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The modern synthesis of evolutionary theory and genetics has enabled us to discover underlying molecular mechanisms of organismal evolution. We know that in order to maximize an organism's fitness in a particular environment, individual interactions among components of protein and nucleic acid networks need to be optimized by natural selection, or sometimes(More)
One way to understand the role history plays on evolutionary trajectories is by giving ancient life a second opportunity to evolve. Our ability to empirically perform such an experiment, however, is limited by current experimental designs. Combining ancestral sequence reconstruction with synthetic biology allows us to resurrect the past within a modern(More)
Genes encoding proteins that carry out essential informational tasks in the cell, in particular where multiple interaction partners are involved, are less likely to be transferable to a foreign organism. Here, we investigated the constraints on transfer of a gene encoding a highly conserved informational protein, translation elongation factor Tu (EF-Tu), by(More)
The ability to design synthetic genes and engineer biological systems at the genome scale opens new means by which to characterize phenotypic states and the responses of biological systems to perturbations. One emerging method involves inserting artificial genes into bacterial genomes and examining how the genome and its new genes adapt to each other. Here(More)
19 20. CC-BY-NC-ND 4.0 International license peer-reviewed) is the author/funder. It is made available under a The copyright holder for this preprint (which was not. Abstract 21 Species achieve evolutionary innovations through two major genetic 22 mechanisms, namely regulatory-and structural-level mutations. The ability of 23 populations to evolve involves(More)
Ribulose 1,5-bisphosphate (RuBP) carboxylase/oxygenase (RuBisCO, or Rubisco) catalyzes a key reaction by which inorganic carbon is converted into organic carbon in the metabolism of many aerobic and anaerobic organisms. Across the broader Rubisco protein family, homologs exhibit diverse biochemical characteristics and metabolic functions, but the(More)
Chapter Editors Shawn D. Domagal-Goldman (Co-Lead Editor, Co-Editor Chapter 1, and Author)* Katherine E. Wright (Co-Lead Editor, Co-Editor Chapter 1, and Author)* Katarzyna Adamala (Co-Editor Chapter 3 and Author) Leigh Arina de la Rubia (Editor Chapter 9 and Author) Jade Bond (Co-Editor Chapter 3 and Author) Lewis R. Dartnell (Co-Editor Chapter 7 and(More)
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