S.cerevisiae strains used were BY4716, RM11-1A and YJM789. As previously described in Nagarajan et al. (PLoS Genetics 2010 6(4):e1000913), cells were grown to exponential phase in synthetic medium with 2% glucose (SDall) at 30°C. ChIP was performed at single-nucleosome resolution (MN-ChIP-seq) using formaldehyde fixation followed by micrococcal nuclease digestion and isolation of 150 bp fragments. Three BY, RM ans YJM independent cultures were processed for nucleosome mapping  (MNase-seq samples). For the other samples, ChIP was performed using 10 µl anti-H3K4me1 polyclonal antibody (ActiveMotif, 39297), 3 µl  anti-H3K4me3 polyclonal antibody (Diagenode, CS-003-100), 8 µl of anti-H3K9ac polyclonal antibody (Abcam, ab10812), 3 µl of anti-H3K14Ac polyclonal antibody (Upstate, 07–353), 4 µl of anti-H4K12ac polyclonal antibody (Upstate, 07-595), respectively. ibraries were built following the procedure of the BioScientific NEXTflex™ ChIP-Seq Kit and NEXTflex™ ChIP-seq Barcodes.
Experimental Factor: strain
RM11-1a