title: MMaseSeq of H. werneckiion YNB 1.7 M NaCl rep2
design: H. werneckii cells were grown in synthetic defined yeast nitrogen base (YNB) liquid medium (Sigma Aldrich), supplemented with 1.7 M NaCl (equivalent to 10 % (w/v) NaCl) and adjusted to pH 7.0, and 200 ml of culture was used for nucleosome-bound gDNA preparation, following the protocol of Tui et al. (Tsui, Durbic, Gebbia, & Nislow, 2012) but omitting the gel extraction step as described by Henikoff et al. (Henikoff, Belsky, Krassovsky, MacAlpine, & Henikoff, 2011). DNA was digested with titrations (12.5 Đ 50 U) of micrococcal nuclease (Fermentas), selecting for library preparation samples that showed >80 % mononucleosomes based on agarose gel analysis. Two independent DNA samples were converted to sequencing libraries using NEBNext Ultra DNA Library Prep Kit for Illumina (New England Biolabs), selecting for 150 bp inserts with Agencourt AMPure XP beads (Beckman Coulter). Libraries were sequenced on a HiSeq 2500 (Illumina), generating paired 100 bp reads.