Fig. 3

Cysteine-associated processes are differentially expressed in response in OXY and NAO S. salmonicida cells. a Evolutionary gene network of all differentially expressed genes encoding cysteine-rich proteins (CRPs and Tenascins) and membrane proteins (CRMP1 and CRMP1) in OXY (purple) and/or NAO (orange) cells. Each node represents one cysteine-rich protein where edges were weighted by pair-wise sequence identity. Proteins are subclassified is based on their domain composition into region rich in CXC and CXXC domains (yellow), transmembrane domain (green) and conserved [KR][KR]X[KR][KR] motif (red) as indicated. Gene nodes with log₂fold changes greater than or less than 1.0 are shown in red and blue respectively; genes with non-significant expression changes are shown in white; numerical summary for upregulated (up arrowhead), downregulated (down arrowhead) and non-significant (square) genes are shown. b Cysteine is synthesized from serine and acetyl-CoA via serine acetyl transferase (SAT) to O-acetyl-serine which is thiolated by cysteine synthase (CysO) using sulfide derived from elemental sulfur via sulfide dehydrogenase (SD). Selenocysteine is synthesized directly on a serine-charged selenocysteine tRNA. Serine is added to the tRNA by Seryl-tRNA synthetase (SerS) and phosphorylated by L-Seryl-tRNA(Sec) kinase (PSTK). Selenophosphate, derived from selenite (or selenocysteine, not shown), is generated via Phosphoseryl-tRNA(Sec) selenium transferase (SPS), is added via Selenophosphate synthetase, cysteine desulfurase fusion protein (SecS-NifS). Pathway labeling is as described in Fig. 1 and summarized in key. c Repair of oxygen-damaged methionine residues in proteins. MSR peptide methionine sulfoxide reductase, THX thioredoxin