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Showing posts with label O(s)OL. Show all posts
Showing posts with label O(s)OL. Show all posts

2024-04-28

2024-04-08 Necessary Conditions for Earthly Life Floating in the Venusian Atmosphere

Reference : arXiv:2404.05356v1 [astro-ph.EP]. Published on 8 Apr 2024

https://arxiv.org/pdf/2404.05356

This is obviously a riposte to the claim, several years ago now, of phosphine in the radio spectrum of Venus' atmosphere. Which has been disputed, the instrument readings disputed, the noise profile challenged ... all the usual suspects.

Just from the title, it sounds like a discussion of the (theoretical) requirements, and potentially their observability, rather than actual new observations.

Now, here's weird - in some of the Blogger Preview modes, ":hover" doesn't work. Or is there something else going on? It's a problem with their preview system. I hadn't noticed that before.

Sections

Abstract
I. Introduction
II. LIFE CYCLE FOR VENUSIAN AERIAL MICROBES
III. REPLICATION RATES AND FALLOUT TIMES
IV. COSMIC RAY EFFECTS ON MICROBIAL LIFE
V. CONCLUSIONS
End of document

Abstract

Millimeter-waveband spectra of Venus from both the James Clerk Maxwell Telescope (JCMT) and the Atacama Large Millimeter/submillimeter Array (ALMA) provide conclusive evidence (signal-to-noise ratio of about 15σ) of a phosphine absorption-line profile against the thermal background from deeper, hotter layers of the atmosphere. Phosphine is an important biomarker; e.g., the trace of phosphine in the Earth’s atmosphere is uniquivocally associated with anthropogenic activity and microbial life (which produces this highly reducing gas even in an overall oxidizing environment). Motivated by the JCMT and ALMA tantalizing observations we reexamine whether Venus could accommodate Earthly life. More concretly, we hypothesize that the microorganisms populating the venusian atmosphere are not free floating but confined to the liquid environment inside cloud aerosols or droplets. Armed with this hypothesis, we generalize a study of airborne germ transmission to constrain the maximum size of droplets that could be floating in the venusian atmosphere and estimate whether their Stokes fallout times to reach moderately high temperatures are pronouncedly larger than the microbe’s replication time. We also comment on the effect of cosmic ray showers on the evolution of aerial microbial life.
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So, one useful point - that airborne life is more likely in droplets, rather than actual free-floating microbes. Fair point. From which, settling velocities are an approachable topic, while the supply of minerals from the ground isn't so approachable - needs considerably more assumptions. The question of vertical mixing in the atmosphere should make an appearance too. Note: the Wiki atmosphere composition given below asserts significant ferric chloride as a component, which would be an important mineral.

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I. Introduction

Their citations for early discussion of Venus-life as cloud-life starts with "H. Morowitz and C. Sagan, Life in the clouds of Venus?, Nature 215, 1259 (1967) doi:10.1038/2151259a0" - which shouldn't really be a surprise. Sagan gets everywhere.

And they go straight into modelling a "sHigo" (spherical Hydrogen isopyenic gasbag organism) and, with reasonably conservative assumptions get a minimum buoyant size of ~4cm (diameter). That's not insane for a multicellular organism, but a bit much from terrestrial experience of microbes. It also sort of (to me) implies an origin on the ground, getting lofted (evolving into buoyancy) as the environment went from Hadean era (with solar illumination ~20% down on today) to triggering the runaway greenhouse and boiling the oceans. But I'll leave that aside for the time being.

RETURN TO THIS

Refereences [4] through [12] cover the controversy about the original detection claim, and raised concerns about the calibration and interpretation of the signals. Clearly these authors feel that the issues raised have bene answered, and the phosphine detection can be treated as valid.

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II. LIFE CYCLE FOR VENUSIAN AERIAL MICROBES

This seems to be a re-hash and expansion of :

[14] S.Seager, J.J.Petkowski, P.Gao, W.Bains, N.C.Bryan, S.Ranjan, and J.Greaves, "The venusian lower atmosphere haze as a depot for desiccated microbial life: A proposed cycle persistence of the venusian aerial biosphere." Astrobiology 21, 1206 (2021) doi:10.1089/ast.2020.2244 [arXiv: 2009.06474]

This modle life cycle is predicated on the atmosphere of Venus. Only two references are given, but the structure of the atmosphere has been probed by multiple landers and tested by various combinations of radar from Earth and from (Venus) orbit, so it's not much in dispute.

I'm in the habit of collecting such bits of data on the expectation that I'll need them again. So ... I'll do exactly that, and put the information below. Wait - what's this - from Wiki : Additionally, the clouds consist of approximately 1% ferric chloride. Other possible constituents of the cloud particles are ferric sulfate, aluminium chloride and

Atmospheric Pressure and Temperature of Venus, against altitude. From Wiki, citing Blumenthal, Kay, Palen, Smith (2012). Understanding Our Universe. New York: W.W. Norton & Company. p. 167. ISBN 9780393912104.
Altitude (km) Temperature (K) Pressure (Pa)
0 735.16 9332032.5
5 697.16 6753311.25
10 658.16 4801791.75
15 621.16 3347778
20 579.16 2281839
25 537.16 1512782.25
30 495.16 998152.575
35 453.16 599540.025
40 416.16 354738.825
45 383.16 200522.175
50 348.16 108012.45
55 300.16 53844.105
60 263.16 23882.3025
65 243.16 9894.38625
70 230.16 3738.8925
80 197.16 482.307
90 169.16 37.85502
100 161.16 2.695245
phosphoric anhydride. Well, that's a thing I hadn't considered when making my "supply of minerals" comment above. Hmmm.

Well, let's find some pressure-temperature-altitude data. Ah, good, Wiki has done the searching for me. But ... it seems difficult to generate a chart (in LibreOffice) with multiple ranges for the X-axis, and a common factor for the Y axis. So - subterfuge. Including "tweaking" the drawing in LO.Draw. Not perfect, but it'll do for the moment.

Clearly, I've forgotten the details of Blogger's floating of elements. I'm trying to put the data table beside the graph, but that's not working. I thought I'd figured that out a while ago, but I'll have to work on it again.

Updating on 2024-05-19.

The figures in the "Temperature" column have spurious accuracy. Originally they were temperatures in °ree; Celsius at , but I've conmverted them to Kelvin, which produces about 3 seemingly significant digits.

Maybe I'll do better plotting this with GnuPlot? A project.

I need to add a line for "Earth sea level" pressure (100.0e+03 Pa) and temperature (288.16 K, like I said, "spurious accuracy"). I also need to annotate my diagram with the cloud levels and temperatures for the cycling. Or should I just copy the paper's Fig 1?

I seem to have borked the blog style. That approach at setting up "previous" and next" post-links. I knew I'd regret it.

Lower limit ~45km altitude / pressure ~1.2 bar (~120kPa) / 100°ree;C (~370 K) ; upper limit 60km / 0.2 bar (20 kPa) / 0°ree;C (~270 K). Temperatures and presures well within the range of biological activity on Earth. The visible cloud top moves through this region at different levels at different latitudes. Aerosol droplet sizes vary between around 0.1µm near the lower boundary to up to 4µm towards the upper parts of that range - reasonably realistic for bacteria.

Low in the atmosphere (within the range of the topography) is a low level "haze", with temperatures and pressures rising rapidly out of the (terrestrial) biological window.

A 5-stage life cycle is envisaged :

Proposed life cycle
Stage Description
1 The cycle begins with dormant desiccated spores (black blobs in Fig. 1) which partially populate the lower haze layer of the atmosphere.
2 Updraft of spores transports them up to the habitable layer.
3 Shortly after reaching the (middle and lower cloud) habitable layer, the spores act as cloud condensation nuclei, and once surrounded by liquid (with necessary chemicals dissolved) germinate and become metabolically active.
4 Metabolically active microbes (dashed blobs in Fig. 1) grow and divide within liquid droplets (shown as solid circles in the figure). The liquid droplets grow by coagulation.
5 The droplets reach a size large enough to gravitationally settle down out of the atmosphere; higher temperatures and droplet evaporation trigger cell division and sporulation. The spores are small enough to withstand further downward sedimentation, remaining suspended in the lower haze layer (a depot of hibernating microbial life) to restart the cycle.

The authors are using "spore" to designate a resistant, inactive life stage specifically light enough to be suspended in the atmosphere in the upper parts of the lower atmosphere. They're also using "hibernate" where "estivate" (resting through the "summer" might be more appropriate.

One thing I don't see is consideration of suunlight intensity. With about twice terrestrial illumination intensity at the cloud tops (Venus orbits at about 0.723 AU, so has an irradience of 1.912 that of Earth) that should be good, but 15km depth of cloud around terrestrial troposphere pressure will make for a lot of light absorbtion by the time you get to the lower clouds.

The Venera probes took photos. Someone knows what the illumination at the surface level is. From Wiki, although Venus is closer than Earth to the Sun, it receives less sunlight on the ground, with only 10% of the received sunlight reaching the surface, resulting in average daytime levels of illumination at the surface of 14,000 lux, comparable to that on Earth "in the daytime with overcast clouds".[68] although Venus is closer than Earth to the Sun, it receives less sunlight on the ground, with only 10% of the received sunlight reaching the surface,[67] resulting in average daytime levels of illumination at the surface of 14,000 lux, comparable to that on Earth "in the daytime with overcast clouds". OK, that will have an effect on photosynthetic yields, but not a show-stopper.

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III. REPLICATION RATES AND FALLOUT TIMES

Wrapped up in some entropic justification, and a list of quite variable "generation times" for various bacteria - they choose the old standby of a 20 minute generation time. Yeah, that might be true in aerobic, comfotable temperature, well-fed nutrient broth. It seems optimistic to me for something floating in a gas, depending on meeting aerosol droplets for most of it's chemical inventroy. They go for a 12 hour settling time, giving a potential 2(3×12) growth factor in that settling time. I distrust that 20min fuigure as being representative. Achievable, certainly, but as an average?

OK - I did the calculations, The mean of their cited dataset is 163 minutes. But the harmonic mean is 25-3 minutes. Maybe it's not such a bad extimate after all - but it's throwing away a lot of variability.

Various calculations ensue about the terminal velocity of these drops. The come to the conclusion that it's not a big problem - which we knew already because there is a cloud layer.

My thoughts

I think they're being a bit optimistic about their growth rates. The rates they're assuming are some of the fastest - not just that I've heard of, but also of their own examples. In reality, only a short part of each cycle will be spent near "optimum conditions" (whatever they are), so the average growth rates will be considerably lower.

Their calculation of fallout speeds takes no account of the "gasbag" part of their organism's name. Even a fairly modest "gasbag", supporting only half the organism's mass , would halve the settling force, while approximately doubling the drag forces. The buoyancy would be unbalanced though - sinking slightly below optimum pressure level would compress the "gasbag", accelerating the drift down, while rising above the optimum level would increase the lifting forces and accelerate the drift from optimum. The situation will be familiar to anyone who has tried scuba diving with a buoyancy compensator or "ABLJ" - maintaining your level in the water column - particularly at a decompression stop depth - can be really tricky. But it can be done. For example, fish (teleosts, those with a swim bladder) use two buoyancy systems - a major one using liquids of different density to the water, and a smaller one using gases with a much greater pressure- volume feedback as described above. That works for fishes in water - it's harder for "gasbags in gas". But not being a balloonist, I can't talk to that from experience.

I'm pretty dubious of their estimated "dry" density for E.coli (and by extension, other organic materials) 300 kg/cu.m is quite low. But I haven't read ahead yet to see where they're going with that.

They come out concluding that settling velocities are usefully long for droplets/ gasbags below about 0.1mm ... which we knew already from the overved persistence of water droplet clouds.

So what was the point of that digression?


IV. COSMIC RAY EFFECTS ON MICROBIAL LIFE

Again, I struggle to see the importance of this section. By definition, we're talking about organisms spending most of their life cycle at pressures similar to on the Earth's surfce. So, above the putative organism is a similar mass of atmosphere ("shielding") to an organism on Earth. Yes, radiation is important, but also, yes terrestrial organisms exhibit over a thousand-fold difference in radiation resistance (e.g. Deinococcus radiodurans) … so, again, wile it's important to state your assumptions, we already know the cosmic ray conditions at the appropriate levels on Venus aren't going to be wildly exclusionary.

They do make an interesting point about the conductive (UV-ionised) ionosphere providing a local magnetic field via generation of eddy currents, mitigating to a degree the absence of a geomagnetic (veneromagnetic?) field. But only up to a few hundred keV particle energy - and only (obviously) for charged particles. Which isn't as much protection as Earth's magnetic field provides, but helps to reduce the aparrent differences between Earth's surface and the Venusian cloud layers.

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Adding these effects together,

numerical simulations show that cosmic radiation would not have had any hazardous effect on putative microorganisms within the potentially temperate zone (51 to 62 km)

Which is where I started in my consideration of this section. Good to see that we agree, by rather different route.

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V. CONCLUSIONS

we can conclude that if updraughts exist, a stable population of microorganisms that in the early history of Venus emigrated from the surface to the atmospheric clouds and now remain confined to aerosols may be possible.

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The caveat about "if updraughts exist" is important. The surface topography of Venus varies by 5-8 km, while the Earth-comparable zones are 30~50km above this agitation, so it's not clear from first principles that there would be much topographically-induced vertical updraughts.

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That initial mark isn't a diacritic "backtick", though it's often presented as such, but a distinct Hawaiʻian letter ʻokina, Unicode U+02BB, decimal 699. To a linguist, it's a "phonemic glottal stop"., and the recommendation in new work is to use the UNICODE character in preference to the apostrophe or "backtick" diacritics. The correct (HTML) orthography is (all one word) "& #x2bb ; Oumuamua".

We have 1I/ʻOumuamua from 2017, and 2I/Borisov from 2019. So why not 3I/XXX? Yet. I maintain a watching brief on the Minor Planets Mailing List (MPML, and have done since ʻOumuamua. There hasn't even been a pulse of excitement with a first-report suggesting a significantly hyperbolic trajectory, even if it were later dis-confirmed. Nada. Zip. Zilch. Which isn't suspicious - yet - but it is getting just a touch nervous-making, because ... well, how did Fermi put it? "Where is everyone?"

This sounds like it's an advance in panspermia theory. It is - but not in a good way if you think that panspermia is a useful idea. The authors use the number (1) and size of ʻOumuamua (≈ 100m) to estimate numbers for the total number of impact events, and the total collision mass, then re-work that to estimate the number of (potentially) life-bearing particles to impact Earth between it's origin and the palaeontological origin of life, and from that to it's importance on a galcatic scale. Which is basically, a bog-standard panspermia argument. And their figure : assuming 109 Earth-like planets in the Galaxy, order of 105 of them might have been seeded by panspermia. One in ten thousand. I stil think that might be a bit optimistic, but it's a lot more realistic than some of the calculations done by other panspermia fans.

Panspermia remains a practically useless idea. Given that even with panspermia, somewhere has to be the origin of life, all that panspermia does is move the question of how life originated from here, under conditions compatible with the history of Earth's environment to an unknown location, with an unknown history of environmental conditions. Which, as useful ideas go, is damned-all a useful idea.

I propose Optimi-Panspermia : wherever your organism proposing panspermia lives today, the planet where it's panspermia origin is had conditions like the worst planet in the system (for Earth/ Solar system, would that be Neptune, Eris, or Mercury?), and then the dispersed panspermia seeds had to get to the Earth-analogue planet, then immediately adapt to the new conditions and take over. That sounds a credible panspermia to me. And it has no more evidence for it than any other panspermia proposal.

Sorry, did I sound like a fan of panspermia for a few femtoseconds there? Sooooo misleading.

2022-04-20

DNA, RNA, chirality.

Biochemistry notes.
Slashdot discussion
Aside on optical microscopy
next Article Description
End of document

"Eny fule no" that I've long been interested in OOL (Origin(s) Of Life). I think it even pre-dates the meeting I mentioned with Alan Cairns-Smith as a student, when he was promoting one of his books on his "clay life" hypothesis.

Well, I've just been having a conversation on Slashdot which has prompted me to improve my knowledge of biochemistry, because the question of chirality reared it's head again. (I hope any readers already know what chirality is, and why it is important in both biochemistry and discussions of OOL.)

This doesn't start at the beginning ; we'd been discussing, indirectly, OOL. See the discussion thread linked above. Slashdot has a fairly short window for discussion, before a thread is locked and archived. It also has a preview option (which too few people use, including me) because once you've posted, you can't edit or remove. (The admins can delete something, but very rarely do - it takes legal action.)

My comment to Immerman

I suspect that would be true even if the common ancestor was RNA-based.

Ummm, I think the UCGA bases in RNA are chiral - but I'd have to check. Hmmmm ...

The naturally occurring enantiomer of RNA is D-RNA composed of D-ribonucleotides. All chirality centers are located in the D-ribose. By the use of L-ribose or rather L-ribonucleotides, L-RNA can be synthesized.

Which rather implies that the bases themselves are not chiral. (I saw a mention that the purine group in RNA and DNA bases is made by metabolism of glycine - which itself is achiral.)

Adenine - achiral (just look at the structure of the molecule - no 4-radical carbons). I see an interesting note that "Both adenine and guanine are derived from the nucleotide inosine monophosphate (IMP), which in turn is synthesized from a pre-existing ribose phosphate through a complex pathway using atoms from the amino acids glycine, glutamine, and aspartic acid, as well as the coenzyme tetrahydrofolate." ... so the atoms derived from glutamine and aspartic acid must be from parts of the achiral side chains, not including the chiral amino acid centre. I also note that the highest turnover molecule in metabolism, ATP, is derived from adenine, and so by extension is achiral.

Cytosine - again, achiral ; look at the structure. Which also means that other pyrimidine derivative are achiral (unless you put in a side chain which itself is chiral). So that disposes of uracil too (the two can interconvert by amination/ deamination). Again, from Wiki, When found third in a codon of RNA, cytosine is synonymous with uracil, as they are interchangeable as the third base. When found as the second base in a codon, the third is always interchangeable. For example, UCU, UCC, UCA and UCG are all serine, regardless of the third base. Which is another clue towards the proposal that the original form of the DNA/ RNA/ "Preceeding Genetic System" may have had two-base-pair long codons, which added a third codon to the coding system when more than 15 amino acids were required by the metabolism. Not a universally accepted idea in OOL, but suggestive.

Guanine - achiral. Useless, but interesting factoid : "In 1656 in Paris, a Mr. Jaquin extracted from the scales of the fish Alburnus alburnus so-called "pearl essence", which is crystalline guanine. In the cosmetics industry, crystalline guanine is used as an additive to various products (e.g., shampoos), where it provides a pearly iridescent effect. " (Going through the process of writing these things down helps me get them to stick in my mental piling system.) Isn't crystallised guanine a common competitor in "pretty PPL/ XPL microscopic images" competitions?

Uracil - achiral again. This is the base that is found in RNA, replacing thymine, but I didn't know until now that it is actively removed from DNA strands : " Uracil-DNA glycosylase excises uracil bases from double-stranded DNA." (How does uracil get into DNA? see the note above about the deamination of cytosine.) Ah, this is interesting too, and very relevant to my interests in OOL : This problem is believed to have been solved in terms of evolution, i.e. by "tagging" (methylating) uracil. Methylated uracil is identical to thymine. Hence the hypothesis that, over time, thymine became standard in DNA instead of uracil. This snippet is worth piling away as well : Uracil-containing DNA still exists, for example in

  • DNA of several phages
  • Endopterygote development
  • Hypermutations during the synthesis of vertebrate antibodies.
. That's weird. as the saying goes, "who ordered that?".

Thymine - achiral. Nothing else particularly interesting, but a synthesis reaction described on Wiki leaves out a significant factor : "Patented 2013, the current method used for the manufacturing of thymine is done by dissolving the molecule Methyl methacrylate in a solvent of methanol." Odd capitalisation, but you probably have a few hundred grams of the compound around your house - it's the monomer of "Perspex" (under many names). Ye gods, it still shows that I spent 20 years living with a plastics chemist.

None of this is probably particularly interesting to you, but it has tickled some of my recurring interests in OOL matters. That chirality thing remains interesting. I'm probably going to have to read up on the chemistry of sugars, not just because of the thing about the spiral chirality of DNA being (by elimination) hosted in the deoxyribose backbone, not the bases. And as Molesworth and "eny fule no", biological sugars are as dedicatedly chiral as amino acids, but in the other sense (D- rather than L-). Which itself indicates that L-amino acids can produce enzymes that are perfectly happy to manipulate D- chiral molecules.

I'm going to file this post separately for my future reference.

- got hold of a biochemistry textbook . Revising my chemistry, with an emphasis on carbohydrates for the now, but I need to do some work on fats too. Noting that the "line" expression of carbohydrate structures (stretched along the carbon-carbon backbone) makes it easy to spot the chiral centres (the two off-backbone radicals are different ; this is a chiral centre [unless the two backbone segments are identical, which I don't think can happen in most sugars]).

Aside on optical microscopy.

I forgot to follow that thread (strand?) on PPL/ XPL. What do you call it when you illuminate a slide with PPL, but then insert the analyser parallel to the polarizer? You get a different set of interference colours (and not all petrological microscopes can do this), which are quite pretty. (I'm thinking of photos like this collection (of l-arginine crystals, particularly the contrasting nucleation rosettes and dendritic growths later in the article), but it seems my memory of particularly uracil and guanine being popular - lots of organic molecules are used.) Going back to the "polariser-parallel analyser" question, does it have a name? You're not looking at the ordinary vs extraordinary rays' path difference, but ... what? I really need to sit back at the microscope to work this out - probably with the plates to try some quantitative measurements.

next Article DNA/ RNA structure

https://en.wikipedia.org/wiki/A-DNA There are several different structures available to both DNA and double-strnaded RNA.

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