A genome-wide map of mitochondrial DNA recombination in yeast.
Bottom Line: Saccharomyces cerevisiae has proved to be an excellent model to dissect mitochondrial biology.Finally, to gain insights into the mechanisms involved in mitochondrial recombination, we assessed the impact of individual depletion of four genes previously associated with this process.Deletion of NTG1 and MGT1 did not substantially influence the recombination landscape, alluding to the potential presence of additional regulatory factors.
Affiliation: European Molecular Biology Laboratory, Genome Biology Unit, 69117 Heidelberg, Germany.Show MeSH
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Mentions: We identified single-nucleotide polymorphisms (SNPs) and small structural variants (SVs) in a genome-wide fashion, using the Unified Genotyper variant caller from GATK (McKenna et al. 2010). The vcf files obtained as output were then filtered out to keep only the SNPs and SVs that exhibited a coverage of >100×. In addition, for the parental genomes only the variants with an allele frequency of 1 were kept, as these strains are clonal and haploid and should therefore have only one single genotype for a given position. These SNPs and SVs are referred to as markers in the following sections (Figure 2).
Affiliation: European Molecular Biology Laboratory, Genome Biology Unit, 69117 Heidelberg, Germany.