Codon optimality, bias and usage in translation and mRNA decay
G Hanson, J Coller - Nature reviews Molecular cell biology, 2018 - nature.com
The advent of ribosome profiling and other tools to probe mRNA translation has revealed
that codon bias—the uneven use of synonymous codons in the transcriptome—serves as a …
that codon bias—the uneven use of synonymous codons in the transcriptome—serves as a …
Codon bias as a means to fine-tune gene expression
The redundancy of the genetic code implies that most amino acids are encoded by multiple
synonymous codons. In all domains of life, a biased frequency of synonymous codons is …
synonymous codons. In all domains of life, a biased frequency of synonymous codons is …
The 'effective number of codons' used in a gene
F Wright - Gene, 1990 - Elsevier
A simple measure is presented that quantifies how far the codon usage of a gene departs
from equal usage of synonymous codons. This measure of synonymous codon usage bias …
from equal usage of synonymous codons. This measure of synonymous codon usage bias …
[HTML][HTML] An evolutionarily conserved mechanism for controlling the efficiency of protein translation
Recent years have seen intensive progress in measuring protein translation. However, the
contributions of coding sequences to the efficiency of the process remain unclear. Here, we …
contributions of coding sequences to the efficiency of the process remain unclear. Here, we …
Evolution of animal mitochondrial DNA: relevance for population biology and systematics
C Moritz, TE Dowling, WM Brown - Annual review of ecology and …, 1987 - JSTOR
In the past decade, mitochondrial DNA (mtDNA) analysis has become es-tablished as a
powerful tool for evolutionary studies of animals. These studies, recently reviewed by Avise …
powerful tool for evolutionary studies of animals. These studies, recently reviewed by Avise …
[HTML][HTML] Evolution of genes and genomes on the Drosophila phylogeny
Comparative analysis of multiple genomes in a phylogenetic framework dramatically
improves the precision and sensitivity of evolutionary inference, producing more robust …
improves the precision and sensitivity of evolutionary inference, producing more robust …
Prochlorococcus, a Marine Photosynthetic Prokaryote of Global Significance
The minute photosynthetic prokaryote Prochlorococcus, which was discovered about 10
years ago, has proven exceptional from several standpoints. Its tiny size (0.5 to 0.7 μm in …
years ago, has proven exceptional from several standpoints. Its tiny size (0.5 to 0.7 μm in …
Disentangling sources of gene tree discordance in phylogenomic data sets: testing ancient hybridizations in Amaranthaceae sl
DF Morales-Briones, G Kadereit, DT Tefarikis… - Systematic …, 2021 - academic.oup.com
Gene tree discordance in large genomic data sets can be caused by evolutionary processes
such as incomplete lineage sorting and hybridization, as well as model violation, and errors …
such as incomplete lineage sorting and hybridization, as well as model violation, and errors …
Accelerated evolution and Muller's rachet in endosymbiotic bacteria.
NA Moran - Proceedings of the National Academy of …, 1996 - National Acad Sciences
Many bacteria live only within animal cells and infect hosts through cytoplasmic inheritance.
These endosymbiotic lineages show distinctive population structure, with small population …
These endosymbiotic lineages show distinctive population structure, with small population …
Expression pattern and, surprisingly, gene length shape codon usage in Caenorhabditis, Drosophila, and Arabidopsis
L Duret, D Mouchiroud - Proceedings of the National …, 1999 - National Acad Sciences
We measured the expression pattern and analyzed codon usage in 8,133, 1,550, and 2,917
genes, respectively, from Caenorhabditis elegans, Drosophila melanogaster, and …
genes, respectively, from Caenorhabditis elegans, Drosophila melanogaster, and …