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Printable Handouts
Navigable Slide Index
- Introduction
- Tradeoffs between tasks
- Assigning each phenotype with a fitness
- Phenotype that maximizes fitness is selected
- Two tasks can't be optimized by one phenotype
- Fitness is function of performances
- Performance is maximized by the “Archetype”
- Selection according to a fitness function (1)
- Selection according to a fitness function (2)
- Selection according to a fitness function (3)
- Fitness function can combine performances
- Maxima of all possible fitness functions
- Calculating the Pareto front
- Theorem: Pareto for a system with 2 tasks
- Point on the line closer to both archetypes
- The point off the line will not be selected
- Pareto front is a polygon, vertices are archetypes
- High dimensional data fit to a polygon
- Different shapes of Pareto fronts can arise
- Contours of performance functions & their effect (1)
- Contours of performance functions & their effect (2)
- Pareto front for a system with 3 tasks
- Complicated performance functions
- Pareto front bounded between two contours
- Pareto front between archetypes
- Archetypes can be specialized organisms
- Rodent teeth size ratios fall on a line
- Darwin Finches’ beaks
- Ants in a colony
- Ammonite shells
- Ammonites fill out a triangle in morphospace
- Mass extinction: 2 ammonite genera survive
- Morphospace filling after ammonites evolve again
- The empty morphospace & ammonite precursors
- Ammonite shell related tasks
- Cells also face a tradeoff
- Bacteria strains that tell the activity of each gene
- E. coli in 96-well plates
- Accurate dynamics of promoter activity
- E. coli gene expression and archetypes
- Clustering analysis to detect groups in data
- Clustering can be arbitrary when data is unclear
- Archetype analysis
- Gene expression to classify tumors for treatment
- Gene expression of 2000 breast cancer tumors
- Specific cancers are enriched at each archetype
- Bird toe proportions
- Individuals within a species
- Summary
- Thank you
Topics Covered
- Organisms, tissues and molecules often need to perform multiple tasks
- Usually no phenotype can be optimal at all tasks at once which leads to a fundamental tradeoff
- We study this using the concept of Pareto optimality from engineering and economics
- Tradeoffs lead to an unexpected simplicity in the range of optimal phenotypes; they fall on low dimensional shapes in trait space such as lines, triangles and tetrahedrons
- At the vertices of these polygons are phenotypes that specialize at a single task
- We demonstrate this using data from animal and fossil morphology, bacterial gene expression and other biological systems.
Talk Citation
Alon, U. (2014, November 4). Evolutionary tradeoffs and the geometry of gene expression space [Video file]. In The Biomedical & Life Sciences Collection, Henry Stewart Talks. Retrieved December 3, 2024, from https://doi.org/10.69645/VGMH3962.Export Citation (RIS)
Publication History
Financial Disclosures
- Prof. Uri Alon has not informed HSTalks of any commercial/financial relationship that it is appropriate to disclose.
A selection of talks on Cell Biology
Transcript
Please wait while the transcript is being prepared...
0:00
Hi.
My name is Uri Alon from the
Weizmann Institute in Israel.
Today I'm going to talk with you
about evolutionary trade-offs
and the geometry of
gene expression space.
0:11
The basic idea is that when you
have trade-offs between tasks,
they lead to simplicity,
a simple geometry
of the phenotypes in trait space.
0:23
Now, when we think about
evolution and evolutionary theory,
we usually think
about a simple picture
where the DNA, the genotype,
through developmental processes
gives rise to the organism's
shape, the phenotype.
And the phenotype does
something to give you fitness.
For example, the bird's
beak eats the seeds.
The better it eats
the seeds, the more
fit the organism, the more
viable babies that it makes.
0:49
And conceptually,
we can describe this
in terms of a fitness landscape.
So we think about things we
can measure about the beak.
We take a ruler, and
we measure its height
and its width and its lengths.
And each trait like that is an
axis, and so we have the trait space
describes all possible beak shapes.
And for each point in that space,
we can imagine the fitness of a bird
with that beak.
And if we can imagine
a fitness landscape,
it might have a peak
or several peaks.
And natural selection tends to
maximize fitness and bring you
to the maximum of the
fitness landscape.
1:26
But in this talk we'll talk
about a different situation.
What happens if the same beak
needs to do more than one task?
For example, if you need to
eat both the seeds and you
need to pick insects or
pollen from inside flowers.
Now, the problem is
that a single phenotype
can't be optimal at
two tasks at once.
Maybe to eat the seeds you need
something like a heavy plier.
And to pick out the
pollen you need something
like a pincers or a nose plier.
And a single phenotype can't be
two different shapes at once.
That leads to a
fundamental trade-off.