Fig. 2

Proteome dynamics in the wild-type N. oceanica under VLC/HC. a Number of up- or downregulated proteins at each of the time points under VLC (left; relative to 0 h), HC (middle; relative to 0 h) and VLC/HC (right). b Temporal patterns of relative protein abundances at 3 h, 6 h, 12 h and 24 h. Clustering of k-means using Pearson’s correlation produced six clusters via similarity in abundance profiles. The y-axis represents the peptide–spectrum match (PSM). In a cluster, each blue line represents an individual protein, with the median pattern of abundance indicated by a dark blue line. For each cluster, functional categories of its proteins are shown. c Overview of gene expression values for mRNA-Seq (left), proteomics (right) and their difference (middle), with samples grouped at four time points from each culture condition. The data represent averages of expression values for genes (FPKM: fragments per kilobase million) and proteins (PSM: peptide–spectrum matches) assigned to selected functional categories