A Role for Codon Order in Translation Dynamics

Cannarozzi, Gina; Schraudolph, Nicol N.; Faty, Mahamadou; Rohr, Peter von; Friberg, Markus; Röth, Alexander; Gonnet, Pedro; Gonnet, Gastón H.; Barral, Yves

doi:10.1016/j.cell.2010.04.027

Cited by 24 publications

(44 citation statements)

References 0 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Cannarozzi et al62 recently exposed a third, novel pattern of intra-genic codon usage in eukaryotes: the re-use or autocorrelation of codons across a gene sequence, driven, they argue, to improve elongation efficiency through tRNA recycling. If a recently used tRNA molecule is bound to the ribosome, or if it diffuses slowly compared to ribosomal progression and re-acytilation63, then it would be efficient to re-use the same tRNA molecule for subsequent incorporations of the same amino acid.…”

Section: Patterns Of Codon Usagementioning

confidence: 99%

See 1 more Smart Citation

Synonymous but not the same: the causes and consequences of codon bias

2010

View full text Add to dashboard Cite

Despite their name, synonymous mutations have significant consequences for cellular processes in all taxa. As a result, an understanding of codon bias is central to fields as diverse as molecular evolution and biotechnology. Although recent advances in sequencing and synthetic biology have helped resolve longstanding questions about codon bias, they have also uncovered striking patterns that suggest new hypotheses about protein synthesis. Ongoing work to quantify the dynamics of initiation and elongation is as important for understanding natural synonymous variation as it is for designing transgenes in applied contexts.

show abstract

Section: Patterns Of Codon Usagementioning

confidence: 99%

“…However, strategies are now changing. Several recent studies advocate for the role of global nucleotide content82, 83, local mRNA folding55, 84, codon pair bias85, a codon ramp57, or codon correlations62 in optimizing heterologous expression (see Table 1). …”

Section: Measurements Of Heterologous Expressionmentioning

confidence: 99%

Synonymous but not the same: the causes and consequences of codon bias

2010

View full text Add to dashboard Cite

show abstract

“…The discovery of ramps emphasizes that codon choice is not uniform, but is instead highly selected and broadly conserved (Tuller et al, 2010). In a related vein, Cannarrozzi and colleagues describe a different pattern of codon usage in yeast that appears to reflect differences in translation rate (Cannarrozzi et al, 2010). They find that when an amino acid recurs in a protein (for instance, xLxxL) there is a strong tendency to use the same codon the second time as for the first occurrence of the amino acid.…”

Section: Finding Order From Degeneracymentioning

confidence: 99%

“…Recent studies have shown that huge numbers of isodecoders exist in eukaryotes. There are approximately 270 isodecoders in the human genome alone (Geslain and Pan, 2010), and variations in the expression of these tRNAs may further heighten the codon-dependent changes in translation efficiency predicted by Tuller, Cannarrozzi and their colleagues (Cannarrozzi et al, 2010; Tuller et al, 2010). …”

Section: Perspectivesmentioning

confidence: 99%

See 1 more Smart Citation

How the Sequence of a Gene Can Tune Its Translation

Fredrick

Ibba

2010

Cell

153

139

View full text Add to dashboard Cite

show abstract

Synthetic gene design—The rationale for codon optimization and implications for molecular pharming in plants

Webster

Teh

K.‐C.

2016

Biotech & Bioengineering

View full text Add to dashboard Cite

Degeneracy in the genetic code allows multiple codon sequences to encode the same protein. Codon usage bias in genes is the term given to the preferred use of particular synonymous codons. Synonymous codon substitutions had been regarded as "silent" as the primary structure of the protein was not affected; however, it is now accepted that synonymous substitutions can have a significant effect on heterologous protein expression. Codon optimization, the process of altering codons within the gene sequence to improve recombinant protein expression, has become widely practised.Multiple inter-linked factors affecting protein expression need to be taken into consideration when optimizing a gene sequence. Over the years, various computer programmes have been developed to aid in the gene sequence optimization process. However, as the rulebook for altering codon usage to affect protein expression is still not completely understood, it is difficult to predict which strategy, if any, will design the 'optimal' gene sequence.In this review, codon usage bias and factors affecting codon selection will be discussed and the evidence for codon optimization impact will be reviewed for recombinant protein expression using plants as a case study. These developments will be relevant to all recombinant expression systems, however, molecular pharming in plants is an area which has consistently encountered difficulties with low levels of recombinant protein expression, and should benefit from an evidence based rational approach to synthetic gene design. This article is protected by copyright. All rights reserved

show abstract

A Role for Codon Order in Translation Dynamics

Cited by 24 publications

References 0 publications

Synonymous but not the same: the causes and consequences of codon bias

Synonymous but not the same: the causes and consequences of codon bias

How the Sequence of a Gene Can Tune Its Translation

Synthetic gene design—The rationale for codon optimization and implications for molecular pharming in plants

Contact Info

Product

Resources

About