ERX1409554 E-MTAB-4589:M1 ERP014704 RNA-seq of Malassezia sympodialis ERS1094694 SAMEA3907560 M1 RNA-Seq TRANSCRIPTOMIC Hybrid Selection After 2 or 4 days of culture, cells were suspended in diethylpyrocarbonate water, harvested by centrifugation 1000 g for 5 min, resuspended in diethylpyrocarbonate water and counted. Between 1x108 and 4x109 cells were harvested by centrifugation. M. sympodialis (ATCC 42132) was cultured on Dixon agar plates modified to contain 1% (vol/vol) Tween 60, 1% (wt/vol) agar, and no oleic acid (mDixon) at 32°C and contamination was excluded using blood and Sab-oxide agar plates. Cell pellets were resuspended in 600 μl Buffer RLT from the RNeasy kit (QIAGEN) and added to approximately 600 μl of acid-washed 0.4-0.6 mm silica beads. The cells were disrupted in a Precellys 24 homogenizer (Bertin Technologies, Montigny-le-Bretonneux, France), using 3 cycles (6,000 rpm, 3x30 s). The tubes were cooled on ice after each cycle. RNA was extracted using the RNeasy kit following the instructions from the manufacturer (Qiagen), including on-column DNase digestion. Libraries were prepared from RNA treated with RiboMinus (Thermo Fisher Scientific, Waltham, MA, USA) using a modification of the Illumina TruSeq sample preparation kit (Catalog ID RS-122-2001, Illumina, San Diego, CA, USA) to achieve strand-specificity as described by Sigurgeirsson et al. (BMC Genomics 2014, 15:631). 40 0 F Application Read Forward 1 1 R Application Read Reverse 21 Illumina HiSeq 2000 Experimental Factor: 2 culture time ERX1409555 E-MTAB-4589:M2 ERP014704 RNA-seq of Malassezia sympodialis ERS1094695 SAMEA3907561 M2 RNA-Seq TRANSCRIPTOMIC Hybrid Selection After 2 or 4 days of culture, cells were suspended in diethylpyrocarbonate water, harvested by centrifugation 1000 g for 5 min, resuspended in diethylpyrocarbonate water and counted. Between 1x108 and 4x109 cells were harvested by centrifugation. M. sympodialis (ATCC 42132) was cultured on Dixon agar plates modified to contain 1% (vol/vol) Tween 60, 1% (wt/vol) agar, and no oleic acid (mDixon) at 32°C and contamination was excluded using blood and Sab-oxide agar plates. Cell pellets were resuspended in 600 μl Buffer RLT from the RNeasy kit (QIAGEN) and added to approximately 600 μl of acid-washed 0.4-0.6 mm silica beads. The cells were disrupted in a Precellys 24 homogenizer (Bertin Technologies, Montigny-le-Bretonneux, France), using 3 cycles (6,000 rpm, 3x30 s). The tubes were cooled on ice after each cycle. RNA was extracted using the RNeasy kit following the instructions from the manufacturer (Qiagen), including on-column DNase digestion. Libraries were prepared from RNA treated with RiboMinus (Thermo Fisher Scientific, Waltham, MA, USA) using a modification of the Illumina TruSeq sample preparation kit (Catalog ID RS-122-2001, Illumina, San Diego, CA, USA) to achieve strand-specificity as described by Sigurgeirsson et al. (BMC Genomics 2014, 15:631). 40 0 F Application Read Forward 1 1 R Application Read Reverse 21 Illumina HiSeq 2000 Experimental Factor: 2 culture time ERX1409556 E-MTAB-4589:M3 ERP014704 RNA-seq of Malassezia sympodialis ERS1094696 SAMEA3907562 M3 RNA-Seq TRANSCRIPTOMIC Hybrid Selection After 2 or 4 days of culture, cells were suspended in diethylpyrocarbonate water, harvested by centrifugation 1000 g for 5 min, resuspended in diethylpyrocarbonate water and counted. Between 1x108 and 4x109 cells were harvested by centrifugation. M. sympodialis (ATCC 42132) was cultured on Dixon agar plates modified to contain 1% (vol/vol) Tween 60, 1% (wt/vol) agar, and no oleic acid (mDixon) at 32°C and contamination was excluded using blood and Sab-oxide agar plates. Cell pellets were resuspended in 600 μl Buffer RLT from the RNeasy kit (QIAGEN) and added to approximately 600 μl of acid-washed 0.4-0.6 mm silica beads. The cells were disrupted in a Precellys 24 homogenizer (Bertin Technologies, Montigny-le-Bretonneux, France), using 3 cycles (6,000 rpm, 3x30 s). The tubes were cooled on ice after each cycle. RNA was extracted using the RNeasy kit following the instructions from the manufacturer (Qiagen), including on-column DNase digestion. Libraries were prepared from RNA treated with RiboMinus (Thermo Fisher Scientific, Waltham, MA, USA) using a modification of the Illumina TruSeq sample preparation kit (Catalog ID RS-122-2001, Illumina, San Diego, CA, USA) to achieve strand-specificity as described by Sigurgeirsson et al. (BMC Genomics 2014, 15:631). 40 0 F Application Read Forward 1 1 R Application Read Reverse 21 Illumina HiSeq 2000 Experimental Factor: 2 culture time ERX1409557 E-MTAB-4589:M4 ERP014704 RNA-seq of Malassezia sympodialis ERS1094697 SAMEA3907563 M4 RNA-Seq TRANSCRIPTOMIC Hybrid Selection After 2 or 4 days of culture, cells were suspended in diethylpyrocarbonate water, harvested by centrifugation 1000 g for 5 min, resuspended in diethylpyrocarbonate water and counted. Between 1x108 and 4x109 cells were harvested by centrifugation. M. sympodialis (ATCC 42132) was cultured on Dixon agar plates modified to contain 1% (vol/vol) Tween 60, 1% (wt/vol) agar, and no oleic acid (mDixon) at 32°C and contamination was excluded using blood and Sab-oxide agar plates. Cell pellets were resuspended in 600 μl Buffer RLT from the RNeasy kit (QIAGEN) and added to approximately 600 μl of acid-washed 0.4-0.6 mm silica beads. The cells were disrupted in a Precellys 24 homogenizer (Bertin Technologies, Montigny-le-Bretonneux, France), using 3 cycles (6,000 rpm, 3x30 s). The tubes were cooled on ice after each cycle. RNA was extracted using the RNeasy kit following the instructions from the manufacturer (Qiagen), including on-column DNase digestion. Libraries were prepared from RNA treated with RiboMinus (Thermo Fisher Scientific, Waltham, MA, USA) using a modification of the Illumina TruSeq sample preparation kit (Catalog ID RS-122-2001, Illumina, San Diego, CA, USA) to achieve strand-specificity as described by Sigurgeirsson et al. (BMC Genomics 2014, 15:631). 40 0 F Application Read Forward 1 1 R Application Read Reverse 21 Illumina HiSeq 2000 Experimental Factor: 2 culture time ERX1409558 E-MTAB-4589:P1 ERP014704 RNA-seq of Malassezia sympodialis ERS1094698 SAMEA3907564 P1 RNA-Seq TRANSCRIPTOMIC Hybrid Selection After 2 or 4 days of culture, cells were suspended in diethylpyrocarbonate water, harvested by centrifugation 1000 g for 5 min, resuspended in diethylpyrocarbonate water and counted. Between 1x108 and 4x109 cells were harvested by centrifugation. M. sympodialis (ATCC 42132) was cultured on Dixon agar plates modified to contain 1% (vol/vol) Tween 60, 1% (wt/vol) agar, and no oleic acid (mDixon) at 32°C and contamination was excluded using blood and Sab-oxide agar plates. Cell pellets were resuspended in 600 μl Buffer RLT from the RNeasy kit (QIAGEN) and added to approximately 600 μl of acid-washed 0.4-0.6 mm silica beads. The cells were disrupted in a Precellys 24 homogenizer (Bertin Technologies, Montigny-le-Bretonneux, France), using 3 cycles (6,000 rpm, 3x30 s). The tubes were cooled on ice after each cycle. RNA was extracted using the RNeasy kit following the instructions from the manufacturer (Qiagen), including on-column DNase digestion. Libraries were prepared from RNA treated with RiboMinus (Thermo Fisher Scientific, Waltham, MA, USA) using a modification of the Illumina TruSeq sample preparation kit (Catalog ID RS-122-2001, Illumina, San Diego, CA, USA) to achieve strand-specificity as described by Sigurgeirsson et al. (BMC Genomics 2014, 15:631). 40 0 F Application Read Forward 1 1 R Application Read Reverse 21 Illumina HiSeq 2000 Experimental Factor: 4 culture time ERX1409559 E-MTAB-4589:P2 ERP014704 RNA-seq of Malassezia sympodialis ERS1094699 SAMEA3907565 P2 RNA-Seq TRANSCRIPTOMIC Hybrid Selection After 2 or 4 days of culture, cells were suspended in diethylpyrocarbonate water, harvested by centrifugation 1000 g for 5 min, resuspended in diethylpyrocarbonate water and counted. Between 1x108 and 4x109 cells were harvested by centrifugation. M. sympodialis (ATCC 42132) was cultured on Dixon agar plates modified to contain 1% (vol/vol) Tween 60, 1% (wt/vol) agar, and no oleic acid (mDixon) at 32°C and contamination was excluded using blood and Sab-oxide agar plates. Cell pellets were resuspended in 600 μl Buffer RLT from the RNeasy kit (QIAGEN) and added to approximately 600 μl of acid-washed 0.4-0.6 mm silica beads. The cells were disrupted in a Precellys 24 homogenizer (Bertin Technologies, Montigny-le-Bretonneux, France), using 3 cycles (6,000 rpm, 3x30 s). The tubes were cooled on ice after each cycle. RNA was extracted using the RNeasy kit following the instructions from the manufacturer (Qiagen), including on-column DNase digestion. Libraries were prepared from poly(A)-selected RNA using the Illumina TruSeq sample preparation kit (Catalog ID RS-122-2001, Illumina, San Diego, CA, USA) in an automated procedure as described by Stranneheim et al. (PLoS One 2011, 6:e21910). 40 0 F Application Read Forward 1 1 R Application Read Reverse 21 Illumina HiSeq 2000 Experimental Factor: 4 culture time ERX1409560 E-MTAB-4589:P3 ERP014704 RNA-seq of Malassezia sympodialis ERS1094700 SAMEA3907566 P3 RNA-Seq TRANSCRIPTOMIC Hybrid Selection After 2 or 4 days of culture, cells were suspended in diethylpyrocarbonate water, harvested by centrifugation 1000 g for 5 min, resuspended in diethylpyrocarbonate water and counted. Between 1x108 and 4x109 cells were harvested by centrifugation. M. sympodialis (ATCC 42132) was cultured on Dixon agar plates modified to contain 1% (vol/vol) Tween 60, 1% (wt/vol) agar, and no oleic acid (mDixon) at 32°C and contamination was excluded using blood and Sab-oxide agar plates. Cell pellets were resuspended in 600 μl Buffer RLT from the RNeasy kit (QIAGEN) and added to approximately 600 μl of acid-washed 0.4-0.6 mm silica beads. The cells were disrupted in a Precellys 24 homogenizer (Bertin Technologies, Montigny-le-Bretonneux, France), using 3 cycles (6,000 rpm, 3x30 s). The tubes were cooled on ice after each cycle. RNA was extracted using the RNeasy kit following the instructions from the manufacturer (Qiagen), including on-column DNase digestion. Libraries were prepared from poly(A)-selected RNA using the Illumina TruSeq sample preparation kit (Catalog ID RS-122-2001, Illumina, San Diego, CA, USA) in an automated procedure as described by Stranneheim et al. (PLoS One 2011, 6:e21910). 40 0 F Application Read Forward 1 1 R Application Read Reverse 21 Illumina HiSeq 2000 Experimental Factor: 4 culture time