Comparison of codon usage and tRNAs in mitochondrial genomes of Candida species.

Comparison of codon usage and tRNAs in mitochondrial genomes of Candida species. Research Abstract Details 

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Comparison of codon usage and tRNAs in mitochondrial genomes of Candida species. Abstract Text:

Takaaki Kamatani,Tetsuya Yamamoto,

To gain insight into the nature of the mitochondrial genomes (mtDNA) of different Candida species, the synonymous codon usage bias of mitochondrial protein coding genes and the tRNAs in C. albicans, C. parapsilosis, C. stellata, C. glabrata and the closely related yeast Saccharomyces cerevisiae were analyzed. Common features of the mtDNA in Candida species are a strong A+T pressure on protein coding genes, and insufficient mitochondrial tRNA species are encoded to perform protein synthesis. The wobble site of the anticodon is always U for the NNR (NNA and NNG) codon families, which are dominated by A-ending codons, and always G for the NNY (NNC and NNU) codon families, which is dominated by U-ending codons, and always U for the NNN (NNA, NNU, NNC and NNG) codon families, which are dominated by A-ending codons and U-ending codons. Patterns of synonymous codon usage of Candida species can be classified into three groups: (1) optimal codon-anticodon usage, Glu, Lys, Leu (translated by anti-codon UAA), Gln, Arg (translated by anti-codon UCU) and Trp are containing NNR codons. NNA, whose corresponding tRNA is encoded in the mtDNA, is used preferentially. (2) Non-optimal codon-anticodon usage, Cys, Asp, Phe, His, Asn, Ser (translated by anti-codon GCU) and Tyr are containing NNY codons. The NNU codon, whose corresponding tRNA is not encoded in the mtDNA, is used preferentially. (3) Combined codon-anticodon usage, Ala, Gly, Leu (translated by anti-codon UAG), Pro, Ser (translated by anti-codon UGA), Thr and Val are containing NNN codons. NNA (tRNA encoded in the mtDNA) and NNU (tRNA not encoded in the mtDNA) are used preferentially. In conclusion, we propose that in Candida species, codons containing A or U at third position are used preferentially, regardless of whether corresponding tRNAs are encoded in the mtDNA. These results might be useful in understanding the common features of the mtDNA in Candida species and patterns of synonymous codon usage.

Comparison of codon usage and tRNAs in mitochondrial genomes of Candida species. Publishing Authors By Initials

T Kamatani,T Yamamoto,

For similar biological sciences: biology: computational biology: systems biology research abstracts see: biological sciences: biology: computational biology: systems biology research

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MEDLINE DATE: 2007 Sep-Oct

Comparison of codon usage and tRNAs in mitochondrial genomes of Candida species. Journal Published:

PUBLICATION TYPE: Journal Article

Journal: Bio Systems

VOLUME: 90

Page Numbers: 362-70

Journal Abbreviation: BioSystems

ISSN: 0303-2647

DAY: 5

MONTH: 10

YEAR: 2006

Comparison of codon usage and tRNAs in mitochondrial genomes of Candida species. Information

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LANGUAGE: eng

NlmUniqueID: 430773

Comparison of codon usage and tRNAs in mitochondrial genomes of Candida species. Keywords Mesh Terms:

KEYWORDS: Systems Biology

MESH TERMS: genetics

Chemical & Substance for Abstract: Comparison of codon usage and tRNAs in mitochondrial genomes of Candida species. Information

Substance Name: RNA, Transfer

Registry Number: 9014-25-9

Grant and Affiliation Information for Comparison of codon usage and tRNAs in mitochondrial genomes of Candida species.

AFFILIATION: Oral Surgery, Kochi Medical School, Japan. takaakikamatani@yahoo.com

Country: Ireland

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MEDLINETA: Biosystems

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