Table 5.

Functional groups of C4-interacting proteins based on gene ontology

Classification	Control tomato	Treated tomato
Translation	40S ribosomal protein SA-like 60S ribosomal protein L28-1 Eukaryotic translation initiation factor 5A-1 Eukaryotic initiation factor 4A-2-like	40S ribosomal protein SA-like AT-rich interactive domain containing protein 5-like Asparagine—tRNA ligase Elongation factor 1-alpha-like Eukaryotic translation initiation factor 5A-3 60S ribosomal protein L28-1
Ubiquitination	Ubiquitin-conjugating enzyme E2 variant 1B-like Ubiquitin-conjugating enzyme E2 2 WD repeat-containing protein 61-like DEAD-box ATP-dependent RNA helicase-42 Small nuclear ribonucleoprotein G ADP-ribosylation factor GTPase-activating protein (AGD11)	3-dehydroquinate synthase-like RING-H2 finger protein ATL7-like Adagio protein 1-like Putative syntaxin-24-like E3 ubiquitin-protein ligase UPL7-like U-box domain-containing protein17-like Aspartic proteinase Asp1-like
To support defense production	Nitronatemonooxygenase Chlorophyll a–b binding protein 8 Beta-glucosidase 08 Glutamate–glyoxylate aminotransferase 2 Ribulosebisphosphate carboxylase small chain 2A Ribulosebisphosphate carboxylase small chain 1 Ribulosebisphosphate carboxylase small chain 2C Ribulosebisphosphate carboxylase small chain 3B Pyridoxal biosynthesis protein PDX1 Cysteine synthase	Triose phosphate/phosphate translocator Glyceraldehyde-3-phosphate dehydrogenase (GAPDH) Hydroxypyruvatereductase (HPR) Early nodulin-like protein 2-like (LOC101251653) D-3-phosphoglycerate dehydrogenase 2-oxoisovalerate dehydrogenase subunit beta GDP-mannose-dependent alphamannosyltransferase
Plant defense	LOC101268660 (uncharacteristic) catalase 2 (CAT2 gene) CONSTANS interacting protein 4 (CIP4) 3-oxoacyl-[acyl-carrier-protein] synthase I Methyltransferase S-adenosyl-L-homocysteine hydrolase (SAHH) 14-3-3 family protein Glycine-rich protein	ABC transporter F family member 1-like Metallothionein-like protein Metallothionein II-like protein (MTA) 14-3-3 family protein 18.5 kDa class I heat shock protein-like Late blight resistance protein homolog R1A-10-like S-adenosyl-L-homocysteine hydrolase (SAHH) Histone deacetylase HDT1-like LRR receptor-like serine/threonine-protein kinase Flavonoid biosynthesis oxidoreductase Carotenoid cleavage dioxygenase 1-2 (CCD1-2) Pathogenesis-related leaf protein 6 (PR1B1) Oxygen-evolving enhancer protein1 Importin subunit alpha-1a-like
Others		TYLCV coat protein Phytosulfokines 3-like