Evolution of codon usage patterns: the extent and nature of divergence between<i>Candida albicans</i>and<i>Saccharomyces cerevisiae</i>

Lloyd, Andrew T.; Sharp, Paul M.

doi:10.1093/nar/20.20.5289

Cited by 121 publications

(92 citation statements)

References 32 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Thus, the non-random usage of synonymous codons has been related to translational efficiency (Bennetzen and Hall, 1982;Ikemura 1982Ikemura , 1985Lloyd and Sharp, 1992;Futcher et al, 1999). More recently, data from mRNA quantification experiments have also revealed significant correlation between mRNA abundance and a set of codon bias measurements (Pavesi, 1999;Coghlan and Wolfe, 2000;Akashi, 2001).…”

Section: Discussionmentioning

confidence: 99%

Relationship between G+C content, ORF‐length and mRNA concentration in Saccharomyces cerevisiae

Marı́n

Gallardo

Kato

et al. 2003

Yeast

View full text Add to dashboard Cite

RNA biogenesis is a tightly-regulated process. The levels and timing of expression of a gene depends on its particular function. However, gene expression levels may also depend on structural features. Here we describe the analysis of gene expression of 4977 ORFs using DNA microarrays covering the whole genome of three different S. cerevisiae strains, wild-type and tho2 and thp1 mutants with a general effect on mRNA biogenesis. We show that transcripts from G+C-rich ORFs accumulate at higher concentrations than those from G+C-poor ones, in different ORF-length categories in all strains tested. In addition, we found a negative correlation between ORF length and G+C content. Our results indicate that length and G+C content of a gene have a clear effect on its levels of expression. We discuss the biological relevance of these results, as well as different ways that these structural features could modulate mRNA biogenesis.

show abstract

Section: Discussionmentioning

confidence: 99%

Relationship between G+C content, ORF‐length and mRNA concentration in Saccharomyces cerevisiae

Marı́n

Gallardo

Kato

et al. 2003

Yeast

View full text Add to dashboard Cite

show abstract

“…Degenerate oligonucleotide primers REBA (5h-TAKCAKATHTTYGAR-3h) and REBE1 (5h-TCYTGNGA-RTCYTCNGT-3h) were derived using the REB1 consensus sequences of S. cerevisiae REB1 (rDNA enhancer binding protein) and Kluyveromyces lactis REB1 (Morrow et al, 1993). The sequences of the primers were adapted to the codon usage in C. albicans (Lloyd & Sharp, 1992) because the DNA of C. albicans is A\T-rich (the third position of triplets mostly contains A or T). The primers show insignificant homology to CaFET3.…”

Section: Methodsmentioning

confidence: 99%

A multicopper oxidase gene from Candida albicans: cloning, characterization and disruption b bThe EMBL accession number for the sequence reported in this paper is Y09329.

et al. 1999

View full text Add to dashboard Cite

A multicopper oxidase gene from the human pathogenic yeast Candida albicans was isolated and characterized. An open reading frame of 1872 bp, designated CaFET3, was identified, encoding a predicted protein of 624 amino acids and a molecular mass of 70 5 kDa. The identity between the deduced amino acid sequences of CaFET3 and the Saccharomyces cerevisiae FET3 gene is 55 %. CaFET3 was localized on chromosome 6. A null mutant (fet3∆/fet3∆) was constructed by sequential gene disruption. Unlike the C. albicans SC5314 wildtype strain the fet3∆ mutant was unable to grow in low-iron medium. The lack of growth of a S. cerevisiae fet3∆ mutant in iron-limited medium was compensated by transformation with CaFET3. The null mutant strain showed no change in pathogenicity compared with the wild-type strain in the mouse model of systemic candidiasis.

show abstract

“…Construction of the synthetic BAX gene followed the codon usage described for C. albicans (Brown et al, 1991;Lloyd and Sharp, 1992) (http://alces.med.umn.edu/candida/codons. html).…”

Section: Construction Of the Codon-optimized Bax Genementioning

confidence: 99%

Bax‐induced cell death in Candida albicans

Smet

Eberhardt

Reekmans

et al. 2004

Yeast

View full text Add to dashboard Cite

Bax is a pro-apoptotic member of the Bcl-2 family of proteins involved in the regulation of genetically programmed cell death in mammalian cells. It has been shown that heterologous expression of Bax in several yeast species, such as Saccharomyces cerevisiae, Schizosaccharomyces pombe and Pichia pastoris, also induces cell death. In this study we investigated the effects of Bax expression in the pathogenic yeast Candida albicans. Cell death inducing expression of Bax required a synthetic BAX gene that was codon-optimized for expression in Candida albicans. Expression of this BAX gene resulted in growth inhibition and cell death. By fusing Bax with the yeast enhanced green fluorescent protein of Aequoria victoria, the cell death-inducing effect of Bax was increased due to reduced proteolytic degradation of Bax. Using this fusion protein we showed that, upon expression in C. albicans, Bax co-localizes with the mitochondria. Furthermore, we showed for the first time that expression of Bax in yeast causes the mitochondria, which are normally distributed throughout the cell, to cluster in the perinuclear region.

show abstract

Evolution of codon usage patterns: the extent and nature of divergence betweenCandida albicansandSaccharomyces cerevisiae

Cited by 121 publications

References 32 publications

Relationship between G+C content, ORF‐length and mRNA concentration in Saccharomyces cerevisiae

Relationship between G+C content, ORF‐length and mRNA concentration in Saccharomyces cerevisiae

A multicopper oxidase gene from Candida albicans: cloning, characterization and disruption b bThe EMBL accession number for the sequence reported in this paper is Y09329.

Bax‐induced cell death in Candida albicans

Contact Info

Product

Resources

About