genomes known, and JCVI made a minimized strain with 473 genes: JCVI-syn3.0.
The reason why genitalium has such a small genome is that parasites tend to have smaller DNAs. So it must be highlighted that genitalium can only survive in highly enriched environments, it can't even make its own amino acids, which it normally obtains fromthe host cells! And because it cannot do cellular respiration, it very likely replicates slower than say E. Coli. It's easy to be small in such scenarios!
Power, Sex, Suicide by Nick Lane (2006) section "How to lose the cell wall without dying" page 184 has some related mentions puts it well very:
One group, the Mycoplasma, comprises mostly parasites, many of which live inside other cells. Mycoplasma cells are tiny, with very small genomes. M. genitalium, discovered in 1981, has the smallest known genome of any bacterial cell, encoding fewer than genes. Despite its simplicity, it ranks among the most common of sexually transmitted diseases, producing symptoms similar to Chlamydia infection. It is so small (less than a third of a micron in diameter, or an order of magnitude smaller than most bacteria) that it must normally be viewed under the electron microscope; and difficulties culturing it meant its significance was not appreciated until the important advances in gene sequencing in the early 1990s. Like Rickettsia, Mycoplasma have lost virtually all the genes required for making nucleotides, amino acids, and so forth. Unlike Rickettsia, however, Mycoplasma have also lost all the genes for oxygen respiration, or indeed any other form of membrane respiration: they have no cytochromes, and so must rely on fermentation for energy.
Downsides mentioned at youtu.be/PSDd3oHj548?t=293:
- too small to see on light microscope
- difficult to genetically manipulate. TODO why?
- less literature than E. Coli.
Data:
- www.ncbi.nlm.nih.gov/bioproject/97 contains genome, genes, proteins.
- www.genome.jp/kegg-bin/show_pathway?mge01100 all known pathways. TODO: numerical reaction coefficients? Which enzyimes mediate what? Appears to factor pathways across organisms, which is awesome.
This model can work well when there is a set of commonly used libraries that some developers often use together, but such that there isn't enough maintenance work for each one individually.
So what people do is to create a group that maintains all those projects, to try and get enough money to survive from the contributions done primarily for each one individually.
Examples:
pubmed.ncbi.nlm.nih.gov/27185558/ A Eukaryote without a Mitochondrial Organelle by Karnkowska et. al (2016)
Power, Sex, Suicide by Nick Lane (2006) by Ciro Santilli 35 Updated 2025-01-03 +Created 1970-01-01
All pages below are from the second edition from 2018. It seems that there weren't any changes in the text, the updated preface mentions
As it happens, nearly 15 years have passed since the 1st edition of Power, Sex, Suicide was published, and I am resisting the temptation to make any lame revisions. Some say that even Darwin lessened the power of his arguments in the Origin of Species through his multiple revisions, in which he dealt with criticisms and sometimes shifted his views in the wrong direction. I prefer my original to speak for itself, even if it turns out to be wrong.
This is partly addressed in the preface of the second edition from 2018.
Central thesis:
- there are two sexes because of mitochondria
- the acquisition of mitochondria was one of the most important steps in the evolution of eukaryotes.There are no known eukaryotes which never had mitochondria. Having mitochondria appears to be a requisite for being an eukaryote.Contrast this for example with multicellularity, which is highly polyphyletic.
- Apoptosis is largely regulated by mitochondria
- there are two main theories for how the mitochondria endosymbiosis started:
- parsitic hypothesis of mitochondrial endosymbiosis: a parasitic option rather than cooperative
- hydrogen hypothesis: a cooperative option rather than parasitic
Smaller points:
- 10% of our body weight (dry presumably?) is mitochondria. Also quoted at: www.nature.com/scitable/blog/student-voices/mighty_mitochondria. TODO confirm.
- eukaryotes can do phatocytosis due to their cytoskeleton
- paints a colorful picture of Peter Mitchell. Some Wikipedia edits are warranted!
- it is hard for complex organisms to evolve because longer DNA means longer replication time
- cancer is natural selection gone wrong
- multicellular organisms are not utopias where every cell lives happily. Rather, they are dictatorships, where any dissident is forced to commit seppuku. Lu Xun's petition quote comes to mind.
Nitpicks:
- the book calls ATP synthase "ATPase" in several points, which is confusing because -ase means "something that breaks", and in 2020 parlance, there are ATPases which actually break ATP: en.wikipedia.org/wiki/ATPase. The book itself acknowledges that on page 135:
The ATPase is freely reversible. Under some circumstances it can go into reverse, whereupon it splits ATP, and uses the energy released to pump protons up the drive shaft, back across the membrane against the pressure of the reservoir. In fact the very name ATPase (rather than ATP synthase) signifies this action, which was discovered first. This bizarre trait hides a deep secret of life, and we’ll return to it in a moment.
Some criticisms:
- some of the later chapters are a bit more boring, like the stuff about warm-blooded animals. Perhaps is it that Ciro Santilli is more interested in the molecular aspects than macro
- the author talks about some very recent research at the time. While this does highlight his expertise, some of the points mentioned might still be in a state of flow. This is acknowledged by the author himself on the 2018 updated preface however.
Biologists are obsessed with these!
When plugged into Ubuntu 22.04 via the USB Micro-B the Micro Bit mounts as:e.g.:for username
/media/$USER/MICROBIT/
/media/ciro/MICROBIT/
ciro
.Loading the program is done by simply copying a The file name does not matter, only the
.hex
binary into the image e.g. with:cp ~/Downloads/microbit_program.hex /media/$USER/MICROBIT/
.hex
extension.The back power light flashes while upload is happening.
Flashing takes about 10-15 seconds for the 1.8 MB scroll display hello world from microbit-micropython.readthedocs.io/en/v1.0.1/tutorials/hello.html:and the program starts executing immediately after flash ends.
from microbit import *
display.scroll("Hello, World!")
You can restart the program by clicking the reset button near the USB. When you push down the program dies, and it restarts as soon as you release the button.
Identification: kitronik.co.uk/blogs/resources/explore-micro-bit-v1-microbit-v2-differences The easiest thing is perhaps the GPIO notches.
Second quantization also appears to be useful not only for relativistic quantum mechanics, but also for condensed matter physics. The reason is that the basis idea is to use the number occupation basis. This basis is:
- convenient for quantum field theory because of particle creation and annihilation changes the number of particles all the time
- convenient for condensed matter physics because there you have a gazillion particles occupying entire energy bands
Bibliography:
- www.youtube.com/watch?v=MVqOfEYzwFY "How to Visualize Quantum Field Theory" by ZAP Physics (2020). Has 1D simulations on a circle. Starts towards the right direction, but is a bit lacking unfortunately, could go deeper.
The exact same problem appears over and over, e.g.:
- transportaion: the last mile of the trip when everyone leaves the train and goes to their different respective offices is the most expensive
- telecommunications: the last mile of wire linking local hubs to actual homes is the most expensive
- electrical grid: same as telecommunications
Ciro Santilli also identified knowledge version of this problem: the missing link between basic and advanced.
Creator of QEMU and FFmpeg, both of which Ciro Santilli deeply respects. And a bunch other random stuff.
What is shocking about Fabrice this is that both are insanely important software that Ciro Santilli really likes, and both seem to be completely unrelated subjects!
Google made billions on top of this dude:
- FFmpeg is the backend of YouTube
- QEMU is the default emulator for Android Studio as of 2019, which Android developers use by default under the hood to develop Android Apps on their desktop without the need for a real device.
At last but not least, Fabrice also studied in the same school that Ciro Santilli studied in France, École Polytechnique.
It is a shame that he keeps such a low profile, there are no videos of him on the web, and he declines interviews.
Another surprising fact is that Fabrice has not worked for the "Big Tech Companies" as far as can be publicly seen, but rather mostly on smaller companies that he co-founded: www.quora.com/Computer-Programmers/Computer-Programmers-Where-is-Fabrice-Bellard-employed
And he's also into some completely random projcts unsurprisingly:
- www.computerhistory.org/tdih/january/6/ Computer Scientist Fabrice Bellard Announces Computing Pi to Record Number of Digits
Bibliography:
- smartbear.com/de/blog/2011/fabrice-bellard-portrait-of-a-super-productive-pro/ contains a list of his projects as of 2011
His website is down as of 2020, shame: wiki.dandascalescu.com/essays/english-universal-language
This dude is interesting. Quite crazy type. It is hard to differentiate genius from mad.
Ciro Santilli bumps on his Stack Overflow from time to time: stackoverflow.com/users/1269037/dan-dascalescu.
You gotta be born after the year 2000 to understand it.
This is becoming more and more popular as a group chat with channels and threads possibility as of 2020.
Very similar to Slack.
They force your username to have 4 random digits? www.reddit.com/r/discordapp/comments/43kjdl/whats_the_number_next_to_the_username/
Not possible to anonymously join just one server without creating a new account? What's the point of servers then! www.reddit.com/r/discordapp/comments/6gmjl7/changing_nick_before_joining_a_new_server/ Oh, also nicks don't hide your username from the server in any way, you can get the original username by just clicking on the person's username.
No proper threaded discussion without creating new channels? As of 2022 there is kind of a way, but it was a bit obtuse.
As of 2022 they also have a school hub: support.discord.com/hc/en-us/articles/4406046651927-Discord-Student-Hubs-FAQ which auto creates groups by university email access. Good idea, and shows popularity amongst that user group.
Servers don't have an ID to join them? www.reddit.com/r/discordapp/comments/b9zdt6/join_discord_server_from_id/
Can only make public servers if you have 1000 members?? support.discord.com/hc/en-us/articles/360023968311 Why so much bullshit?? www.reddit.com/r/discordapp/comments/6jouf8/how_do_i_make_my_server_public/
There are unlisted articles, also show them or only show them.