The Beagle in a bottle

@article{Buckling2009TheBI,
  title={The Beagle in a bottle},
  author={Angus Buckling and R. Craig MacLean and Michael A. Brockhurst and Nick Colegrave},
  journal={Nature},
  year={2009},
  volume={457},
  pages={824-829}
}
Why infer evolution when you can watch it happen in real time? This is the basic premise of using populations of fast-replicating microorganisms in test tubes to study evolution. The approach, known as experimental evolution, has provided a way of testing many of the key hypotheses that arose from the modern evolutionary synthesis. However, details of the unnatural histories of microorganisms in test tubes can be extrapolated only so far. Potential future directions for the approach include… 
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References

SHOWING 1-10 OF 83 REFERENCES
Microbial genetics: Evolution experiments with microorganisms: the dynamics and genetic bases of adaptation
TLDR
The dynamics of evolutionary adaptation, the genetic bases of adaptation, tradeoffs and the environmental specificity of adaptation are examined, the origin and evolutionary consequences of mutators, and the process of drift decay in very small populations are examined.
Tests of parallel molecular evolution in a long-term experiment with Escherichia coli.
TLDR
Tests of four different statistical aspects of the pattern of molecular evolution all indicate that adaptation by natural selection drove the parallel changes in these candidate genes.
Role of mutator alleles in adaptive evolution
TLDR
Whether high mutation rates might play an important role in adaptive evolution is considered, as models of large, asexual, clonal populations adapting to a new environment show that strong mutator genes can accelerate adaptation, even if the mutator gene remains at a very low frequency.
Dynamics of adaptation and diversification: a 10,000-generation experiment with bacterial populations.
  • R. Lenski, M. Travisano
  • Biology
    Proceedings of the National Academy of Sciences of the United States of America
  • 1994
TLDR
The results support a Wrightian interpretation, in which chance events (mutation and drift) play an important role in adaptive evolution, as do the complex genetic interactions that underlie the structure of organisms.
Experimental evolution of aging in a bacterium
TLDR
The results confirm that late-acting deleterious mutations do occur in bacteria and that they can invade populations when selection late in life is weak and suggest that aging is probably a fundamental property of all cellular organisms.
Different trajectories of parallel evolution during viral adaptation.
TLDR
Experimental evolution of two bacteriophage lines under strong selection led to over a dozen nucleotide changes genomewide in each replicate, but the order of these changes differed between replicates, and parallel substitutions did not reflect the changes with the largest beneficial effects or indicate a common trajectory of adaptation.
The rise and fall of mutator bacteria.
Long‐Term Experimental Evolution in Escherichia coli. VIII. Dynamics of a Balanced Polymorphism
TLDR
The short‐ and long‐term dynamics of a phenotypic polymorphism that arose in a population of Escherichia coli while it was serially propagated for almost 20,000 generations in a glucose‐limited minimal medium are described and several hypotheses that may explain the fluctuations in this balanced polymorphism are offered.
Costs and Benefits of High Mutation Rates: Adaptive Evolution of Bacteria in the Mouse Gut
We have shown that bacterial mutation rates change during the experimental colonization of the mouse gut. A high mutation rate was initially beneficial because it allowed faster adaptation, but this
Punctuated Evolution Caused by Selection of Rare Beneficial Mutations
TLDR
A clear and unambiguous case of punctuated evolution is presented for cell size in a population of Escherichia coli evolving for 3000 generations in a constant environment.
...
...