Historic Organic Extractions I: "On Milk, and its acid" by Carl Wilhelm Scheele

In the companion post previous to this one, I'm writing about historic methods of extracting organic chemicals. I was going to start with Scheele's methods of extracting lactic acid, but I can't find the details in any English sources. Images of the academic journal in which he posted about it are available on google scholar, but they're in Swedish, and I don't read Swedish. In this post I'll be transcribing the text and posting translations courtesy of Google Translate. So far the text is just talking about why cheese coagulates from milk when you apply acid and heat, but I expect things to improve as I continue. In my transcription, I'm currently missing some diacritical marks that might be important to the meanings of Swedish words, and also I'm occasionally mixing up a long-medial-s, "ſ" for an "f". Oops. I'll keep working to improve it.

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"Om Mjölk, och dess syra" af Carl Wilhelm Scheele

§. 1.

Det är bekant, at Ko-mjölk innehåller Smör, Ost, Mjölk-säcker, nagot extractist, litet falt, och at det ofriga ar vatten: men annu aterstar mycket, for at kunna fa en ratt chemisk kannedom i detta amne. Jag vill forst uppehalla mig litet vid Ostens atskiljande ifran vastlan, m. m. och fedan undersoka syran och defs egenskaper, fom vasslan eller jolken i varmen antager.

§. 2. a) Om nagon antigen vegetabilisk eller  mineralisk syra blandas i Mjolk, upkommer, son allmant bekant ar, en ystning. Denna ystning sker da allenast fullkomligen, nar blandningen underhjelpes med nagon varme, ty da fammanhanga Ost-particlarne, och utgora en massa. Om ystning sker med m ineraliska syror, sas Osten i mindre mangd, anom den sker med vegeetabiliska syror. b) Om uti kokande mjolk, lagges fa mycket af nagot neutral-falt, fom deruti kan uplofas, fkiljer Osten fig likaledes fran vasslan. Det famma hander ock med alla metalliska och medel-salter, samt med sacker och gummi arabicum.

§. 3. Caustika alkalier uplosa Osten medelst kokning, som med syror ater kan precipiteras; faledes kan man latt falla pa den tankan at Osten medelst nagot Alkali uti Mjolken vore uplost.

At utrona fanningen haraf, ystads Mjolken med litet, Salpeter-syra, vasslan filades och evaporerades, men gaf omfider ej ringafte fparr pa Saltpeter utan allenast det vanliga Mjolk-fackret. Således maste Mjolkens ystning med syror hafva annan orsak.

§. 4. a) Den Ost, fom sas med mineraliska syror, vifar altid fparr pa syra, hvaraf ock en del uti kokande vatten kan uplofas. b) Om til en del nyfs praecipiterad otorkad Ost, tagas 8 delar vatten, hvartil blandas fa mycket af nagon mineralisk syra, vid vattnet far fyrlig fmak, samt, tedan kokas; uploset Osten. Vegetabilisk syror och mjolk-syra losa litet eller ingen Ost. Haraf fer man orsaken, hvarfore ftorre myckenhet Oft erhalles, nar Mjolken yftas med vegetabiliska, an emd mineraliska syror (§. 2. a.) Har finner man ock igen grunden til Mjolkens ystning med syror. Osten attraherar nemligen en vifs mangd syra, och denna sorening fordrar langt ftorre mangd vatten, for at halla sig uplost, an mjolken med sig sorer. c) Blandas Mjlk med 10 delar vatten, fa fas med mineraliska syror ingen Ost. d) Om til deffa fyrliga Ost-uplosningar, tilflas af nagon concret mineralisk syra, fa praecipiteras ftorsta delen af Osten ater. Den falles likaledes af alkalier och kalk-vatten: men kommer for mycket til, uplofes Osten ater. e) Nar Osten, uti kalk eller caustikt alkali uplost, ater praecipiteras med attika, upkommer en oangenam hepatisk luckt.

Orsaken, hvarfore Neutral-och Medel-salter, Gummi och Sacker, Yfta Mjolken, (§. 2. lit. b) larer formodligen vara at finna uti vattnets narmare affinitet til dessa salter, an til Osten. Som adstringerande vaxters intusion alrid figver tecken til nagon fri och obunden syra, fa ar latt at forsta, hvarfore de ysta Mjolken; och som manga, om icke alla vaxter, med sig fora en oft-lik materia, fer man ock haraf orsaken, hvarfore China-decocter coagulera emulsioner.

§. 5. Hvad Ostens bestands-delar betrassar, ar det formodligen, fafom alla animaliska ger latinosa amnen, annu i fullt morker. Sa mycker ar fakert, at jorden i Osten ar den allmanna Terra animalis, och bestar af phosphorus-syra, mattad med ofverflodig kalk: emedan jag, medelst flere abstractioner med Saltpeter-syra otver Osten, omsider bekommit et hvitt residuum, som ar calx nitrata och terra animalis. Samma jord-art fick jag af residuum, efter Ostens destillation, och defs ytterligare calcination med saltpetrens tilhjelp uti digel, fom eljest utan saltpeter ar ganska fvar at forvandla i aska. 30 delar torkad Ost, innehaller omtrent 3 delar animalisk jord.

§. 6.

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I intend to provide the full text and the full translation, but a delightful Swedish acquaintance has been kind enough to translate section 8, which contains the lactic acid extraction. I'll reproduce his translation and notes here in full:

§8 I let the sour milk-whey evaporate, until about 1/8 remained, and all cheese had separated therefrom, whereupon I filtered the acid. To now get the terra animalis from her, I saw no other way, as lime water precipitates this soil type, than to saturate the acid with lime. When this was done, I filtered the solution, and diluted the same with 3 times as much water. To now get the lime from my menstruum, the sugar acid was an excellent means: I dissolved some of it in water and added then so much of the lime solution that no more calx saccharata precipitated, whereby I took great care not to add more of the sugar acid, than with lime water easily can be ascertained. Now remained the other substances which also should be separated from the milk acid. I therefore evaporated the acid, until it was as thick as honey, whereupon I dissolved this thickened acid in spiritus vini rectificassimus, whereby as well the milk sugar, as the other foreign, to the acid not belonging interfering substances where separated, and the acid alone in spiritus vini was dissolved, which I thereby filtered. To this acidic solution I added some clean water and distilled off spiritus again, whereupon the lactic acid remained so pure, as it, by my thoughts, with the aid of chemistry can become.

Note that 'soil type' is probably not a correct translation. Jordart is the swedish word he uses. Which can mean soil type but is more like an earth mineral quality. I hope you find a better word for it.

Note that he does not use the term 'lactic acid', but 'milk acid', and while it is called that in swedish, 'mjölksyra', I found it better to keep it as such, in order to go with his writing style. 

It's interesting to see a little of what science was like in the 17th century. Also Scheele is an important figure in the history of Sweden. He was born in occupied parts of what today is Germany and he lived in Köping, which is only an hour away from where I come from. He died 43 years old. In his life he discovered oxygen. Among, apparently, lots of other interesting things. I really enjoy the humble tone of his writing. A little before this paragraph 8, he talks about how eggwhite and cheese is basically the same substance, since it reacts in the same way to his experiments. And this sentence from paragraph 7 is just wonderful "As known, milk will in summer, in a short time, begin to sour and thicken."

Thanks, Mats!

A few notes of my own: sugar acid is an old name for oxalic acid. It was originally made by treating sugar with nitric acid. What kind of sugar? I saw a reference to sugar cane in one paper, but I'm not sure how far it was processed toward sucrose. Sucrose will work fine, and so will glucose and fructose if you have those. There are some byproducts like tartaric acid or erythronic acid, but it's a pretty simple recipe if you have access to nitric acid: 

1. Dissolve the sugar in water, add the concentrated nitric acid (like ~70%), stir with heat in a very well ventilated area to remove NO2 fumes, and remove from heat when the reaction starts going crazy, still stirring. The reaction will be hot, boiling, poisonously gaseous, blood red, and self-sustaining. It's pretty intense.  

2. When things have calmed down, boil the reaction products down to a reduced volume and allow the oxalic acid to crystallize out. This will happen fine at room temperature, and the crystals will go from reddish to white as the NO2 leaves. Wash the crystals cold water a few times if you want a smaller quantity of a purer product. 

It seems Torbern Olof Bergman was the first to publicize about this reaction, but Scheele had done it first. Both of them might have done it in 1776? 1776 might be the year that calcium oxalate was synthesized, although it had been isolated from natural sources earlier. Johan Afzelius might also deserve some credit as an early contributor. "Calx saccharata" is the calcium salt of this acid, a.k.a. calcium oxalate.

"Spiritus vini rectificassimus" is just concentrated ethanol.

Lime water is a solution of calcium hydroxide.

Terra animalis is bone ash. Bone ash is primarily composed of calcium and phosphate. The calcium phosphate mineral in non-calcined bones is hydroxypatatite, Ca5(OH)(PO4)3, and that's likely in bone ash, but I wouldn't be shocked if bone ash also had some regular calcium phosphate, Ca3(PO4)2 or even separate bits of calcium oxide or and phosphorous pentoxide, depending on the conditions of the heating (heat, duration, oxygen).

Let's recap the recipe:

1. Coagulate cheese curds from sour milk. Allow the whey to evaporate a lot and remove the separated cheese curds by filtration. I don't know what they used for filters back then. Coffee filter paper or cotton balls work fine today.

2. Apply a calcium hydroxide solution. This supposedly precipitates calcium phosphate salts. I didn't know that milk was rich in phosphoric acid, but maybe so if terra animalis is formed? Filter that out and retain the liquid. Dilute this with some water.

3. The lime water that we added got rid of the phosphorous, but now we want to remove the lime again. Next we add in oxalic acid, which produces a precipitate of calcium oxalate and leaves behind a solution with lactic acid. Scheele is careful to only apply oxalic acid as much as it keeps forming a precipitate and no more. Again, filter out the precipitate and retain the solution.

4. Boil the solution down to a thick consistency and add in concentrated ethanol, which will dissolve lactic acid but not some other impurities. The impurities can be filtered out. Finally he adds a little water and distills off the ethanol. My guess is that the lactic acid crystals remain in the pot rather than coming over in the distillate. And you'll probably have to cut the extraction short before dryness to avoid thermal decomposition and finish with some room temperature evaporation.

Pretty cool, right? Even briefer: Add calcium hydroxide water to concentrated sour whey to precipitate some garbage, and filter it out. Add oxalic acid to remove the calcium and filter that out too. Boil it down, dissolve in ethanol, filter one more time, and distill off the ethanol.

I'm quite impressed, honestly. He used the oxalic acid that he himself figured out how to produce, along with normal old calcium hydroxide and ethanol, to isolate something new from old sour cheese water. I have ready access to sugar and lime and ethanol and sour milk and never got close to doing that. I doubt I would have gotten closer if I had ready access to nitric or oxalic acid. And honestly, I've never lived anywhere that we didn't grow rhubarb, so I might have had ready access to oxalic acid too. Scheele was just a brilliant and dedicated man in his inventions and investigations.

Historic Organic Extractions

This post will be about historic methods used for the extraction of organic chemicals, especially organic acids and plant-derived alkaloids, with a special focus on the extractions done by Carl Wilhelm Scheele (1742 - 1786) and Henri Braconnot (1780 - 1855).

Regardless of who first extracted them, I also hope to touch upon these organic acids: (abietic, acetic, ascorbic, aspartic, benzoic, butyric, caffeic, citramalic, citric, ellagic, folic, formic, fumaric, galacturonic, gallic, glucuronic, glutamic, glutaric, glycolic, isocitric, lactic, maleic, malic, mycophenolic, nicotinic, oxalacetic, oxalic, p-coumaric, pantothenic, pectic, propionic, pyrogallic, pyruvic, quinic, salicylic, shikimic, sorbic, succinic, tartaric, uric)...

And these alkaloids: (aconitine, anisodamine, anisodine, berberine, boldine, coniine, ephedrine, caffeine, cephaeline, chaconine, chelidonine, cinchonidine, cinchonine, cocaine, colchicine, cytisine, ecgonine, emetine, ergine, ergotamine, erythravine, galantamine, harmaline, harmine, huperzine A, hyoscyamine/atropine, ibogaine, ibogaline, ibogamine, lobeline, lupinine, mescaline, morphine, nicotine, pentoxifylline, physostigmine, pilocarpine, piperine, protopine, psilocin, psilocybin, quinidine, quinine, reserpine, scopolamine/hyoscine, solanine, strychnine, theobromine, theophylline, tomatine, vinblastine, vincamine, vincristine, yohimbine).

This all started when I was reading about Henri Braconnot. He discovered pectin, glycine, chitin, ellagic acid, legumin, and nitrocellulose, among other things. The more I read about his discoveries, the more I felt that modern scientists have lost the knowledge of how we used to get our organic chemicals, where once this knowledge was common across the scientists of Europe.

Scheele was an ever greater giant of chemistry than Braconnot. In addition to many elements and mineral acids, he discovered (lactic, gallic, pyrogallic, oxalic, tartaric, malic, and uric) organic acids. He also isolated glycerin and lactose.

I have a feeling that the historic methods of Scheele and Braconnot will be readily adapted to the laboratory of the modern amateur home chemist, and that's one reason I'm investigating these things. Another reason is that we seem to have... misplaced our recipes? YouTube is full of historic cooking shows based on cookbooks going back to Roman times and before. It seems to me that the original recipe for isolating malic acid should have similar cultural standing as a colonial recipe for apple pancakes, at least among chemists. These recipes are our heritage and I'm eager to inherit them.

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Another cool earl chemist was Louis Nicolas Vauquelin, who supposedly discovered malic acid, camphoric acid, and quinic acid, along with some notable inorganic discoveries. Also with his assistant he co-discovered the first known amino acid, asparagine. He's often credited with discovering pectin, but he didn't isolate it, and people already knew about jam making, so I'm not sure what possible accomplishment of discovery remains for him to have made originally. 

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Looking these things up is surprisingly time consuming, and it seems like I might end up making separate posts for most of the chemicals. Maybe this post will organize them!

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Citric acid: In 1784, Scheele published a method to isolated citric acid from lemon juice in an article titled "Anmärkningar om citronsaft och ett sätt att kristallisera den" (Remarks on lemon juice and a method of crystallizing it). In "The Chemical Works of Carl Wilhelm Scheele", Anders Lennartson shares the method, which I'll summarize here: 

Boil lemon juice. Add calcium carbonate, which will cause effervescence, and keeping adding it until the effervescence ceases. Allow the mixture to cool and calcium citrate will precipitate. Pour off the liquid and wash the solid until the washing water runs clear. Add very dilute sulfuric acid to the powder and boil for 15 minutes, producing a precipitate of calcium sulfate, which can be discarded by filtering. Add dilute sulfuric acid drop-wise to precipitate any remaining calcium. Crystallize the citric acid by concentrating the liquid through evaporation over gentle heat or by reducing the solubility of the solvent through cooling or through a combination of concentrating and cooling.

Scheele tried a different method before that which failed, and it's kind of interesting to compare the methods to see what differs: "Scheele evaporated lemon juice to the consistency of honey and extracted it with ethanol, which left a sticky substance. Scheele distilled off the ethanol and expected to get a pure acid, but still failed to crystallise it.  ... Scheele found that after precipitating the acid with lime, there was a residue which had a bitter taste and was soluble in both water and ethanol."

I think one lesson here is that plants have lots of chemicals and the success of extracting one chemical from the multitude can be very sensitive to small changes in your procedure. I don't know what the bitter residue was in the failed ethanol extraction (maybe some mix of flavonoids, carotenoids, limonoids, tannins, and terpenoids?), but probably the sulfuric acid is removing the bitter thing in the successful extraction method. My guess is that there's some way to use sulfuric acid in combination with the ethanol extraction method to get citric acid crystals, but it's great that Scheele found an isolation procedure that works and doesn't require a distillation.

: Pectin

Henri Braconnot discovered pectin and lectured on its isolation to the Royal Academic Society of Nancy in 1824 and published about it in Annales De Chimie Et De Physique volume 28 in 1825 in "Recherches sur un nouvel Acide universellement répandu dans tous les végétaux" ("Research on a new acid universally diffused in all plants"). I'm still translating, but here's a paragraph about a jelly-like acid he found in dozens of plants, and probably every plant he investigated: 

[I]t is very easy to obtain it from the various parts of plants. If we operate on roots which contain starch, such as those of celery or carrot, we reduce them to a pulp with the aid of a grater to squeeze out the juice; the marc is exhausted by boiling in water sharpened with muriatic acid, then washed and heated with an extremely diluted solution of potash or soda: a thick, mucilaginous, slightly alkaline liquor results, from which the muriatic acid separates the new acid in the form of an abundant jelly, which only asks to be well washed off: in this state it is scarcely colored, especially when it comes from the parts of the vegetables who are not. This jelly has a noticeably sour flavor. Applied to a paper dyed blue by litmus, it reddens it very distinctly, although it does not retain any foreign acid.

Maybe that's pectic acid and the actual pectin is later in the paper. I'll let you know. But it's probably pectin. That's my take. To summarize his procedure here: boil grated plant matter with hydrochloric acid, then heath with dilute potassium carbonate. A jelly separates out which can be washed clean of the source liquid.

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I was curious how pectin is extracted in the modern setting. I found some weird procedures with freeze driers and chromatography and stuff, but these excerpts of pages provided by google seem pretty normal: 

"The pectin is extracted with mineral acids such as nitric, hydrochloric or sulfuric acid, phosphoric acid and citric acid in an acidic aqueous medium."

That's from "Current Advancements in Pectin: Extraction, Properties and Multifunctional Applications", which I haven't read. All of those are mineral acids except citric, which is organic. I wouldn't be surprised if you can just use any acid, provided you get a low enough pH.

"Extraction process of pectin is carried out under reflux using acidified water at 97°C for 30 min. The hot acid extract was then filtered using a cheese cloth to remove the pulp. The filtrate was then cooled to 4°C and precipitated using double the volume of ethanol."

That's from "Extraction and Purification of Pectin from Agro-Industrial Wastes", which I haven't read. If you're refluxing a liquid but not removing a component by condensing, that's better known as boiling. So you boil pectin-containing plant matter with acid and then filter out the pulp. Next, cool the liquid and add ethanol to precipitate. The ethanol acts as an anti-solvent since pectin is a polar polysaccharide (the carboxyl groups can be protonated or deprotonated) that's well-dissolved by polar solvents, while ethanol is less polar than water. 

A few studies have found that pH around 3.5 is good for precipitating the most pectin across different circumstances. A pH between 2 and 3.5 is also needed in order for pectin to gel sugar, which is why SureJell brand pectin comes preloaded with sugar and citric acid.

I hear that reducing the water content before adding ethanol means you have to add less ethanol, so maybe boiling the plant material for longer has economic merit.

The precipitated pectin is a lump of jelly. Washing a few times over a filter with neutral or acidified ethanol will improve the purity. The pectin can then be dried and ground to a powder if you like, although drying might reduce the pectin "jelly-grade" a little, which is the number of grams of sugar that a gram of pectin and gel. It's a big deal in manufacturing to find slight modifications of production steps to retain a high jelly grade, but I don't have specific tips for you on how to do that.

Anyway: we've been talking about boiling with acid and precipitating with ethanol. But Henri Braconnot boiled with acid and then precipitated with potash, an alkali. Does that work too? Did he precipitate something different?

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New Mockingbird Verses

If that diamond ring won't shine, momma's gonna buy you a big green lime
If that big green lime's too tart, momma's gonna buy you a horse and cart
If that horse cart's axle breaks, momma's gonna buy you a bunch of crates
If those crates give your fingers splinters, momma's gonna buy you an inkjet printer
If that ink jet printer jams, momma's gonna buy you a loaf of ham
If that ham is way too fatty, momma's gonna buy you a brown rice paddy
If that brown rice paddy's muggy, momma's gonna buy you a baby buggy
If that baby buggy squeaks, momma's gonna buy you some long green leeks
If those long green leeks are lachrymatory, momma's gonna buy you an African gravel quarry
If that gravel quarries floods, momma's gonna buy you some white ear buds
If those white ear buds get lost, momma's gonna read you some Robert Frost
If that Robert Frost gets boring, momma's gonna buy you some parquet flooring
If that parquet flooring gets dirty, momma's gonna tell you 'bout the works of Dharmakirti
If Dharmakirti's philosophy's not to your liking, momma's gonna take you outdoors for hiking
If on that hike we get lost in the woods, at least your momma packed you some survival goods
If those survival goods run out, momma's gonna catch you a rainbow trout
If that rainbow trout has accumulated toxins, momma's gonna boil you up her ill-fated moccasins
If those moccasins won't tenderize, momma's gonna find some street vendor fries
If that street vendor's fries smell bad, momma's gonna buy you a legal pad
If that legal pad discolors, momma's gonna buy you some warm bed covers
If those warm bed covers get moth eaten, momma's gonna buy you a lighthouse beacon
If that lighthouse beacon fails, momma's gonna buy you a pod of whales
If that pod of whales gets harpooned, momma's got a rocket ship up to the moon
If whales can't breath on the surface of Luna, we'll try it once again with a family of tuna
If the tuna survival rate's also bad, momma's gonna send up a big crawdad
If that crawdad's also a wimp, momma's gonna try with a selection of shrimp
If the shrimp should also perish, this scenario will then have become nightmarish
Soon it's death to every living thing, all because you didn't like your diamond ring

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If that ring turns out to be zirconia, momma's gonna buy you a red begonia,
if that red begonia wilts, momma's gonna buy you a Scottish kilt
If that Scottish kilt should chafe, momma's gonna buy you a big floor safe
If that floor safe's lock's bypassed, momma's gonna buy you a mizzenmast
If that mizzenmast should fall, momma's gonna buy you a cashmere shawl
If that cashmere shawl unravels, momma's gonna buy you a judge's gavel
If that judge's gavel won't pound, momma's gonna buy you a brindle hound,
If that brindle hound won't hunt, momma's gonna buy you a ventriculopleural shunt
If that shunt won't divert spinal fluid, momma's gonna cast a statue of a vinyl druid
If that vinyl statue cracks, momma's gonna buy you a Viking axe
If that Viking axe won't chop, momma's gonna buy you some lemon drops
If you find lemon drops too sour, momma's gonna buy you a wizard's tower
If that wizard's tower's cursed, momma's gonna buy you a beer bratwurst
If that beer bratwurst's too fatty, momma's gonna buy you all of Cincinnati
If Cincinnati's just not your town, momma's gonna buy you a golden crown
If that golden crown won't fit, Johnnie Cochran argues that you must acquit

Home Pigment Extraction

I like to read about chemistry, but I haven't done much in practice, and I'd like to change that. One task I've set for myself is to extract pigments in a dry form from juice and do so in a way that's food safe. Juice is basically sugar water, so I'll want to have pigment without water or sugar to feel successful. Some ideas:

1) Evaporate the juice at room temperature (perhaps near a desiccant) or in a low oven/dehydrator. This won't remove sugar, but it's a start.

2) Ferment sugars to alcohol and then evaporate or dehydrate. I've heard you can get pouches of powdered wine in Europe and that they still have a significant alcohol content. Even with ethanol being more volatile than water, evaporation might not be enough to get pigments separated from sugar/ethanol/carbohydrates. Maybe rinsing the powdered wine with water and evaporating again would help? Sounds like a lot of work, but maybe.

3) Fractional freezing. If you freeze juice or wine solidly and then let it thaw partially, you get concentrated liquid dripping off a block of clear ice which thaws more slowly. I'm not sure what if anything stays in the ice besides water. I've heard that salt will be concentrated in the concentrate, and not stay in the ice, and that's pretty cool, because it's moderately hard to separate salt from water. Pretty sure that sugars and pigments also stay in the concentrate. So maybe it's just ice in the ice. I think this is a better way to remove water from a solution if you care about preserving organic compounds, but it's also more work. But it's also less prone to growing yeast and mold.

4) Inedible solvents: After evaporating juice to dryness, next dissolve the powder in a non-water solvent, preferably one that's fairly volatile. Hopefully something will be dissolved in the new solvent and other things will not be dissolved - the latter can be filtered through coffee filter paper perhaps, and then you can evaporate off the solvent maybe. I hear that sucrose has much lower solubility in pure ethanol than it does in water, for example, so that might be a way to separate pigments from sugar. Ethanol, isopropanol, and acetone are increasingly volatile solvents that you can easily get in bulk at local stores. Suppose we try acetone - which is poison, but honestly not way, way more poisonous than ethanol. I don't know the solubility of sugar or plant pigments in acetone, but let's think about acetone for a moment anyway for illustration. If acetone is more volatile than ethanol, you might suspect that acetone would evaporate off better than ethanol - but if it's poison, then you'll also want pretty strong guarantees about evaporation before using the extracted pigments in food, so "evaporates more" might not be enough. Though I suppose you could wash with water and evaporate multiple times. How else might we remove acetone from an acetone + pigment solution?  I hear acetone freezes way way down at -93 C. So if you can cool a solution of acetone + pigment + a little bit of water down to normal freezer temperature, maybe we can assume that any solids which form will be mostly non-acetone, since acetone doesn't freeze at such warm temps. This is just fractional freezing again, but now we're taking the solid portion instead of the liquid. I'm not super trustful of this: the same reasoning would lead you to think that you could separate methanol from ethanol by distillation, when in fact the mixture behaves differently from the the components and you just can't separate them with any degree of caution, slow temperature transition, or height of reflux. So maybe you also can't separate acetone + water mixtures by freezing. I don't know. Apparently DCM, dichloromthane, is volatile enough that you can use it to extract things-soluble-in-DCM and then evaporate the DCM off under a vacuum pump - where by "can" I mean NileRed did it and was willing to drink the result. DCM didn't separate sugars from pigments, but it's evidence that toxic volatile solvents might be useful even for food-grade chemistry.

5) Freeze dryers and rotovaps. Freeze dryers are a few thousand dollars. Rotary evaporates are only one thousand dollars. These aren't real options for me, but in principle, vacuums can help remove solvents from solutions.

6) Life Straws. You can filter soda through a Life Straw to get clear soda. Lots of people do it on youtube. I'm not sure where the filtered part goes when you use a life straw. Does it clog up along the full length of the straw? Sounds awful. Is it easy to get the clogs out by running water in the other direction or blowing? I hear backflow is part of regular maintenance for a life straw. Maybe you can filter juice of it's pigment with a life straw and then use backflow to isolate the pigment clogs. That would be cool. I've got a life straw, but I haven't used it. I'll probably try some other things on this list first - but it's an option for the future.

7) Centrifugation. Centrifuges can help clarify pulpy juice like orange and tomato - clarify as in remove suspended pulp, not remove pigment or sugar. I don't think they're going to do anything for the beet juice that I'm starting with. Moving on.

8) Crystallization. To crystallize things from solution, in principle, you reduce the solvent volume and/or reduce the temperature. Adding seed crystals can also help. But I've made concentrated sugar water solutions (simple syrups) and stored them under refrigeration and not gotten any crystals. So something is missing... oh! Rock candy. I have gotten sugar crystals from a solution. Haven't done it since I was a kid. Something to review. Although the crystals take on pigment/food dye of the solution, so maybe this isn't the right route for separating sugar from pigment. ....

9) Flocculation and precipitation. ...

9) Acid-Base Extraction. ...

A Recipe For Juice

The soundtrack for this post is "Juice" by the alternative rock band Slothrust.

Sometimes I want juice and I'm all out of juice, so I try to make juice from scratch. It never turns out super well, but that doesn't stop me from trying. I'm still figuring out the recipe.

My base recipe begins with water, sugar (either glucose, sucrose, or a glucose/fructose mix like honey), organic acids (citric acid being my first acid of choice), and vitamins (in the form up a ground up vitamin tablet). The vitamin tablet so far has just been vitamin C, which is also an organic acid. I have sometimes added a dash of liqueur or artificial flavoring for taste. 

I haven't worked up to adding essential oils for flavor, but they're often components of liqueurs and artificial flavorings, so I kind of have? But before using them directly, I would have to do a lot of research. I'd want to 1) use small dilute quantities, guided by quantities found in actual fruit and quantities used industrially used as food additives, and then still reducing from there for my own prudence/paranoia, 2) avoid essential oils that have been associated in medical literature with toxic effects, even if they are components of normally consumed foods, 3) research whether commercially available essential oils have any adulterants, which they might if they're not processed to food-grade standards. Maybe it's easier to get essential oils out with dichloromethane than it is with steam distillation or whatever.

This recipe isn't very juice-like. What is it missing? Complex carbohydrates for one! Juice should have some starch and some pectin at the least. You get those when you crush plants - cell wall fragments and the like. Juice will also have some cellulose, I think. I don't feel like adding that at the moment. There might be some microcrystalline cellulose used as a filler in multivitamin tablets, honestly, but I haven't found one worth using yet. At the moment, I don't think my juice needs cellulose or other insoluble fiber, but I might reconsider it in the future.

Edit from the future: I'm a little more open to the idea of adding cellulose now, but I'm wondering where to source it. Like, paper is pretty pure cellulose, but it can be manufactured with things I don't want to eat/drink/taste/touch like sodium sulfide, anthraquinone, sodium dithionite, and BPA. I looked up cotton balls, and I got internet people scaring me about dioxin. Maybe I could use... corn husks? Yeah, maybe. I've had worse ideas. Oh coffee filter paper would probably be pretty chemical-free. I could pulverize that. Or I could use a powdered dietary fiber supplement, like psyllium husk powder / plantago seeds contain hemicellulose and heteroxylans.

Pectin powder is available in grocery stores by the gelatin, and in fact it improves the verisimilitude of the drink significantly. Apparently it's made by taking mashed pomace (fruit pulp), especially pomes like apples and quinces which can have pectin of like 10% by mashed weight, and then doing some kind of mineral acid treatment and precipitation. Pretty cool. I've got to read more about that.

I haven't yet decided on a good source of starch. Almond meal tasted good, but more like frosting than like juice. Raw wheat flower is right out. Corn starch sounds bad. Potato starch, maybe? The day I tried almond meal, I saw sunflower seeds in my cabinet and thought that might be a decent way to get a range of carbohydrates into a drink - pulverize the seeds and see what dissolves in water. They're pretty neutral in flavor. And I think I'd get some cellulose that way too, which seems... true to juice. Or I'll find something a little more exotic in the baking aisle. Lots of weird powders there. Oh, I bought honeysuckle powder not so long ago! It's marketed as a sweetener, but it's not sweet at all. It's like a mixture of dirt, sawdust, and molasses. A very brown flavor, mostly bitter. I like it, honestly, but no one I shared it with did. It's better with a sweetener. I don't even know what part of the plant is used to make it, but that's the sort of powder I should try to use for fake juice.

One thing I want from fake juice, which isn't found in my base recipe (or soda or kool-aid), is a certain texture which I imagine, the more I read, is mainly due to soluble cell wall material. A colloidal texture, perhaps? The pectin helped. I hope the starch gets me further along.

Juice is also colorful. So we could add some color. Most food dyes which bakers use are not natural and not worth adding, even to fake juice. Two natural plant pigments I considered using for color are lycopene and quercetin. You can get those in supplements in health food stores. I think the supplements come with a lot of filler and binder though. Also, apparently quercetin has quite poor water-solubility, so putting it in your drink seems like it wouldn't work very well and can't be very true-to-nature. If you look on the ingredients for cranberry cocktail, you're likely to find beet juice used for color. Using juice as an ingredient to make juice from scratch is cheating though. I need a few more steps of processing between the plant and my kitchen. Like we could dry the juice to powder and then.... do something to remove non-pigments? I don't know. Like ferment the sugars to ethanol and then freeze dry to powder maybe (Though removing water from wine by freezing (freeze-jacking) is technically illegal in the U.S. unless you've got a license to distill). Or use a volatile solvent? Maybe pigments and sugars have widely different solubility in isopropanol or acetone. But then you're risking getting isopropanol in your juice. Not ideal. Maybe membrane filtration would concentrate larger pigments in the retentate and pass simpler sugars in the permeate? Carotene is another plant pigment I considered, but it doesn't have any taste, supposedly. And I don't remember seeing it for sale in brick and mortar stores. I think it's probably easier to get beta carotene as a supplement than alpha, but they'd both probably be fine if you want some color or provitamin A.

Edit form the future: Chlorophyll! I could add some chlorophyll as a pigment. That's a good idea. Also the carotenoids lutein and zeaxanthin. I would stay away from the pigment hesperidin. Hesperidin and quercetin literature are both split between enthusiastic hippies claiming only health benefits and establishment sources claiming only health risks. My guess is that the pigments are fine in the quantities we normally eat them from natural sources, but supplementing with them might be a bad idea if you've got other health conditions like pregnancy or low INR or whatever, but not so bad an idea that it's obviously hazardous based on natural observations and anecdotes. Whatever.

That was the state of my recipe for a while until I found a recipe for apple juice:

Apple juice is a mixture of sugars (primarily fructose, glucose, and sucrose), oligosaccharides, and polysacharides (e.g., starch) together with malic, quinic, and citromalic acids, tannins (i.e., polyphenols), amides and other nitrogenous compounds, soluble pectin, vitamin C, minerals, and a diverse range of esters that give the juice a typical apple-like aroma (e.g., ethyl- and methyl-iso-valerate).

That's from "Handbook of Natural Antimicrobials for Food Safety and Quality", Chapter 16,  (Pina-Pérez, Rodrigo, Martinez).

The oligosaccharides are a little interesting. I'm not sure which ones they are, where to get them, and whether they're likely to matter for flavor or texture once I've already got simple sugars, pectin, and starch. Pectin is a structurally messy polysaccharide whose main monomer is a sugar called galacturonic acid, but there can be tons of other sugars too like rhamnose, galactose, arabinose, and xylose. If you have little oligomer chains of just galacturonic acid, then it's called polygalacturonic acid or "pectic acid". That's probably a major oligosaccharide in juice. Other oligosaccharides  are going to have multiple sugars and be kind of structurally messy like pectin. Maybe some xyloglucans and arabinogalactans and who knows what else. Weird mixes of weird sugars with weird bonds between them. Just use pectin. It's fine.

The mention of polyphenolic acids and tannins is also quite interesting. I don't know much about the classes of tannins or their extraction. Some tannins are apparently anti-nutrients, so I should maybe avoid those. There are both hydrolyzable and condensed tannins in plants? Whatever that means. And one way to get tannins is by boiling plant matter, and a higher pH, at least above 5.2, helps with the general effort of extraction. Boiling fruits to get tannins feels like cheating. That's just juice. Boiling nuts feels a little less cheat-y somehow, maybe because they're not sweet or juicy. Boiling tea leaves seems fine, but I don't want caffeine in my juice. Boiling hardwood or bark to get tannins doesn't feel like cheating at all to me; it sounds awesome. But I'd want to investigate whether those tannins differ from the ones in apple juice in important ways. One of my favorite pieces of laboratory glassware is the soxhlet extractor - kind of like a cross between a coffee maker and a Pythagorean siphon cup. It's also good for concentrating tannins, if you've got one.

I need to learn more about other phenolic compounds in juices, such as flavan-3-ols/catechins and other bioflavonoids. Anthocyanin pigments are also flavonoids. Lots to review.

Edit from the future: There's a structural thing called a flavone backbone. It's got three rings made of fifteen carbons and an oxygen. Lots of phytochemicals have the flavone backbone. They're called flavonoids. Most red, blue, and purple plant pigments are flavonoids, specifically called anthocyanins. Lots of white, yellow, and brown plant pigments are flavonoids, specifically called anthoxanthins. The yellow flavonoid pigments, anthoxanthins, come in two families, and I don't know what distinguishes them structurally. Presence of a "O=C<" ketone group maybe? Or presence of a hydroxyl group in position 3 of some carbon ring? Or something else. Anyway:

1) Flavan-3-ols: Low molecular weight flavan-3-ols are mostly white or colorless? Flavan-3-ols include catechin, epicatechin, gallocatechin, and epigallocatechin. I don't know enough about them and their occurrence in juice. Sometimes the flavan-3-ols form esters with gallic acid. Sometimes they oligomerize into proanthocyanidins, or polymerize into tannins. The proanthocyanidins in cranberries might help with UTIs and the ones in wine might help with cardiovascular buildup of atherosclerotic plaque.

2) Flavonols: Flavanols are the other kind of yellowish flavonoid pigment. There are lots of them that have only ever been found in one or two plants, and then four of them that have been found in dozens of plants. The four famous ones are: quercetin, fisetin, kaempferol, myricetin.

Here's a list of some plants which contain those four famous flavanols, assembled from random and non-reputable sources:

* Quercetin: apples, cranberries, onions, grapes, citrus fruits, tomatoes,

* Fisetin: strawberries, apples, grapes, persimmons, kiwis, peaches, tomatoes, onions, cucumbers.

* Kaempferol: apples, grapes, tomatoes, peaches, blackberries, raspberries, potatoes, onions, broccoli/kale/Brussels sprouts, squash, cucumbers, lettuce, green beans, spinach, green tea, strawberries, gooseberries, cranberries, peas.

* Myricetin: grapes, walnuts, black currants, cranberries,  oranges, tomatoes

So if you have some of those in your artificial juice, that seems fine and true to nature. Flavanols can also link up with sugars to form flavanol glycosides, e.g. rutin is a combination of quercetin, rhamnose, and glucose.

The same as with the yellow flavonoid pigments, the red/blue flavonoid pigments can come in plain versions (anthocyanidins) and glycoside versions bound to sugars (anthocyanins). The most common anthocyanidins without sugar are cyanidin, delphinidin, and pelargonidin - like 70% of what's found in plants. Peonidin, malvidin, and petunidin make up another 20%. Most of the glycoside versions, the anthocyanins, just have glucose as the sugar binding to one of those 6 anthocyanidins, but somehow there are like 500 different ones? I've probably said something wrong.

Oh! You know how apple juice is yellow-y brown? That's for the same reason that a cut apple goes brown. Oxidative enzymatic browning! Here's how it works! Maybe! You start with an enzyme called polyphenol oxidase, PPO. Peroxidase enzymes might also be involved, but less famously. The PPO enzyme can 1) turn monophenols (including pyrogallol and the amino acid tyrosine) into o-diphenols, 2) turn o-diphenols (including chlorogenic acid) into o-quinones, and 3) polymerize o-quinones (including indole-5,6-quinone and chlorogenic acid quinone) into pigments. These are melanin pigments - often called catechol melanins to distinguish them from animal melanins. Iron might be involved in the reaction somewhere? But not in the enzyme. The PPO enzyme has copper. Also, I know I didn't mention oxygen anywhere in the process. That's because I don't know where it is in the process. I also don't know how this PPO-based view of tannin formation aligns with (proanthocyanidins as oligomers of flavan-3-ols and tannins as polymers of flavan-3-ols). I'm still working on it.

So, adding some number of monophenols, o-diphenols, o-quinones, and catechol melanins might make fake juice more juice-like. From reading about this, I've developed an interest in several monophenolic organic acids which occur in small amounts in plants and some fruits: caffeic acid, quinic acid, gallic acid, and p-coumaric acid. Some if not all of these are found as intermediates in lignin biosynthesis in woody plants.

One last kind of phenolic phytochemical we haven't touched on is the stilbenoids. The only stilbenoid I know about is resveratrol: it's particularly found in the skin of grapes, blueberries, raspberries, mulberries, et cetera.

Let's talk about the "amides and other nitrogenous compounds". I've looked through a few papers on the nitrogen content of fruit juices. The better ones are from like the 1920s to 1940s for some reason. The "amides" are amino acids with amide functional groups in the side chains, namely glutamine and asparagine. Those two make up a significant fraction of the nitrogen in fruit juices and behave chemically differently enough from other amino acids that we could identify and measure them 100 years ago. Modern papers also talk about arginine a fair bit, which is another amino acid with a lot of nitrogen. I'm not sure which other amino acids are present in juice in which quantities. Total guess: aspartic acid, glutamic acid, serine, threonine, isoleucine, and tyrosine are generally represented more than the other guys. In quantifying nitrogen content of fruit juices, old-timey papers often measure ammonia. There's much less of it than of the amides, and it probably comes from decomposition of the amides. I imagine some of that decomposition happens in juice without our intervention and some of it happens in the chemical analysis with lead acetate and hydrogen sulfide and whatever else they had to use back then.

Fruit juices also have some peptides, proteins, enzymes. I don't know much about them and I can't find anyone who does. One group distinguished peptides by their molecular weight and could identify juices by the presence of peptides with those weights. That's all I've got so far. Ooh, I think you can get vegan pea protein in grocery stores or health food stores near the whey and casein protein. If you want to add traces of plant proteins to your juice, that's an option.

I should look more at grape juice literature. I'm sure the wine people have figured out in detail what kinds and amounts nitrogen grape juice has to offer to their yeasts.

Edit: In "Pathogenesis-Related Proteins in Grape" (Enoki and Suzuki, 2016), catalogs six kinds of pathogen--related defense proteins found in grapes:

* thaumatin-like proteins/osmotins
* β-1,3-glucanases
* chitinases
* ribonucleases
* lipid-transfer proteins
* oxalate oxidases/germins
.
Fantastic. The osmotins are expressed more in plants when the plants are dried out / under osmotic stress. I think the glucanases have an antifungal function. The chitinases function as both fungicides and insecticides. The others also exist. Based on "Grape and wine proteins" (Marangon et al, 2009), the osmotins and chitinases are actually the main proteins in grape juice (90%), not just the main ones associated with pathogen resistance. Marangon et alia also identified some lipid-transfer proteins, some PR-4 type proteins (a specific kind of chitinase), and an invertase enzyme which breaks sucrose into glucose and fructose monomers. Those are also in grapes in some appreciable quantity of the total protein.

When I search for structural proteins in cell walls, I mostly find references to "extensin" proteins. After those, the most important seem to be glycine-rich proteins, proline-rich proteins, and arabinogalactan proteins. Lectins might also go here? I don't much about lectins. ...

Lots of cereal grains have poorly water-soluble proteins with high amounts of proline and glutamine, called prolamine proteins. Examples lifted from Wikipedia: wheat (gliadin), barley (hordein), rye (secalin), corn (zein), sorghum (kafirin), and oats (avenin). These are concentrated in the endosperms of the grains. So if you want to make barley juice from scratch, it seems right to add some prolamine proteins.

Nuts and legumes famously have different and complementary proteins to cereal grains, right? What do those look like? Maybe between grain proteins and nut + legume proteins, we can get a pretty good idea of what proteins occur in seeds generally. ...

Let's also look briefly at proteins in seeds used as food which aren't neatly categorized as grains, angiosperm nuts, or legumes. In particular: cocoa beans, coffee beans, poppy seeds, sunflower seeds, pumpkin seeds, and pine nuts. ...


There are, like, thousands of named enzymes in plants that are proteins with catalytic functions. I can't talk about them all and I don't know which ones are important to a juice recipe. I scraped a table of contents from a book on plant enzymes and these were the most frequent words ending in "-ase": (catalase, catecholase, cellobiase, cellulase, cresolase, elastase, esterase, glucosidase, isomerase, laccase, lipase, lyase, oxidase, peptidase, peroxidase, phosphatase, polymerase, protease, proteinase, reductase, tyrosinase). I hope you find that list useful?

Did you know that many plants have lactase and galactosidase enzymes? Just like the mammalian small intestine. Pretty cool. Not sure anyone knows why.

From the fact that plant tissues are made of starch, fiber, oils, and proteins, we can be sure that plants have machinery for building and destroying those polymers, including amylase, cellulase, lipase, and protease enzymes. Maybe some  of those are juice-like. Bromelain from pineapples and papain from papayas are two famous protease enzymes sometimes used in marinades and tenderizing seasoning for meat. 

Next the recipe mentions soluble pectin and vitamin C, which we've also covered. Then comes "Minerals". "Minerals" are what food scientists call chemical elements, probably because they don't know chemistry or mineralogy. I suppose we could add some chemical elements to the fake juice. After the inescapable (C, H, O, N), and the (Na, Cl) which most people get more than enough of in their diets, the main elements for nutrition are a few non-metals (P, S), light metals (Ca, K, Mg), and heavy metals (Fe, Zn). We could probably hit all of these at once by pulverizing a decent multivitamin. No, I don't know a single decent multivitamin. But in principle, this should be doable.

Next in the apple juice recipe, "a diverse range of esters" is a good way to get flavors into fake juice. Esters also appear as components in essential oils (alongside the more obvious terpenoid compounds) and some artificial flavorings. I'm not planning to buy individual esters directly. If I did, I would probably start with methyl butyrate and ethyl butyrate; I have a standing interest in those two. But there are dozen if not hundreds of organic esters suitable for flavoring, and lots of them are fruity, and lots of them are nontoxic / generally recognized as safe in the amounts that you'd use for flavoring. If you're making fake juice and have access to interesting esters, then more flavor to you.

So, to make juice: start with the base recipe of water, sugar, organic acids, and vitamins. Then ...

1) Definitely add pectin. 

2) Figure out a starch source at least as good as potato starch or pulverized sunflower seeds or honeysuckle powder. Other pant matter like corn husks or psyllium might have some use if you want insoluble fiber polysaccharides.

3) Consider adding tannins if you can get them, maybe from boiling leaves or nuts, provided that what you get out isn't terribly anti-nutritive.

4) Try to figure out a source of anthocyanin pigments, possibly extracting them from beet juice just to put them back in to the fake-juice. Other phenolic compounds like monophenolic organic acids (e.g. caffeic, quinic, gallic, and p-coumaric acid) and things derived from them by the action of the polyphenol oxidase enzyme, PPO, are cool and juice-like, but I don't have any idea of how to get them. Catechol melanin pigments produced by oxidative browning are among these. 

5) Other pigments like lycopene, beta carotene, chlorophyll, lutein, and zeaxanthin are a little interesting. They're plant-like, to be sure. They'll give your juice some color. Some of them are tasteless and some taste bad. I'm willing to try all of them in small to moderate amounts eventually.

6) If you want your fake-juice to have a juice-like amino acid profile, start by adding the free amino acids of glutamine, asparagine, and arginine. If you want more chemical structure and nutritive balance/variety than that, try pea protein.

7) Trace chemical element nutrients are fine. I doubt they'll impact the flavor or texture much. If you're already adding vitamins to your juice, you might well already be getting these for free. 

8) Pure esters are delicious and juice-like if you have them, but they're also a component of artificial flavorings and food-grade essential oils, which are probably easier to get locally.

Happy imbibing.

---

Suppose you specifically want to recreate soursop juice for some reason. You'll want a mix of malic, citric, and ascorbic acids and a recipe with a bunch of esters. The Good Scents company has a tidy web page cataloguing the ingredients and ratios from three such recipes, as found in a patent by Manuel Rodriguez-Flores and Sonia Rivera-Gonzalez. The recipes even come in order of increasing complexity, if you want to choose your level of commitment to Soursop verisimilitude.

All the recipes have these four esters, (methyl 2-hexenoate, methyl hexanoate, methyl 2-butenoate, methyl butyrate), in similar ratios and in that order of decreasing prevalence. Rounding to integer percentages, the first recipe has 47%, 30%, 13%, and 10% of those esters respectively and nothing else. The second recipe keeps all of that, but adds in two carboxylic acids (butyric acid and hexanoic / caproic acid) and a terpene alcohol (linalool). The patent does not specify whether the linalool is the S-enantiomer, the R-enantiomer or a mixture. The final recipe also adds in tiny amounts of methyl nicotinate and methyl cinnamate (aka methyl 3-phenyl-2-propenoate), less than a tenth of a percent each.

These seem like very good recipes. In other literature, I've also seen ethyl acetate, methyl butanoate, ethyl butanoate, and methyl leucate mentioned as significant volatile components contributing to soursop flavor and aroma, alongside dozens of others that pop up whenever someone gets their hands on a gas chromatograph mass spectrometer.

I'd like to propose a 0th recipe, simpler than the others: 60% methyl 2-hexenoate and 40% methyl hexanoate. Will it be startlingly close? No. Will it be delicious? Yes.

Lutherburbanking

Luther Burbank made lots of plant crosses and hybrids. The russet potato? That was him. Shasta daisy? Burbank. And he made many more plants which you probably haven't heard of. He made a white black berry. He made a cactus without needles for use as animal feed. He was a cool guy. He didn't make the first plum-apricot hybrid, but he made lots of good ones and had a big involvement in bringing them to market. There are reportedly 113 named varieties of plums due to his experimentation with Asian plum varieties that he imported to the U.S.

From "Plant Breeding Giants" (Crow, 2001):

His successes depended on judicious employment of several techniques: he selected the best seedlings from large numbers of plants, he imported promising strains from around the world, he made crosses between distantly related varieties and even species, he exploited skillful grafting, and he astutely utilized vegetative propagation of superior recombinants, thereby preserving their genotypes. Probably his greatest contribution to science was discovering nonsegregating, true-breeding hybrids, such as from a cross between a raspberry and blackberry, that were later understood to be amphidiploids. He pioneered in regarding these as another mode of species formation.

What's stopping me or you from Lutherburbanking? Not much that I can see. "Noting but devotion", says my wise friend Feast. He did have financial support from Andrew Carnegie and other rich people, but he didn't start out that way. To start out, you need some related but non-identical plants and the patience to cross them. Maybe it would help to have an idea of what plants to cross? That's what this post is for.

You might have learned in school that "different species can't produce fertile offspring". That's bullshit. Nature doesn't care about our categories, and our categories don't reflect nature very well. Interspecific and intergeneric hybrids are quite common. Interfamilial and even interordinal hybrids are rare but documented.

So, what families of plants might we want to form hybrids from?

Here are some plant families that each include multiple edible species (leaves, seeds, or fruit): 

* Monocots:

Poaceae: bamboo, corn, wheat, rice, barley, millet, oats, rye, sorghum, sugarcane

* Caryophyllales:

Amaranthaceae: amaranth, spinach, beet, quinoa
Cactaceae: prickly pear, saguaro, agave

* Asterids:

Apiaceae: parsley: anise, caraway, carrot, celery, cilantro, cumin, dill
Asteraceae: lettuce, sunflower, artichoke, dandelion, chrysanthemum
Convolvulaceae: sweet potato, water spinach
Ericaceae: blueberry, huckleberry, cranberry
Lamiaceae: basil, heal-all, hyssop, lavender, marjoram, mint, oregano, perilla, rosemary, sage, salvia, savory, thyme

* Rosids:

Fabaceae: string bean, lentil, pea, alfalfa, clover, 
Malvaceae: cacao, kola nut, okra, durian, hibiscus, baobab
Myrtaceae: myrtle, clove, guava, allspice, eucalyptus
Rosaceae: apple, pear, quince, raspberry, strawberry, almond, hawthorn

.

Maybe I should focus on genera with multiple distinct species, but I'm just getting started and documenting my journey as I go.

Some things that have already been done, in the way of fertile edible plant hybrids: Triticale is a hybrid of wheat and rye (different genera, same family). Already mentioned, pluots/plumcots are hybrids of plums and apricots, which are different species in the same genus (Prunus). Basically every citrus you've ever heard of is a hybrid of at least two Citrus species, and in 2013, (Smith, Gultzow, and Newman) established a hybrid between Citrus wakonai and Citropsis gabunensis, previously thought sexually incompatible. Loganberries are a hybrid of the American blackberry with the European raspberry, which are both in the genus Rubus. Rubus is a difficult genus to separate into species to begin with:

Rubus is very complex, particularly within the blackberry/dewberry subgenus, with polyploidy, hybridization, and facultative apomixis apparently all frequently occurring, making species classification of the great variation in the subgenus one of the grand challenges of systematic botany.

I used to think this meant that "Rubus species" and "Rubus hybrids" weren't all that meaningful as categories. And then I learned that Luther Burbank made white blackberries! Who cares if the genetic categories are crisp! You can still get amazing phenotype differentiation.

The most commercially used mint, peppermint, is a hybrid of two Mentha species, spearmint and water mint, but apparently doesn't belong on this list: peppermint is sterile and spreads vegetatively by producing runners. Who knew! 

In 2018, some folks hybridized white rice, Oryza sativa, with a cutgrass from Madagascar, Leersia perrieri. And this will prove to be an illustrative example: they didn't just transfer pollen. They had to do embryo rescue! You take an embryo or an entire ovule from the pollinated plant and put it in a nutrient medium. A solution of Knop's mineral salts (KNO3, Ca(NO3)2, MgSO4•7H2O, KH2PO4) and sucrose is a common old-timey recipe that still works pretty well. The Murashige and Skoog medium, MS0, is a big step up in complexity, but also good; it includes may more trace elements and some vitamins and hormones and stuff. Every modern bio lab that does embryo rescue probably has their own recipes, and they often vary the nutrients with embryo growth phase. Anyway, they did something like that in 2018, and now they've got plants that can be rehybridized with white rice in order to introduce some of the good properties of the Madagascar cutgrass into rice. Genius! So sometimes plant hybridization takes more than devotion. Sometimes a high degree of genetic incompatibility means you have to nurse the first generations of offspring with chemicals. But we could also just skip that. If you're not up to culturing a plant embryo in sugar-mineral water, try making new plants the normal way. It worked for Luther Burbank.

There are lots of reasons why sexually compatible plants might not hybridize in nature: they could be geographically isolated, they could flower at different times, they might not be visited by the same pollinators. Sometimes just bringing plants together in one garden is enough to make new hybrids, although if you want to make an art of it, then manual pollination in a greenhouse is a good way to go.

Cotton (Gossypium hirsutum) occasionally forms a fertile hybrid with hibiscus (Hibiscus panduriformis), and these are in the same family, Malvaceae. One in two-thousand pollinations works and the offspring produces fewer seeds than either parent, and I don't even know if any part of the hybrid is usable as food, as hibiscus is, but it's encouraging! Even if the hybrid is useless, we might be able to re-hybridize it with hibiscus. Or other Malvaceae hybrids might be possible. That same link reports on an attempted hybridization of the cacao tree (Theobroma cacao) and Mountain cocoa (Herrania mariae) (both in Malvaceae), which produced fruit but not viable seeds. But maybe we just need to roll the dice 2,000 more times and then we can get new chocolates. I hear that there's some commercial demand for chocolate.

I've got a suspicion that plants which can double their genomes (auto-polyploids) are good candidates for forming vigorous hybrids containing a complete set of genes from both parents (allo-polyploids). That's something to look into. For example, hexaploid bread wheat (Triticum aestivum) (which you might also know as all-purpose flour) is an inter-specific allo-polyploid hybridization of tetraploid durum wheat (Triticum durum) (which we use for pasta) and the diploid Tausch's goatgrass (Aegilops tauschii). The durum might also be an allo-polyploid? I don't know much about it. Canola (Brassica napus) is an allo-polyploid hybridization of Brassica rapa (turnips, et cetera) and Brassica oleracea (broccoli, et cetera). There are probably others.

What about Lamiaceae? Most of the cooking herbs are in Lamiaceae. It would be cool to get some new ones. We could also just try using some already existing Lamiaceae plants in the kitchen that we haven't used before, but that's not the topic of this post. We've already seen that Mentha species can cross. What about basil with heal-all or perilla with savory? If basil could be hybridized with rosemary, the Mediterraneans probably would have found out hundreds or thousands of years ago, but how about trying some geographically isolated species?

My guess is it still won't work. Basically anyone who has put together an herb garden has collected Lamiaceae plants that were once geographically diverse and we just don't get cool hybrids that way. But if you've already got an herb garden, why not try lutherburbanking it? Spread some pollen around, see what happens.

One kind of hybrid that people do commonly get in their gardens is with squashes/gourds in the genus Cucurbita. Cucurbita maxima and Cucurbita moschata often form seedless hybrids when grown together. Also Cucurbita pepo has a lot of morphological variation between cultivars and you can get some crazy shapes when they cross. I once had a yellow C. pepo in the shape of a trumpet mute with knuckles, which I guess is like halfway between summer squash and pattypan, but the seeds were supposed to be zucchini. That's all within one species - nothing too crazy genetically, but you can get some cool things if you're into knuckled trumpet mute squashes.

Apparently modern sugar cane varieties, genus Saccharum, are often a mix of up to three wild Saccharum species, and there have also been successful hybridizations and back-crosses of Saccharum with corn (Zea mays), with sorghum (Sorghum bicolor), with some wild broomsedge grass (Erianthus), and with some Bamboo (Bambusa), and with cogon grass (Imperata cylindrica). Some of these apparently requires many thousands of attempts to get a single hybrid.

In 1995, (Li, Liu, and Luo) made a hybrid of Brassica napus and Chinese violet cress (both Brassicaceae), and it's crazy? The genomes separate during mitosis but you can keep getting hybrid plants out?:

From the selfed progeny of the hybrid, mainly two kinds of plants, B. napus and the hybrid, were found. The hybrid plants of the selfed progeny again produced two kinds of plants, B. napus and the hybrid.

How about plants in the heather family, Ericaceae? The lingonberry (Vaccinium vitis-idaea) sometimes forms a hybrid in nature with the European blueberry (Vaccinium myrtillus). It was first discovered by Ruthe in the late 1800s and bears the name (Vaccinium intermedium Ruthe). I don't yet know whether it is fertile. The Andean blueberry (Vaccinium meridionale) has been crossed with the lingonberry and the hybrid displayed fertility in backcrosses with both parents. The team of  (Vorsa, Johnson-Cicalese, Polashock)... made a vigorous blueberry x cranberry hybrid, but they weren't sure if it was fertile at the time of publishing. Before we talk about it, let's go over cranberry genetics. The large American cranberry used for juice and sauce is Vaccinium macrocarpon. There are three other species of Cranberry in the U.S. of less commercial importance

1) The southern mountain cranberry (Vaccinium erythrocarpum), which is native to the southeast US and also China+Japan+Korea, weirdly. The other three U.S. species are more closely related to each other and this one is more distant. I don't know much about it

2) The northern cranberry (Vaccinium oxycoccos). More cold tolerant than the American cranberry, smaller fruits, often polyploid.

3) The small cranberry (Vaccinium microcarpum). Micro-carpum versus macro-carpon - It's annoyingly close, I know. V. microcarpum is commonly included as in V. oxycoccos, but I've been convinced - by "Pacbio Sequencing Reveals Identical Organelle Genomes between American Cranberry and a Wild Relative" (Diaz-Garcia et al., 2019) - that it shouldn't be. Microcarpum is diploid, probably branched off from the diploid macrocarpon, and oxycoccos is a polyploid hybrid of microcarpum and macrocarpon. Anyway, this one is also small and also cold tolerant.

Okay, back to the blueberry x cranberry hybrid paper. Vorsa and friends first crossed the Florida evergreen blueberry (Vaccinium darrowii) with "diploid small-fruited cranberry, V. oxycoccos". Diaz-Garcia et al. teach us that diploid oxycoccos is more properly called V. microcarpum. The result of that crossing didn't produce a vigorous hybrid. It was weak, they said. If you tried to make cran-blueberry sauce from it, you'd get weaksauce. Then Vorsa and friends crossed the same Florida blueberry with a cross of V. oxycoccos and V. macrocarpon and they got a plant that lived! They didn't know at the time of publishing whether it was fertile, but they got a vigorous hybrid. But, honestly, the oxycoccos x macrocarpon hybrid is almost as interesting to me as the blueberry x cranberry hybrid. There isn't a lot of literature that I've seen on intentionally crossing cranberry species. I think that's more because I'm doing a poor job searching, but still - if we could get a more cold tolerant large cranberry by crossing, that would be amazing. 

For cold tolerance in the heath family, Ericaceae, I'd previously been looking with hungry eyes at a plant called winter heath (Erica carnea), whose flowers look a lot like cranberry flowers. It springs up in the mountain snow in the Alps, with a interesting pink and black coloration. I was worried we'd have to figure out an Erica x Vaccinium cross to get large cold tolerant cranberries, but maybe we can just cross cranberries with cranberries! That sounds easier. Or cross them with lingonberries or blueberries or whatever. Do it all. Make new crops.

The highbush blueberry (Vaccinium corymbosum) has been crossed with the deerberry (Vaccinium stamineum), and then backcrossed into the blueberry with an aim of making more drought-resistant blueberries.

...

My wise friend Feast asked me what plants I actually want to improve in which ways by hybridization and/or selection from natural variation. I have a standing interest in making plants more cold tolerant. This is mostly due to my interest in space colonization and slightly due to living in a moderately cold climate with a moderately short growing season. Dwarf varieties of normally large-growing plants, like grains, are also desirable for use in early space botany.

Another interest of mine is improving the proteinogenic amino acid profile of grains. There are cultivars of corn in use in some countries, so called QPMs or Quality Protein Maizes, that are complete proteins. I'd like to play a role in similarly improving wheat and rice as protein sources. Also, buckwheat already exists and is delicious and are complete protein. The world should use more buckwheat, and if there's any good reason why we're not, then let's Lutherburbank up a solution to that.

You might have heard that Brussels sprouts used to be more bitter and have been made milder over the last ~30 years by the efforts of people including Hans van Doorn. Well, I don't particularly like non-pickled cucumbers; what if we used our ingenuity to make them into palatable food too?

...

Integer Relation Algorithms

Last year, I investigated polynomial continued fractions at some length. I found some pretty cool relationships; if you wanted to inscribe them on my grave, I wouldn't be upset - not that I'm planning to die. 

For many continued fractions that seem to converge to real values, I was not able to find separate finite closed-form expressions, but I'm ready to try again. My technique in the last post was to search through coefficients of Möbius transformations of famous mathematical constants for coincidences with convergent values of continued fractions. My technique in this post will be... Integer Relation Algorithms!

One of the simplest and oldest ones is called the Lenstra-Lenstra-Lovász algorithm, or LLL. Another famous one is the PSLQ algorithm, which seems better, but I'm going to start with LLL. Apparently, it's basically a combination of the Euclidean algorithm for finding greatest common divisors with the Gram-Schmidt orthogonalization process. I like both of those things! It seems that you can take a given real-valued constant, and construct from it a matrix that represents some unknown polynomial, perform the LLL algorithm on the matrix, and sometimes you get out integer coefficients for a polynomial which has the given constant as a root! Amazing! An algebraic number explainer. And there are some generalizations for finding expressions for a given constant where the polynomials have non-integer coefficients or even non-algebraic coefficients. That's what this post will be about. Starting with the integer coefficients.

...

Hm. I tried to express six mysterious constants from the PCF post as roots of quadratic polynomials with integer coefficients without luck. Let's do an example. Our constant r will be T3 from the PCF post, 1.1263572396234227708. We set up the following matrix for a quadratic polynomial:

[1, 0, 0, 10000 * (r ** 2)],
[0, 1, 0, 10000 * r],
[0, 0, 1, 10000],

and run LLL reduction on it. The first vector of the resulting basis will have four components. If the fourth component is nearly zero (or at least much smaller in magnitude than the other components?), then the first three components are likely our polynomial coefficients, defined up to a sign change.

But the first vector in the LLL reduced basis with that {r} is

[8, -17, 9, 13],

, and the corresponding quadratic polynomial

y = 8x^2 - 17x + 9

has a root nearby {r} at 

x = 9/8 = 1.125

, but not at {r}. Sad.

Let's try higher degree polynomials!

Let's start with a sanity check. The polynomial x^3 - 2x^2 + x + 2, which I just made up, has a single real-valued root at ~ -0.6956207695598. Let's see if we can recover the coefficients from the root.

Here's the matrix:

[1, 0, 0, 0, 10000 * (r ** 3)],
[0, 1, 0, 0, 10000 * (r ** 2)],
[0, 0, 1, 0, 10000 * r],
[0, 0, 0, 1, 10000],

.  I run LLL reduction on that and the first vector in the new basis that I get out is:

[1, -2, 1, 2, 0]

which has the desired coefficients. Radical. But it didn't work for T3 or any of the other constants I was testing.

I tried fourth degree polynomials and I got a match, but I'm pretty sure it's a false positive. The number {2 / (sqrt(pi) * e * erfc(1))} is pretty close to a root of 

y = 3x^4 - 5x^3 - 4x^2 - 9x - 2

, in particular the erf thing is about

2.6389674131942744

and the root is about

2.6389675142347912

.

The constant T1, {0.4084843294696858}, from the PCF post is moderately close to a root of 

x^4 - 2x^3 + 2x^2 - 3x + 1

and the constant T2, {0.8120409412226914}, is close to a root of 

x^5 - x^4 - 2x^3 - 1x^2 + x + 1

.

I've suddenly lost hope in this project. In the polynomial continued fraction post, the constants were all rational, quadratic, or non-algebraic. There weren't any third roots, for example. My old techniques were good enough to find quadratic constants, and while this technique might find third roots and higher, I doubt that PCFs produce third roots.

Also, I think there's something slightly wrong with my LLL implementation: when I get the coefficeints out, my coefficients match other sources, but the last number in my vector is always an integer and other sources have non-integer entries. So.... I don't think fixing it would change anything substantive above - clearly my code can find polynomials with nearby roots, but I'm a little sad that my code doesn't exactly match my references.

Might come back to this later with a generalization of LLL.

...