Codon use and the rate of divergence of land plant chloroplast genes |
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Authors: | Morton BR |
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Institution: | Department of Botany and Plant Sciences, University of California, Riverside. |
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Abstract: | Codon fitnesses for chloroplast genes were estimated using the relative
synonymous codon use of psbA, which has a different pattern of codon use
than other chloroplast genes and is the major translation product of the
chloroplast. These estimates were used to calculate the codon adaptation
index (CAI) of chloroplast genes from Marchantia polymorpha, Nicotiana
tabacum, and Chlamydomonas reinhardtii. The genes with the highest CAI
values in M. polymorpha correspond to those that are expressed at the
highest levels. The rate of divergence between M. polymorpha and both C.
reinhardtii and N. tabacum is inversely related to the CAI value of the M.
polymorpha gene. The data suggest that selection is acting on the
synonymous codon use of the highly expressed genes of the M. polymorpha
chloroplast genome. The data set is inconclusive about N. tabacum genes,
but, as there is a weaker correspondence between CAI value and expression
level, it suggests that selection is not operating in this lineage.
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Keywords: | |
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