Plastisphere metaproteomics optimisation dataset
In this study, a comprehensive experimental design was used to optimise the key steps of (i) DNA-protein co-extraction, (ii) biofilm detachment and/or cell lysis (both mechanical and chemical), (iii) different proteomics workflows (gel-free versus gel-based), and, (iv) the generation of protein search databases using, 16S and 18S rRNA sequencing, metagenomics, and public repositories, to produce a combined optimal multi-omics and comparative metaproteomics workflow for the marine plastisphere.