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The rate of mutation of a single gene.

ABSTRACT: The rate of mutation refers to the probability that a unit length of DNA (generally a base pair) mutates with time. Fluctuation analysis or mutant accumulation assays applied to phenotypic changes measure mutation rates of cells. However, only a few phenotypic changes indicative of mutations are known thus limiting the analysis to those rare genes. Direct sequencing overcomes the limitations imposed by phenotypic analysis but is limited by the extensive number of clones or cells that have to be analyzed in fluctuation or mutant accumulation assays. We propose a strategy to determine the rate of mutation of a gene by limited direct sequencing of a few single cells of a defined lineage. To accomplish this, we determined the average number of mutations per position in each DNA length sequenced from the proportion of the non-mutated positions, according to the Poisson process and/or the Taylor series. Measuring the rate of mutation by direct sequencing of genes does not require ascertaining a phenotype and can be applied to any area of the genome in a cell. The approach avoids fluctuation errors.

SUBMITTER: Balin SJ

PROVIDER: S-EPMC2836558 | biostudies-literature | 2010 Mar

REPOSITORIES: biostudies-literature

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The rate of mutation of a single gene.

Balin Samuel J SJ Cascalho Marilia M

Nucleic acids research 20091209 5

The rate of mutation refers to the probability that a unit length of DNA (generally a base pair) mutates with time. Fluctuation analysis or mutant accumulation assays applied to phenotypic changes measure mutation rates of cells. However, only a few phenotypic changes indicative of mutations are known thus limiting the analysis to those rare genes. Direct sequencing overcomes the limitations imposed by phenotypic analysis but is limited by the extensive number of clones or cells that have to be ...[more]

PMID: 20007603

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Project description:NFU1 is an iron-sulfur (Fe-S) scaffold protein, involved in Fe-S assembly and transfer to a range of mitochondrial metalloproteins. Patients with the NFU1G208C mutation develop pulmonary arterial hypertension (PAH) with 70% penetrance. Rats with NFU1G206C homozygous mutation demonstrated the PAH phenotype showing increased pulmonary vasculature remodeling, right ventricular (RV) hypertrophy, and RV pressure. In the present study, we discovered phenotypic metabolic changes in pulmonary arterial smooth muscle cells (PASMC) from NFU1G206C homozygous mutant rats associated with alterations in the mitochondrial proteome. Quantitative analysis of the mitochondrial proteome showed significant changes in the abundance of 208 proteins involved in various metabolic and antioxidant functions in response to the NFU1 mutation. Our data indicates that the NFU1G206C homozygous mutant rats have decreased expression of complex I and II, which are known to depend on iron-sulfur clusters, and increased expression of complexes III to V, accompanied with a significant decrease in mitochondrial function, pyruvate dehydrogenase (PDH) activity and amplified glycolysis and anabolism in PASMC. The NFU1 mutation produced a dysregulated antioxidant system in the mitochondria which leads to increased levels of reactive oxygen species. Due to alterations in apoptosis regulating proteins, the NFU1G206C cells were found to exhibit high proliferation rates and resistance to apoptosis as compared with the wild type (WT). Finally, the NFU1G206C mitochondrial proteome showed significant abundance changes in proteins that regulate fatty acid (FA) metabolism and exhibited increased FA oxidation compared to WT, suggesting increased FA oxidation compensates for the decreased PDH activity. In conclusion, our data indicates that the NFU1G206C mutation induces a metabolic shift in the PASMC, which results in a hyper-proliferative and apoptosis resistant phenotype and presents a novel cellular model to study PAH.

Dataset Information

The rate of mutation of a single gene.

Publications

The rate of mutation of a single gene.

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