Metaproteomic Analysis of Synechococcus Coculture

Metaproteomic analysis of the Synechococcus sp. YX04-3 coculture was conducted to elucidate the molecular mechanisms underlying population-level interactions. The 22nd day of cocultivation was chosen for targeted proteomic analysis because the number of Synechococcus cells was equivalent to the number of heterotrophic bacterial cells at this time point. To generate the metaproteomes, triplicate 120-ml liquid cultures were centrifuged (3,000 × g for 15 min at 4°C). The supernatant was then filtered through 0.22-μm-pore-size filter unit (Sterivex-GV, Millipore) and subjected to exoproteome analysis. The detailed protocol was conducted by the method of Christie-Oleza et al. (8 (link)) and supplied in the supplemental material. The mass spectrometry proteomics data have been deposited to the ProteomeXchange Consortium via the PRIDE partner repository with the data set identifier PXD015067.