What can evolution really do how microbes can help us find the answer may 10 2008
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What Can Evolution REALLY Do? How Microbes Can Help Us Find the Answer May 10, 2008. Ralph Seelke, U. Wisconsin-Superior. Where We’re Going. Confessions of an experimentalist who loves making (bacterial) mutants What evolution has been able to accomplish

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What Can Evolution REALLY Do? How Microbes Can Help Us Find the Answer May 10, 2008

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What can evolution really do how microbes can help us find the answer may 10 2008

What Can Evolution REALLY Do?How Microbes Can Help Us Find the AnswerMay 10, 2008

Ralph Seelke, U. Wisconsin-Superior


Where we re going

Where We’re Going

  • Confessions of an experimentalist who loves making (bacterial) mutants

  • What evolution has been able to accomplish

  • What it has NOT been able to accomplish

  • Some conclusions


Two warnings

Two Warnings

1) Do not expect to be overwhelmed.

2) Some of this will get complicated!


Four take homes lessons

Four Take-Homes Lessons

  • We really CAN test evolution

  • Two is an evolution stopper

  • Even doing one thing at a time can be a problem for evolution- a gene can “evolve to become unevolveable”

  • God can even use dull, plodding people for his glory


Experimental evolution

Experimental Evolution?

???

Source: Ronald Pine, http://home.honolulu.hawaii.edu/~pine/book1-2.html


We can do this absurd experiment with microbes

We Can Do This “Absurd” Experiment With Microbes!

For Evolution to Occur You Need

A LARGE Population and/or

MANY Generations

A Trait That Can Evolve

!!!!BACTERIA!!!!


What can evolution really do how microbes can help us find the answer may 10 2008

  • Up to 4 TRILLION in a 1 Gal Milk Jug!

  • Thousands of Generations in a Year!

  • COMPLEX Traits!

  • When they evolve, we can FIND THEM!


What can evolution really do how microbes can help us find the answer may 10 2008

Transfer 0.1 ml to new flask

Transfer 0.1 ml to new flask

Inoculate flask

Grow overnight->

Grow overnight->

10 ml broth

You have just produced 6.6 generations of Evolution!

We can produce thousands of generations in a year!

Each Transfer Produces 6.6 generations of evolution!

46 generations per week

Almost 400 per month

Over 2,400 in a year

24,000 in ten years!


We can find evolution because when the microbe evolves it grows or grows better

We can FIND evolution BecauseWhen the microbe EVOLVESitGROWSor GROWS BETTER!!!!


What can evolution really do how microbes can help us find the answer may 10 2008

Evolution Before your very eyes!


What can evolution really do how microbes can help us find the answer may 10 2008

About 3 mm

MORE Evolution Before your very eyes!


My question

My Question:

Can evolution do two things at once?

  • Can a microbe evolve when two mutational events BOTH have to happen for evolution to occur?

  • Not just my pet question!

  • Acknowledged by evolutionists

  • The fundamental problem of irreducible complexity- 2 or more components, all required for a function, and all required for any function.


Why should requiring two changes make evolution difficult

Why Should Requiring Two Changes Make Evolution Difficult?

  • Mutation rates are typically one in 100 million; a teaspoonful of bacteria would have over about 50 mutants!

  • If you need TWO mutations, then the chances of BOTH mutations occurring is 1 in 10,000 trillion!

  • Now you would need a population of 10,000 liters to produce the mutant!


What can evolution really do how microbes can help us find the answer may 10 2008

Is the Need for Two Independent Mutations REALLY an Evolution-Stopper?Studies with the trpA Gene of Escherichia coli


Testing the two mutation rule

Testing the Two Mutation Rule

  • Find a well-studied gene, with known mutations that inactivate it.

  • Introduce 1,2,3, or four inactivating mutations

  • Let the gene evolve under highly selective conditions


What can evolution really do how microbes can help us find the answer may 10 2008

60

49

234

175

Source: Hyde, et. al, 1988

The Gene of Choice: trpA (tryptophan synthase A)

Mutation 2

Mutation 1


Results so far if evolution requires two or more independent mutations nothing happens

Results So Far:If Evolution Requires Two or More Independent MutationsNOTHING HAPPENS


Testing large populations of rs202 5 two mutations for evolution

Testing Large Populations of RS202-5 (two mutations)for Evolution:

  • Test in liquid culture: about 1 trillion cells tested without evidence of evolution.

  • Test on agar plates: ~1.2-2.4 trillion cells tested without evidence of evolution.

  • RS201-2 (mutation one) routinely produced 10-20 Trp+ colonies/plate, 104/ml Trp+ cells/ml in liquid culture.

  • No evidence of evolution of RS202-5


Results of serial transfer

Results of Serial Transfer

  • One culture lost its trpAB genes within 275 generations.

  • Two additional cultures have been tested for ~870 transfers, or about 5,700 generations

  • No Trp+ evolution observed. The dead trpA gene after 2,000 generations is identical to the original, dead gene.

  • HOWEVER….


The cultures have evolved to be able to grow better in the tryptophan limited medium

The cultures have evolved to be able to grow better in the tryptophan-limited medium


Conclusion two is an evolution stopper important but somewhat boring

CONCLUSION:TWO is an evolution stopperImportant, but somewhat boring


Warning this next part may be hard

Warning: This Next Part May be Hard!


Then the story got more interesting and more complicated

Then the story got more interesting- and more complicated

DeadTrpA


What can evolution really do how microbes can help us find the answer may 10 2008

We thought that BOTH mutations inactivated trpA, but only Mutation 1 did; Mutation 2 only weakened the gene

When we made a version with just Mutation two- the gene was not completely dead!

weakTrpA


Why was this a big deal it meant that our gene with two mutations should have evolved

Why was this a big deal? It meant that our gene with two mutations should have evolved!

Selection because of fitness advantage

Mutation

M1, M2

Dead TrpA

M1, M2

Weak TrpA

THIS DOES NOT HAPPEN!!

Evolution not only can’t do two things at a time, in this case it can’t do one thing at a time!

M1, M2

Strong TrpA

Population of fully Trp+ cells


So why didn t our gene evolve

So why didn’t our gene evolve??

Maybe, while it was evolving, the expression of the weak trpA gene was lowered, so that now the trpA gene with just M2 was now DEAD. This would mean that EVOLUTION MADE IT UNEVOLVEABLE


How can we find out if it evolved to become unevolveable

How can we find out if it “evolved to become unevolveable”?

We did “part swapping” experiments! We took the large part (red) from our original plasmid, combined it with trpA-M2; the gene was weakly trpA. When we took the same piece was from a plasmid that had evolved, the trpA-M2 gene was DEAD!

Evolved piece-

trpA-M2 gene DEAD

Original piece-

trpA-M2 gene WEAK


What can evolution really do how microbes can help us find the answer may 10 2008

What did this mean? Most likely, a mutation had occurred, outside the trpA-M2 gene, that had turned the weakly trpA gene OFF.

Mutation somewhere in red, not in the trpA gene! Evolution in red switched off the trpA gene in blue. That somewhere was a single base change at 1584.

1584


A case of evolution preventing evolution

A case of evolution preventing evolution

This path NEVER happens

Selection because of fitness advantage

Mutation

M1, M2

DeadTrpA

M1, M2

Weak TrpA

Change at 1584 ALWAYS happens

M1, M2

Dead TrpA

M1, M2

Strong TrpA

M1, M2

STILL Dead TrpA

Mutation lowers trpA expression, increases fitness

Population of fully Trp+ cells

Reversion of M1 no longer selective; both must now revert for a Trp+ cell


The concept of a fitness peak

The Concept of a “Fitness Peak”


How is evolution like a guy

How is evolution like a guy?

1) It has trouble doing two things at once

2) Even when it only has one thing to do, it sometimes gets sidetracked


Acknowledgements

Acknowledgements

  • Merck Foundation

  • Biologic Institute

  • UW-Superior

  • A.C. Matin Lab and Stanford University

  • NUMEROUS undergraduate students!

    • Pravien Abeywickrema,Kayo Sakaguchi

    • Robert Jennings, Ranjuna Weerasekera

    • Lynn Meyers, Sarah Rahn, Stephanie Ebnet, Benjamin Okemwa


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