Journal: RNA Biology

Article Title: Pervasive transcription of the mitochondrial genome in Candida albicans is revealed in mutants lacking the mtEXO RNase complex

doi: 10.1080/15476286.2021.1943929

Figure Lengend Snippet: Statistics of RNA-seq reads mapping to the mtDNA reference sequence in the wild-type (BWP17) and homozygous ΔCadss1 and ΔCasuv3 strains. (a). Percentage of reads mapping to the annotated transcription units (TU ), and intergenic regions. (b). Percentage of reads mapping to the annotated transcription units in sense and antisense orientation. Data for a. and b. were obtained using featureCounts from the Rsubread package . (c). Violin plots showing the distribution of sites in the the mtDNA reference sequence with varying coverage depth. Width of the plot corresponds to the frequency of sites covered by the number of reads shown on the X axis. White circles and dark bars correspond to the median and the interquartile range (IQR), respectively. Coverage depth was calculated using the -depth option of SAMtools and visualized in R using the vioplot package

Article Snippet: Mass spectrometry on proteins from isolated mitochondria was preceded by filter-aided sample preparation (FASP) [ , ], using sequencing grade trypsin (Promega), Microcon 30 K spin columns (Milipore) and 30 μl of protein extract (3 μg/μl) per digestion.

Techniques: RNA Sequencing, Sequencing

Journal: RNA Biology

Article Title: Pervasive transcription of the mitochondrial genome in Candida albicans is revealed in mutants lacking the mtEXO RNase complex

doi: 10.1080/15476286.2021.1943929

Figure Lengend Snippet: Coverage of the C. albicans mtDNA reference sequence with one of two identical copies of the inverted repeat region removed by forward and reverse RNA-seq reads in wild-type (BWP17) and homozygous ΔCadss1 and ΔCasuv3 strains. Transcription units and gene annotations are according to . BWA files obtained using bamCompare were visualized in pyGenomeTracks . The depth coverage axis was set at the maximum value of 5000 reads to better visualize low-coverage regions, truncating the highest values. Note that for TU02 and TU04 the sense strand is the reverse strand

Article Snippet: Mass spectrometry on proteins from isolated mitochondria was preceded by filter-aided sample preparation (FASP) [ , ], using sequencing grade trypsin (Promega), Microcon 30 K spin columns (Milipore) and 30 μl of protein extract (3 μg/μl) per digestion.

Techniques: Sequencing, RNA Sequencing