Carpediemonas transcriptome sequencing
For RNA sequencing, biomass was harvested from an enrichment culture via centrifugation during the mid-exponential growth phase and immediately preserved with RNAlater (Ambion).  RNA extraction was performed as previously described (Smith et al., 2007).  The library was prepared by depletion of prokaryotic rRNA (Ribo-Zero Kit for Bacteria, epicentre) and sequenced on an Illumina MiSeq instrument.