Gene expression dynamics in Beijerinckiaceae bacterium RH AL1 in response to different lanthanum compounds and different lanthanide-containing minerals

We investigated lanthanide (Ln) utilization in Beijerinckiaceae bacterium RH AL1, which requires light Lns (La–Nd) for methanol oxidation. The strain was grown with methanol as the carbon and energy source and with Ln sources including natural minerals (apatite, bastnäsite, gadolinite, loparite, monazite, xenotime), an alloy (ferrocerium), and synthetic compounds (La2O3, Nd2O3, LaPO4). We did two rounds of incubations and cultures were grown to mid-exponential phase. Total RNA was extracted and mRNA enriched by means of subtractive hybridization, before samples were subjected to sequencing library preparation for downstream Illumina high-throughbut sequencing. Pre-processed and trimmed data was subsequently used for differential gene expression analysis.