Belinda S.W. Chang, Mikhail V. Matz, Steven F. Field, Johannes Müller, and Ilke van Hazel
- Published in print:
- 2007
- Published Online:
- September 2008
- ISBN:
- 9780199299188
- eISBN:
- 9780191714979
- Item type:
- chapter
- Publisher:
- Oxford University Press
- DOI:
- 10.1093/acprof:oso/9780199299188.003.0015
- Subject:
- Biology, Evolutionary Biology / Genetics
This chapter discusses efficient experimental strategies to explore variation in ancestral sequence reconstructions. The experimental strategies are illustrated with two examples, ancestral ...
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This chapter discusses efficient experimental strategies to explore variation in ancestral sequence reconstructions. The experimental strategies are illustrated with two examples, ancestral rhodopsins in archosaurs and green fluorescent protein (GFP)-like proteins in corals.Less
This chapter discusses efficient experimental strategies to explore variation in ancestral sequence reconstructions. The experimental strategies are illustrated with two examples, ancestral rhodopsins in archosaurs and green fluorescent protein (GFP)-like proteins in corals.
Pete A. Ensminger
- Published in print:
- 2001
- Published Online:
- October 2013
- ISBN:
- 9780300088045
- eISBN:
- 9780300133523
- Item type:
- chapter
- Publisher:
- Yale University Press
- DOI:
- 10.12987/yale/9780300088045.003.0015
- Subject:
- Environmental Science, Climate
This chapter discusses the diversity of life, its classification into Eukarya, Eubacteria, and Archaea and their evolutionary relationships. It further investigates Halobacterium salinarum, which ...
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This chapter discusses the diversity of life, its classification into Eukarya, Eubacteria, and Archaea and their evolutionary relationships. It further investigates Halobacterium salinarum, which completely lacks chlorophyll but uses bacteriorhodopsin to perform photosynthesis and sunlight as a source of energy and information. The mechanism of photosynthesis is also analyzed. This chapter also discusses bacteriorhodopsin-based computers and the study of chemical dynamics of proteins. The sensory rhodopsins that are present in Halobacterium are also discussed.Less
This chapter discusses the diversity of life, its classification into Eukarya, Eubacteria, and Archaea and their evolutionary relationships. It further investigates Halobacterium salinarum, which completely lacks chlorophyll but uses bacteriorhodopsin to perform photosynthesis and sunlight as a source of energy and information. The mechanism of photosynthesis is also analyzed. This chapter also discusses bacteriorhodopsin-based computers and the study of chemical dynamics of proteins. The sensory rhodopsins that are present in Halobacterium are also discussed.
Belinda S. W. Chang, Jingjing Du, Cameron J. Weadick, Johannes Müller, Constanze Bickelmann, D. David Yu, and James M. Morrow
- Published in print:
- 2012
- Published Online:
- May 2015
- ISBN:
- 9780199601165
- eISBN:
- 9780191810114
- Item type:
- chapter
- Publisher:
- Oxford University Press
- DOI:
- 10.1093/acprof:osobl/9780199601165.003.0011
- Subject:
- Biology, Evolutionary Biology / Genetics
This chapter focuses on the use of codon models for ancestral sequence reconstruction, and for use in clade models of functional divergence. It first reviews codon-based ancestral reconstruction ...
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This chapter focuses on the use of codon models for ancestral sequence reconstruction, and for use in clade models of functional divergence. It first reviews codon-based ancestral reconstruction methods, followed by an example of their use in inferring synonymous evolution in mammalian rhodopsins. It then discusses clade models of molecular evolution, followed by a description of a recently proposed clade model likelihood test of divergence and its application to teleost short-wavelength visual pigments. The promise of both approaches lies in the possibility of generating specific hypotheses of molecular function, which can be then interpreted in the context of data on molecular structure and function, particularly for genes for which a variety of biochemical assays and other functional data exist.Less
This chapter focuses on the use of codon models for ancestral sequence reconstruction, and for use in clade models of functional divergence. It first reviews codon-based ancestral reconstruction methods, followed by an example of their use in inferring synonymous evolution in mammalian rhodopsins. It then discusses clade models of molecular evolution, followed by a description of a recently proposed clade model likelihood test of divergence and its application to teleost short-wavelength visual pigments. The promise of both approaches lies in the possibility of generating specific hypotheses of molecular function, which can be then interpreted in the context of data on molecular structure and function, particularly for genes for which a variety of biochemical assays and other functional data exist.
