Fig. 4: Proteome analysis of Microcaldus variisymbioticus ARM-1 and M. javensis AS-7.
From: Cell-to-cell interactions revealed by cryo-tomography of a DPANN co-culture system
A Volcano Plot of proteome alterations observed between M. javensis AS-7 co-cultured with Microcaldus variisymbioticus ARM-1 and M. javensis AS-7 alone. Proteins observed to be altered within AS-7, defined as proteins showing a > ±1 log2 fold change and a −log10(p value)> 2 using a two-tailed unpaired T test, are denoted in yellow while ARM-1 proteins are denoted in green. ARM-1 proteins are presented here to show their identification, not fold change. B Pie chart of observable proteins across species reveal 698 (green) and 1810 proteins (yellow) were identified across these proteomes, respectively, at a 1% FDR. C Pie chart of proteins quantified ≥3 replicates of AS-7 (1654 proteins) reveal 33% of the proteome is altered during ARM-1 infection. D Manhattan plot of protein changes observed across the AS-7 genome, defined as proteins showing a >±1 log2 fold change and a −log10(p value)> 2 using a two-tailed unpaired T test, reveals widespread alterations with examination of protein changes between accession BCS92900 and BCS93100 E and BCS 93400 and BCS93700 F revealing evidence of alterations within potential operons. Bar graph of COG pathway analysis of proteomics data, showing the percentage of differentially regulated proteins in each COG category G. Standard COG categories (A–Z) are as follows: RNA processing and modification (A), Chromatin Structure and Dynamics (B), Energy production and conversion (C), Cell cycle control, cell division, chromosome partitioning (D), Amino acid transport and metabolism (E), Nucleotide transport and metabolism (F), Carbohydrate transport and metabolism (G), Coenzyme transport and metabolism (H), lipid transport and metabolism (I), Translation, ribosomal structure and biogenesis (J), Transcription (K), Replication, recombination and repair (L), Cell wall/membrane/envelope biogenesis (M), Cell motility (N), Posttranslational modification (O), Inorganic ion transport and metabolism (P), Secondary metabolites biosynthesis, transport and catabolism (Q), General function prediction only (R), Function unknown (S), Signal transduction mechanisms (T), Intracellular trafficking, secretion, and vesicular transport (U), Defense mechanisms (V), Extracellular structures (W), Mobilome: prophages, transposons (X), Nuclear structure (Y), and Cytoskeleton (Z).
