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The mutational input in Saccharomyces is dominated by small indels.
Given the evidence for gene conversion between mitochondrial and chloroplast genes, the role of DNA-mediated conversion between divergent homologs (or even non-homologous sequences that share small regions of similarity) should be investigated as another potential source of mutational input in plant mitochondrial genomes.
The second model aimed at demonstrating the role of gene-specific mutational input in shaping SCU and the third was based on the consideration that synonymous codon frequencies could be determined by their optimality in the translation process (and, because of this, they would be uniform among the genes).
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Sexual selection may increase mutational input, which in turn feeds back on sexual selection because of increased variance in viability traits.
The increased mutation rates among species with frequent extra-pair paternity, suggests that mutational input may increase in species subject to intense sexual selection as a direct consequence of sperm competition.
In spite of the limitation on taxon sampling imposed by the current availability of eukaryotic genome sequences, the strong differences in mutational input observed between prokaryotes and eukaryotes have played the major role in shaping the genome size and organization within these two groups.
A comparative study of gene duplicates with low synonymous divergence in the C. elegans and S. cerevisiae genomes implied that both species specific differences in mutational input and strength of natural selection moulded the distribution of gene duplicates in these two genomes [ 15].
Although nonadaptive processes, such as biases in mutational input and genetic drift, appear to be dominant forces that influence the evolution of genome size, natural selection will also govern the overall size of some genomes.
In a population with larger Ne, the efficacy of purifying selection against recessive alleles increases (proportional to N e 1 / 2 ), but the increase in the mutational input (proportional to Ne) is greater than the increase in the efficacy of selection (Simons et al. 2014).
They differ in the mutational input they assume (equivalent to the plane of a landscape) and in the output effects they produce (equivalent to the height of a landscape).
Because genetic drift facilitates the fixation of slightly deleterious mutations, the difference between the effects of drift on the size of eukaryotic and bacterial genomes is most likely rooted in the mutational input.
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