Figure 1. Schematic of experimental setup. Methylotenera species not possessing methanol dehydrogenase grow very poorly on methanol (Kalyuzhnaya et al., 2006; Kalyuhznaya et al., 2009). In addition, strain 301 cannot be cultivated in liquid culture (Kalyuzhnaya et al., 2012).

We have previously developed protocols for specific gene induction and demonstrated that a rapid response to methanol typically occurs (Beck et al., 2011). Thus induction versus extremely long cultivation were chosen for the Methylotenera strains. Methylovorus species grow well on methanol (Kalyuzhnaya et al., 2012), and thus strain SIP3-4 was grown on methanol, not requiring induction experiments. Two biological replicate RNA samples were prepared, and two RNA-seq datasets were generated for each experiment (numbered 1 to 18). Datasets noted by asterisks have been previously described (Beck et al., 2011). Statistics for each dataset are shown in Table S1. MA, methylamine; Me, methanol.