We believe that the cost and complication of analysis can improve over time, and with the advent of third generation sequencing, which has a lower rate of sequencing error (not enzyme based) and no need for amplification, the future of GRO-Seq and lncRNA-Seq will certainly be promising.
Discovery of a DNA barcode for land plants has been limited by intrinsically lower rates of sequence evolution in plant genomes than that observed in animals.
We then sought to test the hypothesis that ancestral-like gene-copies within ohnolog pairs are more likely to maintain ancestral gene function and therefore exhibit lower rates of sequence evolution.
Thus, more highly expressed proteins will be subject to stronger selection for function, leading to greater constraints on protein sequence and a lower rate of protein sequence evolution.
We hypothesize that natural populations of CB4858 strains have fewer males than CB4856 populations, resulting in a lower rate of protein sequence evolution for X-linked mutations.
We suggest that males (XO) could contribute to a smaller degree in natural populations of CB4858 than in CB4856 populations, resulting in a lower rate of protein sequence evolution for X-linked mutations in the Hawaiian isolate CB4856.
Furthermore, based on i) sequence similarity; ii) ORF prediction by ORF Finder; and iii) lowered rates of sequence evolution of yaaW sequences containing overlapped htgA genes (see below), we suggest that homologs to htgA are also present in all the other E. coli and Shigella sp. genomes analyzed here, adding up to a total of nine htgA sequences.
Therefore, the fitness effects of changes to the protein sequence are expected to be larger for more highly expressed genes, leading to lower rates of protein sequence evolution.
The lower rate of evolution of yaaW sequences having an overlapped htgA gene is explained by the higher constraints of a DNA sequence coding for two genes.
