Table 1.

Bacterial cellular functions differently expressed following plasmid acquisition, compiled from untargeted proteomic, transcriptomics and metabolomics studies.

function	bacteria	plasmid	reference
metabolism	Escherichia coli DH10B, Escherichia coli AR060302, Salmonella enterica SL317, Salmonella enterica SL486, Salmonella enterica MH16125, Shewanella oneidensis MR-1	A/C2	[24]
amino acid metabolism	Pseudomonas aeruginosa	pBS228, Rms149, pAKD1, pAMBL1, pAMBL2, pNUK73	[20]
	Pseudomonas putida KT2440	pCAR1	[23]
	Pseudomonas putida KT2440, Pseudomonas aeruginosa PAO1, Pseudomonas fluorescens Pf0-1	pCAR1	[22]
nucleotide metabolism	Pseudomonas putida KT2440	pCAR1	[23]
	Pseudomonas aeruginosa PAO1, Pseudomonas fluorescens Pf0-1	pCAR1	[22]
energy metabolism	Pseudomonas aeruginosa	pBS228, Rms149, pAKD1, pAMBL1, pAMBL2, pNUK73	[20]
	Pseudomonas putida KT2440, Pseudomonas aeruginosa PAO1, Pseudomonas fluorescens Pf0-1	pCAR1	[22]
	Pseudomonas putida KT2440, Pseudomonas aeruginosa PAO1, Pseudomonas fluorescens Pf0-1	pCAR1	[21]
	Escherichia coli DH10B, Salmonella enterica SL317,	A/C2	[24]
carbohydrate metabolism	Pseudomonas aeruginosa	pBS228, Rms149, pAKD1, pAMBL1, pAMBL2, pNUK73	[20]
	Pseudomonas putida KT2440, Pseudomonas aeruginosa PAO1,	pCAR1	[22]
	Pseudomonas putida KT2440	pCAR1	[23]
nitrogen metabolism	Pseudomonas aeruginosa	pBS228, Rms149, pAKD1, pAMBL1, pAMBL2, pNUK73	[20]
lipid metabolism	Pseudomonas aeruginosa	pBS228, Rms149, pAKD1, pAMBL1, pAMBL2, pNUK73	[20]
	Pseudomonas putida KT2440, Pseudomonas aeruginosa PAO1, Pseudomonas fluorescens Pf0-1	pCAR1	[22]
respiration	Pseudomonas putida KT2440, Pseudomonas aeruginosa PAO1, Pseudomonas fluorescens Pf0-1	pCAR1	[21]
	Salmonella enterica MH16125, Shewanella oneidensis MR-1	A/C2	[24]
secretion systems	Pseudomonas aeruginosa	pBS228, Rms149, pAKD1, pAMBL1, pAMBL2, pNUK73	[20]
Type-III	Pseudomonas aeruginosa	pBS228, Rms149, pAKD1, pAMBL1, pAMBL2, pNUK73	[20]
	Salmonella enterica SL317, Salmonella enterica SL486, Salmonella enterica MH16125	A/C2	[24]
Type-VI	Pseudomonas aeruginosa	pBS228, Rms149, pAKD1, pAMBL1, pAMBL2, pNUK73	[20]
	Acinetobacter baumannii	pAB5	[25]
	Pseudomonas putida KT2440	pCAR1	[23]
signalling	Pseudomonas putida KT2440, Pseudomonas aeruginosa PAO1, Pseudomonas fluorescens Pf0-1	pCAR1	[22]
translation and transcription	Pseudomonas aeruginosa	pBS228, Rms149, pAKD1, pAMBL1, pAMBL2, pNUK73	[20]
	Pseudomonas putida KT2440, Pseudomonas aeruginosa PAO1, Pseudomonas fluorescens Pf0-1	pCAR1	[22]
motility	Pseudomonas putida KT2440	pCAR1	[23]
	Pseudomonas putida KT2440, Pseudomonas fluorescens Pf0-1	pCAR1	[22]
	Pseudomonas putida KT2440, Pseudomonas aeruginosa PAO1, Pseudomonas fluorescens Pf0-1	pCAR1	[21]
	Salmonella enterica SL317, Salmonella enterica SL486, Salmonella enterica MH16125	A/C2	[24]
biofilm formation and adherence	Acinetobacter baumannii	pAB5	[25]
	Salmonella enterica SL317, Salmonella enterica SL486, Salmonella enterica MH16125	A/C2	[24]
TCA cycle	Pseudomonas putida KT2440	pCAR1	[23]
	Pseudomonas putida KT2440, Pseudomonas aeruginosa PAO1, Pseudomonas fluorescens Pf0-1	pCAR1	[21]
	Escherichia coli DH10B, Shewanella oneidensis MR-1	A/C2	[24]
iron acquisition	Acinetobacter baumannii	pAB5	[25]
	Pseudomonas putida KT2440	pCAR1	[23]
	Pseudomonas putida KT2440, Pseudomonas aeruginosa PAO1, Pseudomonas fluorescens Pf0-1	pCAR1	[22]
	Salmonella enterica SL486, Salmonella enterica MH16125, Shewanella oneidensis MR-1	A/C2	[24]
transporters	Acinetobacter baumannii	pAB5	[25]
	Pseudomonas aeruginosa	pBS228, Rms149, pAKD1, pAMBL1, pAMBL2, pNUK73	[20]
	Pseudomonas putida KT2440	pCAR1	[23]
	Pseudomonas putida KT2440, Pseudomonas aeruginosa PAO1, Pseudomonas fluorescens Pf0-1	pCAR1	[22]
	Salmonella enterica MH16125	A/C2	[24]