Introduction Voiceover:

You are listening to season five of

Introduction Voiceover:

Future Ecologies.

Mendel Skulski:

Before we start the show, we want to send a huge

Mendel Skulski:

thank you to our amazing community on Patreon. Future

Mendel Skulski:

Ecologies just wouldn't be possible without you, and we are

Mendel Skulski:

beyond grateful to have your support. We hope it's obvious

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that every one of our episodes is a pretty considerable effort.

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Every single patron means more ambitious stories, fair pay for

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Making this show. We'd do it for free, if we could. But until

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We make this show because we think it has the potential to

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Mendel Skulski:

while staying ad free and independent. Join us at

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futureecologies.net/patrons Okay, that's all. On to part two

Mendel Skulski:

of Spiders Song.

Mendel Skulski:

Welcome back. My name is Mendel.

Adam Huggins:

And I'm Adam.

Mendel Skulski:

And this is Future Ecologies. Today, in

Mendel Skulski:

Spiders Song Part Two, we're taking our seats in the concert

Mendel Skulski:

hall of life — audience to the grand dance of evolution, with

Mendel Skulski:

taxonomist, phylogenetic theoretician, and jumping spider

Mendel Skulski:

devotee Wayne Maddison.

Wayne Maddison:

Hi. Good to be back.

Adam Huggins:

In other words, we are jumping in right where we

Adam Huggins:

left off.

Mendel Skulski:

So do you want to give us a quick recap?

Adam Huggins:

Sure. Jumping spiders are basically like tiny,

Adam Huggins:

eight legged, big eyed cats, slash birds of paradise — in

Adam Huggins:

that there are bedazzled males that court mates by dancing. And

Adam Huggins:

also by singing! In a manner of speaking... they vibrate.

Mendel Skulski:

Yeah, go on.

Adam Huggins:

And not only are their species really diverse in

Adam Huggins:

shape, and color, they also demonstrate a lot of convergent

Adam Huggins:

evolutionary patterns, which are not limited to independently and

Adam Huggins:

repeatedly developing color vision, ever more complex

Adam Huggins:

courtship rituals, a bunch of them have become ant-like, and

Adam Huggins:

there's something going on with their Y chromosomes.

Mendel Skulski:

Yeah, mostly. The Y chromosome thing is

Mendel Skulski:

actually just the one genus Habronattus, not all jumping

Mendel Skulski:

spiders. But it'll be important later on, I promise.

Mendel Skulski:

Where we left off in Part One, Wayne was overcome by his sense

Mendel Skulski:

of awe — that evolution isn't just an endless chaos of

Mendel Skulski:

diversity. It seems to cohere around certain patterns, motifs,

Mendel Skulski:

melodies, themes and variations. It seemed to him like the

Mendel Skulski:

grandest possible symphony. If only he could hear it.

Wayne Maddison:

And at first, I didn't know what to do with

Wayne Maddison:

that. But then I thought "Oh! I'm a computer programmer. I do

Wayne Maddison:

visualizations of change on phylogenetic trees. Why don't I

Wayne Maddison:

program a sonification of change on trees?"

Adam Huggins:

I'm assuming what a visualization is to our eyes,

Adam Huggins:

a sonification would be to our ears.

Mendel Skulski:

Yeah. sonification is like

Mendel Skulski:

transmogrifying data into sound. In the same way that you might

Mendel Skulski:

turn that same data into a graph. Sonification is the

Mendel Skulski:

auditory equivalent.

Adam Huggins:

So last episode, we were figuratively talking

Adam Huggins:

about how evolution is a form of music. And now you're talking

Adam Huggins:

about literally making evolutionary patterns into

Adam Huggins:

music.

Mendel Skulski:

Yeah, exactly. So, this practice of

Mendel Skulski:

sonification has been used to explore and communicate climate

Mendel Skulski:

data, X-ray astrophotography, prime numbers, and even

Mendel Skulski:

sequences of DNA itself.

Mendel Skulski:

But what Wayne is talking about here is sonifying a phylogeny —

Mendel Skulski:

an entire family tree of many organisms.

Wayne Maddison:

A phylogenetic tree is a statement about the

Wayne Maddison:

history of lineages in the past. And we can't actually go back in

Wayne Maddison:

a time machine and see those lineages, so we have to

Wayne Maddison:

reconstruct it. And we can reconstruct it with lots of

Wayne Maddison:

data, occasionally through fossils. But mostly nowadays, we

Wayne Maddison:

use genetic data to reconstruct these trees. And it's pretty

Wayne Maddison:

clear, we're doing a pretty good job of it, because we've got so

Wayne Maddison:

much data that's all speaking to the same phylogenetic tree. But

Wayne Maddison:

nonetheless, it's still a hypothesis.

Mendel Skulski:

So to draw a phylogenetic tree, they have to

Mendel Skulski:

gather specimens, sample their DNA, and assess them for

Mendel Skulski:

different characteristics, like which ones have Y chromosomes.

Mendel Skulski:

Then they use some of the statistical tools that Wayne

Mendel Skulski:

developed to create an estimate of who branched off from who,

Mendel Skulski:

and what the characteristics of those ancestors were most likely

Mendel Skulski:

to be.

Adam Huggins:

So like, if a scientist took you and me, they

Adam Huggins:

could cast back and figure out who our most recent common

Adam Huggins:

ancestor was and what traits they might have had — based on

Adam Huggins:

what you know about us, and maybe some fossils.

Mendel Skulski:

And some DNA.

Adam Huggins:

Yeah and a computer program. Okay.

Mendel Skulski:

Yeah. So so after they've done that, they

Mendel Skulski:

have a sequence of all these different lineages, starting

Mendel Skulski:

from a common root, and then branching and changing through

Mendel Skulski:

time.

Wayne Maddison:

But what would it sound like? Would we hear

Wayne Maddison:

harmonies would we hear melodies clearly, and so forth? I didn't

Wayne Maddison:

know.

Mendel Skulski:

And as far as I could tell, although this world

Mendel Skulski:

of data sonification is growing really rapidly, the sonification

Mendel Skulski:

of phylogeny is unprecedented. Wayne's experiment would be a

Mendel Skulski:

world first.

Wayne Maddison:

I wanted this to have some basis of reality. So I

Wayne Maddison:

started with a real dataset of Habronattus.

Mendel Skulski:

Habronattus, also known as the paradise

Mendel Skulski:

jumping spiders, most of which are native to North America. And

Mendel Skulski:

the characteristics examined by that dataset were the various

Mendel Skulski:

sex chromosomes...

Wayne Maddison:

and the issues of the the chiasma localization.

Adam Huggins:

... that is, that is not a term that I am familiar

Adam Huggins:

with.

Mendel Skulski:

Okay, bear with me for one last piece of

Mendel Skulski:

cellular biology.

Mendel Skulski:

If we must.

Mendel Skulski:

Remember that you've got half of your chromosomes from each of

Mendel Skulski:

your parents, right?

Adam Huggins:

Yes.

Mendel Skulski:

So well, most of the time, the chromosomes from

Mendel Skulski:

both contributors are paired up, but separate. But during

Mendel Skulski:

meiosis, the moment at which sperm or eggs are being

Mendel Skulski:

produced, the DNA from each pair of chromosomes is shuffled

Mendel Skulski:

together, swapping the copies of genes from either parent. That's

Mendel Skulski:

the actual moment of genetic recombination that gives you

Mendel Skulski:

variations.

Adam Huggins:

Yeah, no, no, I'm, I am still with you.

Mendel Skulski:

So the chiasma is the crossover point along the

Mendel Skulski:

leg of the chromosome, where that swap takes place.

Adam Huggins:

Got it! So if you're picturing these cute

Adam Huggins:

little X chromosomes with their little dancing legs, right, four

Adam Huggins:

legs, it's like, where is that spot where they cross over

Mendel Skulski:

And swap.

Adam Huggins:

and swap their information. Yeah, okay.

Mendel Skulski:

Wayne had data that included the physical

Mendel Skulski:

measurements of where the chiasma was located for each of

Mendel Skulski:

these species of Habronattus jumping spiders. It might be

Mendel Skulski:

closer to the middle of the chromosome, or closer to the

Mendel Skulski:

end.

Wayne Maddison:

So we were looking for a correlation

Wayne Maddison:

between where the chiasmata occurred along the chromosome

Wayne Maddison:

and the evolution of the Y chromosome. And at first glance,

Wayne Maddison:

you might think "Well, why should those even be connected?

Wayne Maddison:

It's not as if you needed the chiasmata in a place to generate

Wayne Maddison:

the Y." So they seemed like two different aspects of the

Wayne Maddison:

chromosomes.

Wayne Maddison:

There had been a prediction that there should be some sort of

Wayne Maddison:

correlation in this case that you might expect to see when

Wayne Maddison:

there is a Y, the chiasmata would be more towards the tips

Wayne Maddison:

of the chromosomes. So that was before our study. And it turned

Wayne Maddison:

out that when we looked at it, that correlation is actually

Wayne Maddison:

there.

Mendel Skulski:

And in general, correlations like these are

Mendel Skulski:

exactly what evolutionary biologists are looking for —

Mendel Skulski:

puzzling out why when one feature is like this, another

Mendel Skulski:

feature tends to be like that. So Wayne decided to sonify this

Mendel Skulski:

family tree of Habronattus jumping spiders, comparing the

Mendel Skulski:

location of their chiasmata with the evolution of a new Y

Mendel Skulski:

chromosome.

Wayne Maddison:

So here's how it turned out. First, let's just

Wayne Maddison:

focus on the speciation events those points where lineages

Wayne Maddison:

diverge. Every time you hear a tone, that's a spider lineage

Wayne Maddison:

splitting in two.

Wayne Maddison:

The next layer has to do with the chiasmata, where they are in

Wayne Maddison:

the chromosomes. And because where they are in the

Wayne Maddison:

chromosomes is variable, like it's a continuous variable,

Wayne Maddison:

you're gonna hear the tone going up and down in different amounts

Wayne Maddison:

as the chiasmata slide up or down.

Wayne Maddison:

So, you know, at this point, I'm thinking "Hmm, I'm not... I'm

Wayne Maddison:

not really hearing any grand symphonies yet, it's sort of

Wayne Maddison:

intriguing, but it's not sounding particularly orderly to

Wayne Maddison:

me." But, you know, I went ahead and tried it now with the Y

Wayne Maddison:

chromosomes. So here, you're going to hear a little ping,

Wayne Maddison:

every time a Y chromosome evolves, and a second little

Wayne Maddison:

ping a different sort, if it actually reverses back to loss

Wayne Maddison:

of Y.

Wayne Maddison:

And now, here are all of them — the speciation events,

Wayne Maddison:

charismata, and the Y chromosome — all together.

Wayne Maddison:

I mean, I have heard 20th century classical music that

Wayne Maddison:

sounded a little bit like that, but it really wasn't the

Wayne Maddison:

symphony that I was expecting.

Adam Huggins:

I mean, I think I enjoyed that, because I have a

Adam Huggins:

love of John Carpenter horror movies from like the 70s, and

Adam Huggins:

80s, and 90s.

Wayne Maddison:

And looking back, I can see that there were

Wayne Maddison:

a few things wrong with it. The first being how it starts

Wayne Maddison:

slowly, and then gets busier and busier and busier, as if

Wayne Maddison:

suddenly all sorts of extra things are happening.

Mendel Skulski:

Like it just gets exponentially louder and

Mendel Skulski:

denser, until it suddenly ends — which isn't really the shape of

Mendel Skulski:

most music that we tend to listen to.

Adam Huggins:

No, not not mostly no.

Mendel Skulski:

So why do you think the data sounded like

Mendel Skulski:

that?

Adam Huggins:

Well, speciation, right? Evolution tends to become

Adam Huggins:

more complex over time. All of the phylogenetic trees that I

Adam Huggins:

have ever seen begin with a single line, and split and split

Adam Huggins:

and split and split and split until you've got an exponential

Adam Huggins:

number more species than when you started. So yeah, it makes

Adam Huggins:

perfect sense.

Mendel Skulski:

But remember that these trees are constructed

Mendel Skulski:

by calculating back from species that are still around today. So

Mendel Skulski:

what's missing?

Adam Huggins:

I mean, we're missing all of the spiders that

Adam Huggins:

have gone extinct.

Mendel Skulski:

Bingo.

Wayne Maddison:

Part of the problem with extinct lineages is

Wayne Maddison:

that we don't see them today. So we don't know exactly how many

Wayne Maddison:

there are in Habronattus. And there are no known fossils, it's

Wayne Maddison:

not like we can figure it out that way. But we can get an

Wayne Maddison:

estimate of how many there likely would have been. And so

Wayne Maddison:

one way to do this is to do a simulation of the dynamics of

Wayne Maddison:

branching and extinction. And we can sort of populate all those

Wayne Maddison:

lower parts of the tree where things went extinct. And that

Wayne Maddison:

would make it so that it was more even in terms of the

Wayne Maddison:

busyness all the way through.

Mendel Skulski:

And if you you know, if you were to simulate

Mendel Skulski:

those extinct lineages, it raises questions about whether

Mendel Skulski:

you'd want to be able to hear the difference between the real

Mendel Skulski:

and the imaginary ones. And in the end, with all of the various

Mendel Skulski:

branches, you still have to deal with a lot of overlapping sound.

Wayne Maddison:

The second thing that's wrong, well, there's

Wayne Maddison:

probably more than one here. But the second thing that's wrong is

Wayne Maddison:

that you're not able to really hear each of the voices and the

Wayne Maddison:

melody that it might be playing, because I'm using the same set

Wayne Maddison:

of notes all through the whole tree. And that what I really

Wayne Maddison:

needed to have done was somehow distinguish all these voices so

Wayne Maddison:

that you could hear them separately. So it was almost

Wayne Maddison:

like I should have said, okay, at the base of the tree at the

Wayne Maddison:

root, there was a divergence event. And that split between

Wayne Maddison:

the woodwinds and the strings, for instance. And then on the

Wayne Maddison:

lineage of strings, it split again between the bass and all

Wayne Maddison:

the smaller ones, and likewise on the woodwinds. And that

Wayne Maddison:

perhaps, if you had it so that the voices were distinguishable,

Wayne Maddison:

you could hear them as different, then you could more

Wayne Maddison:

easily hear the little melodies that were happening as chiasmata

Wayne Maddison:

and Y chromosome evolution followed each other. But I

Wayne Maddison:

realized, "Oh, this is going to take a lot more work than I'm

Wayne Maddison:

ready to do." There were lots of spiders waiting for me to study

Wayne Maddison:

them.

Mendel Skulski:

And so, four years ago, that's basically

Mendel Skulski:

where the story would have ended — with a beautiful metaphor, and

Mendel Skulski:

a not quite as beautiful sonification. And I wasn't

Mendel Skulski:

satisfied with that.

Mendel Skulski:

"I... I was wondering...

Mendel Skulski:

so I asked Wayne, if I could take my own spin at it.

Mendel Skulski:

"And sort of try to take it to the next step as part of this

Mendel Skulski:

project."

Wayne Maddison:

Sure, I think that could be fun.

Mendel Skulski:

And so I tried. But after a few very

Mendel Skulski:

enthusiastic but ultimately false starts, I too realized

Mendel Skulski:

that this was a way bigger project than I had anticipated.

Mendel Skulski:

Not least because at the time I, I didn't really know anything

Mendel Skulski:

about making music. But it was this project that was my

Mendel Skulski:

motivation to learn. And even while this project was on the

Mendel Skulski:

backburner, I fell in love with learning the patterns of music,

Mendel Skulski:

and with the principles of electronic synthesis. I fell in

Mendel Skulski:

love with making music just for its own sake.

Adam Huggins:

I enjoy listening to the music you make.

Mendel Skulski:

Thank you. You know, looking back, I would say

Mendel Skulski:

that this was one of my Divide Creek moments. Like this story,

Mendel Skulski:

put me on a path. And I think I'll be on it for the rest of my

Mendel Skulski:

life.

Adam Huggins:

I know that feeling. Yeah.

Mendel Skulski:

But the other part was that in order to make

Mendel Skulski:

it happen, I needed help. In fact, I needed a whole team.

Adam Huggins:

Mendel that's called a band.

Mendel Skulski:

Well, allow me to introduce Duncan Geere.

Duncan Geere:

Hello, what's up party people?

Mendel Skulski:

And Miriam Quick.

Miriam Quick:

The previous slide where we have the phylogenetic

Miriam Quick:

tree, does the horizontal axis represent time on a linear

Miriam Quick:

scale? Or does it represent some other degree of change,

Mendel Skulski:

Duncan and Miriam are information

Mendel Skulski:

designers, and they're the hosts of a really wonderful podcast

Mendel Skulski:

that's completely dedicated to data sonification. That's called

Mendel Skulski:

Loud Numbers. Next,

Damien de Vienne:

There must have been a molecular clock.

Mendel Skulski:

This is Damian de Vienne, evolutionary

Mendel Skulski:

biologist at the University of Lyon.

Damien de Vienne:

So you have a branch length usually represent

Damien de Vienne:

the number of mutations that occur along these branch. And

Damien de Vienne:

then if you have a hypothesis of how fast mutation accumulates,

Damien de Vienne:

then you can transform that to time,

Mendel Skulski:

I did actually end up finding one other

Mendel Skulski:

precedent for phylogenetic sonification after Wayne's

Mendel Skulski:

original attempt. It wasn't exactly a piece of music, but

Mendel Skulski:

more like a proof of concept. Damien was a co author, along

Mendel Skulski:

with his friend, Henri,

Henri Boutin:

We've done a little batch in pure data, which

Henri Boutin:

was sort of a test just to see if it's possible to sonify trees

Mendel Skulski:

This is Henri Boutin, acoustic researcher at

Mendel Skulski:

like that.

Mendel Skulski:

IRCAM. That proof of concept that I found was really just a

Mendel Skulski:

side project between him and Damien.

Henri Boutin:

We are friends since a lot of time. We used to

Henri Boutin:

do music and things like that. But we've never, we've never

Henri Boutin:

worked together. And this was the first opportunity to work

Henri Boutin:

together.

Mendel Skulski:

And finally, local wizard slash generative

Mendel Skulski:

music researcher and PhD student, Simon Overstall.

Simon Overstall:

Good morning.

Mendel Skulski:

Who joined me in Pacific timezone solidarity

Mendel Skulski:

whenever we met with our European collaborators.

Simon Overstall:

I need another coffee now.

Adam Huggins:

So what did you do with this incredible team of

Adam Huggins:

people?

Mendel Skulski:

Well, I think it's probably better if I spare

Mendel Skulski:

you the prototypes and the meetings and the revisions, I'll

Mendel Skulski:

just jump straight to what we ended up with. Because just like

Mendel Skulski:

Wayne's version, I'm going to need to explain what you're

Mendel Skulski:

about to hear.

Adam Huggins:

Yeah, all of the all of the best music requires

Adam Huggins:

extensive exposition, and I am here for it.

Mendel Skulski:

Well, in this case, yes.

Adam Huggins:

I'm all ears.

Mendel Skulski:

So here we're using the same underlying data

Mendel Skulski:

as Wayne. We've got these species of Habronattus jumping

Mendel Skulski:

spiders, we know the location of their chiasmata and whether or

Mendel Skulski:

not they have Y chromosomes. But the difference between our

Mendel Skulski:

interpretations starts with how we represent time.

Adam Huggins:

Okay.

Mendel Skulski:

The tree itself is the same, and we're not

Mendel Skulski:

simulating any extinct species. We're just approaching playback

Mendel Skulski:

in kind of a different way.

Adam Huggins:

But what do you mean by that?

Mendel Skulski:

So time still flows from the past to the

Mendel Skulski:

present. But to avoid that exponential cacophony of all the

Mendel Skulski:

parallel branches, we decided not to play all the lineages at

Mendel Skulski:

the same time,

Adam Huggins:

Ah that makes sense. So what did you do

Adam Huggins:

instead?

Mendel Skulski:

You can kind of think about it as a series of

Mendel Skulski:

Divide Creeks. We always start at the same place, like the

Mendel Skulski:

headwaters of the stream, the root of the tree.

Adam Huggins:

The last common ancestor between all of these

Adam Huggins:

species

Mendel Skulski:

Yeah, exactly. So we follow that one lineage

Mendel Skulski:

until at some point, it splits in two. Then we follow those two

Mendel Skulski:

branches. until they both reach the present day. And because the

Mendel Skulski:

scaling of time by branch length isn't linear, one branch will

Mendel Skulski:

probably reach its end before the other one. But once they've

Mendel Skulski:

both finished, we pause and cycle back to the beginning.

Wayne Maddison:

So it's basically that they're just two

Wayne Maddison:

voices at any single point. Got it. Okay.

Mendel Skulski:

And each of these trips from the root to the

Mendel Skulski:

two tips, represents approximately 5 million years of

Mendel Skulski:

evolution.

Adam Huggins:

Wow. Okay. And how long does it take in like real

Adam Huggins:

time.

Mendel Skulski:

It kind of depends on which branch are

Mendel Skulski:

listening to, but a few seconds to tens of seconds.

Adam Huggins:

Got it.

Mendel Skulski:

Now, because we're only listening to the

Mendel Skulski:

branches of this tree one pair at a time, it takes a lot longer

Mendel Skulski:

to hear the whole thing. But I also think that makes it a lot

Mendel Skulski:

more musical.

Adam Huggins:

Sure. But what are we actually hearing as we move

Adam Huggins:

down the creek? So to speak.

Mendel Skulski:

So every time a lineage reaches a point of

Mendel Skulski:

speciation, where its path might have gone one way or another, it

Mendel Skulski:

plays a chord. Or more precisely, it plays an arpeggio.

Mendel Skulski:

Which is like a chord with all the notes spread out. And the

Mendel Skulski:

notes that are in that arpeggio depend on which daughter lineage

Mendel Skulski:

our current branch followed, either descending to the right

Mendel Skulski:

or to the left along the tree.

Adam Huggins:

What do right and left mean in this situation?

Mendel Skulski:

So when you're drawing a phylogenetic tree, the

Mendel Skulski:

order of the branches, and really what's left and what's

Mendel Skulski:

right... it's all pretty much arbitrary. So this is just a way

Mendel Skulski:

of having a simple rule about the pitch of the notes that

Mendel Skulski:

makes each unique branching path, a unique melody.

Adam Huggins:

Okay, yeah, left, right, one way, the other way.

Mendel Skulski:

One way, the other way.

Adam Huggins:

And so each unique species plays out as a unique

Adam Huggins:

series of notes.

Mendel Skulski:

Yeah. Yeah, they all start in the same place, but

Mendel Skulski:

eventually find themselves somewhere different.

Adam Huggins:

So what is the rule? What are the actual notes

Adam Huggins:

in that melody? What do they mean?

Mendel Skulski:

Well, the chord that you'll hear the arpeggio is

Mendel Skulski:

only ever at most four notes. And that's telling the story of

Mendel Skulski:

four generations. So the great great grandmother note is

Mendel Skulski:

forgotten. And the daughter note is added. Depending on that,

Mendel Skulski:

quote, unquote, direction of descendants, a daughter note

Mendel Skulski:

might be either a minor seventh above the pitch of its mother.

Mendel Skulski:

Or a perfect fifth below.

Adam Huggins:

Okay, so as we go, we forget a little bit about our

Adam Huggins:

ancestors. We may not know exactly what those species were,

Adam Huggins:

or what their names were or what their dances were like.

Mendel Skulski:

Yeah. But we do still have some sense of where

Mendel Skulski:

we came from.

Adam Huggins:

Yeah.

Mendel Skulski:

Who we came from.

Adam Huggins:

Yeah.

Mendel Skulski:

Also, it's important that I point out that

Mendel Skulski:

the arpeggio isn't in order of oldest to youngest, it's just in

Mendel Skulski:

note order, either going up or down.

Wayne Maddison:

And if it's descending or ascending, then it

Wayne Maddison:

just gets put in its place. Okay.

Mendel Skulski:

And to keep things musical, the notes will

Mendel Skulski:

wrap to a four octave range.

Adam Huggins:

Okay.

Mendel Skulski:

But the melody isn't actually the important

Mendel Skulski:

part.

Adam Huggins:

That's what drummers tell me.

Mendel Skulski:

It's true. So in this case, it's really just

Mendel Skulski:

describing the shape of the tree. What we're trying to hear

Mendel Skulski:

is a correlation in the data, a connection between the evolution

Mendel Skulski:

of a Y chromosome and the location of the chiasmata —

Mendel Skulski:

these two seemingly unconnected aspects of jumping spider

Mendel Skulski:

biology.

Adam Huggins:

Oh, yeah. Okay.

Mendel Skulski:

So what I want you to pay attention to is the

Mendel Skulski:

envelope of each note. That is, the shape of the sound — either

Mendel Skulski:

short, and plucky or long and sustained.

Adam Huggins:

Right. Waaauwww. And what does the envelope tell

Adam Huggins:

us?

Mendel Skulski:

That's the position of the chiasmata, those

Mendel Skulski:

crossover points on the chromosomes. The closer the

Mendel Skulski:

chiasma gets to the tip of the chromosome, the pluckier the

Mendel Skulski:

note.

Adam Huggins:

Got it.

Mendel Skulski:

And the evolution of a new Y chromosome

Mendel Skulski:

is signaled by a few things as they arrive along the branch.

Mendel Skulski:

What you'll first hear is a triangle ringing out.

Mendel Skulski:

Then when you hear the arpeggio, you'll notice that the direction

Mendel Skulski:

will change from ascending to descending. So what I want you

Mendel Skulski:

to listen for is how often pluck your notes are arranged in a

Mendel Skulski:

descending arpeggio.

Mendel Skulski:

Remember the sound of a triangle is your cue that a Y chromosome

Mendel Skulski:

has arrived.

Adam Huggins:

Okay. Will there be a quiz at the end?

Mendel Skulski:

No, you can just enjoy yourself.

Adam Huggins:

Okay.

Mendel Skulski:

Anyhow, that's, that's the main correlation that

Mendel Skulski:

we were trying to listen for. But we didn't stop there. Next

Mendel Skulski:

we took Wayne's suggestion that the voices really ought to

Mendel Skulski:

evolve more than just in terms of melody, but also, timbre,

Adam Huggins:

Timbre, so like the character of the sound. So

Adam Huggins:

do they split into like the strings and the woodwinds? And

Adam Huggins:

so on and so forth?

Mendel Skulski:

Well, not exactly.

Adam Huggins:

So what I gather from all of that... is that

Adam Huggins:

things are changing.

Mendel Skulski:

That's the case. The more the spiders mutate, the

Mendel Skulski:

more they sound like different instruments. And this is

Mendel Skulski:

actually like a way of describing the evolutionary

Mendel Skulski:

distance along a branch. And one thing I find interesting is how

Mendel Skulski:

suddenly these changes can sometimes happen. It could be an

Mendel Skulski:

artifact of how we've processed the data. But it also seems that

Mendel Skulski:

evolution can be a lot less gradual than we usually expect.

Adam Huggins:

Yeah, that reminds me of a concept that we call

Adam Huggins:

punctuated equilibrium, which is just that, like in evolution,

Adam Huggins:

things sort of can stay very stable for quite some time. And

Adam Huggins:

then suddenly, there's a bunch of fairly large changes, right?

Adam Huggins:

The environment shifted dramatically in some way or

Adam Huggins:

there was a development of some kind of mutation. And everything

Adam Huggins:

happens all at once.

Mendel Skulski:

Exactly, yeah, it kind of comes out of nowhere.

Mendel Skulski:

And another kind of subtle thing you might notice is that where

Mendel Skulski:

the voices are positioned in stereo, mimics their location on

Mendel Skulski:

the tree. So you'll hear them moving around your head, as they

Mendel Skulski:

follow their branches, getting a little quieter as they go out

Mendel Skulski:

towards the tips.

Wayne Maddison:

Of course, of course, stereo can be part of

Wayne Maddison:

this, I didn't think of that.

Mendel Skulski:

So I hope you're wearing headphones.

Adam Huggins:

Never listen to Future Ecologies without your

Adam Huggins:

headphones.

Mendel Skulski:

We really appreciate it.

Mendel Skulski:

Lastly, to mark time, between each cycle of dividing creeks,

Mendel Skulski:

before we return to the root of the tree, you'll hear a short

Mendel Skulski:

clip of one of our spider friends singing.

Mendel Skulski:

We processed that through a synthesizer that models the

Mendel Skulski:

physics of a plucked string, providing a kind of drone for

Mendel Skulski:

the entire piece — as though the spiders themselves are

Mendel Skulski:

strumming.

Wayne Maddison:

So this is the spider playing a guitar, so to

Wayne Maddison:

speak. Wow.

Adam Huggins:

That's majestic. I... I love that.

Mendel Skulski:

And now, Spiders Song, take two, in its entirety.

Wayne Maddison:

That is really cool. It's... it's really

Wayne Maddison:

beautiful. That's not at all what I would have expected. The

Wayne Maddison:

sense of how how rich are the spiders in these lineages comes

Wayne Maddison:

across, you know, it's it's not... it's... the multi

Wayne Maddison:

dimensionality of it becomes clear, right of all of this.

Adam Huggins:

I feel like I want a whole collection of different

Adam Huggins:

phylogenies sonified like this, and just put them on and let my

Adam Huggins:

brain simmer

Wayne Maddison:

The thing that I'm trying to locate is whether

Wayne Maddison:

or not the pings... how they're connected with one another, and

Wayne Maddison:

they're occasional enough that it's hard to find them. Right,

Wayne Maddison:

that could just be because the data is not showing it clearly.

Wayne Maddison:

But the other thing is, then I also felt like, it was the sort

Wayne Maddison:

of thing just like any music — that there's a little bit of a

Wayne Maddison:

learning process as to how to hear a new sort of music, where

Wayne Maddison:

you start to be able to notice the pattern that you hadn't

Wayne Maddison:

noticed before, which actually is a lot like the way science

Wayne Maddison:

works, right? You know, you get started and you think that

Wayne Maddison:

there's no pattern there. And it's actually just that you're

Wayne Maddison:

not used to seeing it.

Wayne Maddison:

Thing about using statistics is that if you have the right sort

Wayne Maddison:

of data, lots of it, than you almost don't need statistics,

Wayne Maddison:

because it just like "well, there it is." But the more

Wayne Maddison:

subtle is the pattern, the fewer the replicates there are, the

Wayne Maddison:

more that processing and examining and sifting is

Wayne Maddison:

important to be able to actually recognize that signal there. And

Wayne Maddison:

I think in this case, yeah, there's probably a pattern here

Wayne Maddison:

between sex chromosome evolution and chiasma localization, but

Wayne Maddison:

it's not a ton of replicates. And it's just two features

Wayne Maddison:

talking to one another, so to speak.

Wayne Maddison:

On the other hand, that's when if you had something like, you

Wayne Maddison:

know, DNA sequence data across the genome or something, there's

Wayne Maddison:

probably a way to do it like, yeah, you'd still have to think

Wayne Maddison:

a lot about how to turn it into sound. But there are probably

Wayne Maddison:

things that once you get the right way to do it, you don't

Wayne Maddison:

need to learn anything to be able to hear the patterns,

Wayne Maddison:

right? It'll just jump right out at you.

Mendel Skulski:

So is that a symphony? No. And I think that's

Mendel Skulski:

okay. This isn't supposed to be the way we listen to phylogeny,

Mendel Skulski:

to the music of evolution. It's just a few ideas for how we

Mendel Skulski:

could. And if you want to build on this one, I'm making the

Mendel Skulski:

whole patch open-source. That'll be up on our website,

Adam Huggins:

futureecologies.net

Adam Huggins:

I can't wait to hear some spider remixes, or even some other

Adam Huggins:

phylogenies put through this system.

Mendel Skulski:

Me neither. But, you know, maybe first, it's

Mendel Skulski:

worth asking, what's the point of this whole exercise?

Adam Huggins:

I can totally be the person that asked that,

Adam Huggins:

Mendel. What is the point?

Mendel Skulski:

So I guess I just want to make a distinction

Mendel Skulski:

that there are really two big types of sonification. And

Mendel Skulski:

across all of them, the goal is always to get the data to speak.

Mendel Skulski:

But in my case, the key is that I already knew the story that I

Mendel Skulski:

wanted to tell. And I wanted it to sound good, right? I wanted

Mendel Skulski:

it to be at least a little musical.

Adam Huggins:

You wanted to tell a story and you wanted it to

Adam Huggins:

sound good, which is why you make a podcast, presumably.

Mendel Skulski:

That's why we're here! And the data were going to

Mendel Skulski:

be there no matter what, right? And I realized that being able

Mendel Skulski:

to really hear them, to hear the meaning and the patterns was so

Mendel Skulski:

dependent on how I... how I tuned the whole system towards

Mendel Skulski:

those. But if I were actually trying to do science, to

Mendel Skulski:

discover something new, it would have been a completely different

Mendel Skulski:

exercise. And that's really the difference between the

Mendel Skulski:

explanatory and the exploratory.

Adam Huggins:

So yeah, it sounds like, you know, to me that you

Adam Huggins:

were interested in the challenge. You were interested

Adam Huggins:

in developing your skills musically. And you were

Adam Huggins:

interested in telling this really interesting story.

Mendel Skulski:

Yeah.

Adam Huggins:

But, you know, devil's advocate over here. Does

Adam Huggins:

this have any scientific utility, like, could data

Adam Huggins:

sonification for phylogeny be useful?

Wayne Maddison:

For a lot of things we are still in an

Wayne Maddison:

exploratory mode, and we don't have the hypotheses yet there.

Wayne Maddison:

And, you know, maybe it'll turn out that you somehow tweak this

Wayne Maddison:

so that it handles genomes in a particular way, and it's

Wayne Maddison:

something to do with, I don't know the shapes of proteins or

Wayne Maddison:

something like that. And you start playing it, and people

Wayne Maddison:

start noticing patterns from the way it sounds that then turn

Wayne Maddison:

into testable ideas in the laboratory. And you could see

Wayne Maddison:

that with with genomic data as being a distinct possibility!

Wayne Maddison:

You know, in your sonification, like, just as with all science,

Wayne Maddison:

there has to be a little bit of imposition of our ideas. Because

Wayne Maddison:

if we don't have ideas that we're slightly imposing on

Wayne Maddison:

nature, we can't even make sense of it all, right? It's like,

Wayne Maddison:

this is a dialogue between the telling and the listening. And

Wayne Maddison:

you don't want to go too far, you don't want to have it to be

Wayne Maddison:

on your head — the set of ideas, or just your hypotheses with no

Wayne Maddison:

grounding, no listening to what nature is trying to tell us. But

Wayne Maddison:

you have to do that to some extent. And when the data are a

Wayne Maddison:

little bit sparse, or nature hasn't given you a lot of

Wayne Maddison:

replicates or something like that, yeah, then you're going to

Wayne Maddison:

be able to hear your own voice a little bit more strongly, and

Wayne Maddison:

nature's a little bit less. When you got tons of data, or there's

Wayne Maddison:

a really strong pattern there, then your voice is going to

Wayne Maddison:

start to fade a little bit, as it should, and you're going to

Wayne Maddison:

hear nature speak more clearly. But it's always going to be a

Wayne Maddison:

balance.

Wayne Maddison:

And you know, we can't remove ourselves from science, the

Wayne Maddison:

observer is always there. The preconceptions that the observer

Wayne Maddison:

has, will always be there. But hopefully, there'll be enough

Wayne Maddison:

listening that nature's always there whispering, to keep us at

Wayne Maddison:

least somewhat connected to reality.

Adam Huggins:

This is, I don't know if it's tangent, but I

Adam Huggins:

studied experimental film as my undergrad. I'm a film school

Adam Huggins:

dropout. And I loved experimental film, not because I

Adam Huggins:

would stare at it really hard. And think about it really hard.

Adam Huggins:

And try to derive the meaning from all of the kind of madness

Adam Huggins:

up there on the screen. No, I would sit there watching those

Adam Huggins:

films, often late at night, in a lecture hall with very few

Adam Huggins:

people in it. And I would just let them wash over me and allow

Adam Huggins:

them to do things to my brain that other narrative, cinema

Adam Huggins:

couldn't do, right? Because it's so programmed to tell you this

Adam Huggins:

particular thing, or that particular thing. And I liked

Adam Huggins:

that about this, that, you know, somebody has put effort

Adam Huggins:

obviously into into making it beautiful, and to making it

Adam Huggins:

comprehensible to us. But there's a lot of meaning in

Adam Huggins:

there. And it's not at all clear exactly what it is from the

Adam Huggins:

jump, you have to let it wash over you. And maybe we'll learn

Adam Huggins:

something about the phylogeny of jumping spiders. Or maybe what,

Adam Huggins:

you know, jumps out at us will be something entirely different.

Adam Huggins:

Thank you for giving me the opportunity to be my brain in

Adam Huggins:

the music of jumping spiders.

Mendel Skulski:

You're welcome. And yeah, the science is just

Mendel Skulski:

one part of it. I felt like my job was to honor the beauty of

Mendel Skulski:

these little spiders.

Adam Huggins:

They are quite beautiful. I guess that raises

Adam Huggins:

the question like these spiders have presumably evolved all of

Adam Huggins:

these things to appeal to one another. Why do you think that

Adam Huggins:

they're so captivating to us as well?

Mendel Skulski:

At some level, it's a coincidence, right? Like,

Mendel Skulski:

it's just happenstance that female jumping spiders seem to

Mendel Skulski:

respond to the same sort of things that we do, right, like

Mendel Skulski:

flashy colors, and interesting vibrations, just like us. So

Mendel Skulski:

male jumping spiders have evolved to be dazzling —

Mendel Skulski:

dazzling in ways that appeal to both of us. And I think, over

Mendel Skulski:

evolutionary time, jumping spiders are literally being

Mendel Skulski:

shaped by you might say, their own attention to beauty.

Wayne Maddison:

You know, science is typically defined by

Wayne Maddison:

the very rigorous style of testing that we do. But there's

Wayne Maddison:

the other half of that, which is the generation of ideas that we

Wayne Maddison:

then subsequently test. And that generation of ideas doesn't have

Wayne Maddison:

to come in any rigorous way it can come from anything. And an

Wayne Maddison:

attention to beauty, that's jostling the way we look at the

Wayne Maddison:

world. It's giving us surprises, it's helping us to notice things

Wayne Maddison:

that we would have never noticed. An attention to beauty

Wayne Maddison:

may make us think about nature in ways that generate... that

Wayne Maddison:

generate new ideas that we can then test, right. It's a source

Wayne Maddison:

of the creativity that allows science to proceed. So that

Wayne Maddison:

actually has a benefit on discovering truth.

Wayne Maddison:

Most things that I've discovered, either about the

Wayne Maddison:

spiders themselves, or about how we approach nature as

Wayne Maddison:

scientists, the methods we use, those have useful consequences.

Wayne Maddison:

You know, we'll learn about how the world works and that can

Wayne Maddison:

help us survive in fact. But a lot of my pursuit of science is

Wayne Maddison:

connected with this pursuit of beauty. It's... it's a

Wayne Maddison:

motivation. It's... in some ways, it's almost as if the

Wayne Maddison:

science is a byproduct.

Wayne Maddison:

You know, I fell in love with the beauty of the world. When I

Wayne Maddison:

looked at that jumping spider, Phiddy, I saw a part of myself

Wayne Maddison:

there, there was a sense of something in common. And I know

Wayne Maddison:

that I fell in love first with a jumping spider. But I also know

Wayne Maddison:

it could have been something else, it could have been a

Wayne Maddison:

fungus, it could have been a beetle, it could have been an

Wayne Maddison:

earthworm. I think if you look closely enough, you can really

Wayne Maddison:

fall in love with just about anything.

Wayne Maddison:

As I've gone around the world, and found these amazingly

Wayne Maddison:

beautiful spiders, many of which I know are not yet described by

Wayne Maddison:

scientists, I wonder, "Am I the first person to see this sort of

Wayne Maddison:

spider? Like, has anybody ever looked at this sort of spider

Wayne Maddison:

before." But at the same time, as I do that, I also wonder, "Am

Wayne Maddison:

I going to be the last to see them alive?" Because many of the

Wayne Maddison:

environments that we have out there are disappearing, the

Wayne Maddison:

forests are being cut down, habitat loss, and now climate

Wayne Maddison:

change is having an effect everywhere. As a scientist, I

Wayne Maddison:

think the loss of the species is a loss of data, of course — like

Wayne Maddison:

we won't be able to learn from them anymore. But it's also

Wayne Maddison:

simply a loss of beauty.

Wayne Maddison:

You know, you have to think about how we're going to turn

Wayne Maddison:

that around. And we could say, well, we need to do it because

Wayne Maddison:

of this. And we could sort of impose a sense of morally we

Wayne Maddison:

need to do this. But I don't think people tend to respond

Wayne Maddison:

well to an imposed ethics like that. In fact, I tend to think

Wayne Maddison:

that we don't choose what we want to do by our ethics, we

Wayne Maddison:

tend to retrofit our ethics to what we want to do. So if we're

Wayne Maddison:

really going to change the world, we have to basically

Wayne Maddison:

change what we care about, change our desires. We have to

Wayne Maddison:

fall in love with the planet. We have to fall in love with all

Wayne Maddison:

the beauty that's here. So as a scientist, I feel I have a moral

Wayne Maddison:

responsibility, not just to talk about results, but to talk about

Wayne Maddison:

beauty. I have to talk about more than the truths that I

Wayne Maddison:

uncover.

Mendel Skulski:

For all of us, scientists, musicians, and maybe

Mendel Skulski:

even jumping spiders — our sense of beauty is part of our

Mendel Skulski:

intrinsic motivation. Each of us, in our own way, witnesses

Mendel Skulski:

the world, and responds to it. Because there is no such thing

Mendel Skulski:

as beauty without an audience.

Mendel Skulski:

This series of Future Ecologies was produced by me, Mendel

Mendel Skulski:

Skulski, but not without help from so many others. Thanks to

Mendel Skulski:

my amazing sonification collaborators, Damien de Vienne,

Mendel Skulski:

Miriam Quick, Duncan Geere, Simon Overstall, and Henri

Mendel Skulski:

Boutin. And if you're into this sort of thing, then you'll love

Mendel Skulski:

Duncan and Miriam's podcast, Loud Numbers.

Mendel Skulski:

Thanks, of course, to my co host, Adam Huggins and our

Mendel Skulski:

guest, Wayne Maddison. Our sonification was produced in

Mendel Skulski:

Max/MSP using phylogenetic data gathered by Wayne Maddison and

Mendel Skulski:

Dr. Genevieve Leduc-Robert. For the source code, the full length

Mendel Skulski:

track, and to learn more about how it works, head to

Mendel Skulski:

futureecologies.net.

Mendel Skulski:

All of our supporters on Patreon will be getting even more behind

Mendel Skulski:

the scenes and other bonus content. To get access, join our

Mendel Skulski:

community at patreon.com/futureecologies.

Mendel Skulski:

All the jumping spider audio recordings you heard came

Mendel Skulski:

courtesy of Dr. Damian Elias and his lab at UC Berkeley.

Mendel Skulski:

Sonification examples came from Chris Chafe, the Chandra X-Ray

Mendel Skulski:

Observatory, Mark Evanstein, and Mark Temple.

Mendel Skulski:

Special thanks to Ruby Singh, Vincent van Haaff, Teo Kaye,

Mendel Skulski:

Erin Robinsong, Cait Hurley, Kieran Fanning, and to Lobe

Mendel Skulski:

Spatial Sound Studio — Kate de Lorme, Hannah Acton, Ian Wyatt,

Mendel Skulski:

Eric Chad, and Sev Shaban. And thanks to Leya Tess for the

Mendel Skulski:

amazing illustrations.

Mendel Skulski:

Funding for this series was provided by the Canada Council

Mendel Skulski:

for the Arts. But ongoing support for this podcast comes

Mendel Skulski:

from listeners just like you. To keep this show going. join our

Mendel Skulski:

community at patreon.com/futureecologies. And

Mendel Skulski:

if you like what we're doing, please just spread the word. It

Mendel Skulski:

really helps.

Mendel Skulski:

Till next time, thanks for listening.