bioreactor enrichments from intertidal sediment - Metagenomes and Metatranscriptomes

Metagenomes and -transcriptomes were sequenced from samples of a continuous culture bioreactor inoculated with sediment from the German Wadden Sea (intertidal flat), using nitrate as electron acceptor. The influence of generation time on the dominance of either denitrification or DNRA were studied by altering the culture retention time (and thus generation time) in the bioreactor. Samples for DNA and RNA extraction were taken at different time points (between day 6 and day 336 of cultivation). On day 352 and 365, samples were taken to inoculate two new bioreactors, one of them (transfer I) run with a short generation time, the other one (transfer II) with nitrite as electron acceptor and a long generation time. Whole DNA shotgun metagenomes were sequenced and the reads were assembled into contigs. Enriched total mRNA was used for transcriptome sequencing.