“…Examples include investigating different protein levels in resistant [ 30 ] and drug-tolerant bacterial phenotypes [ 31 ] ( Table 2 ), as well as reports on the bacterial adaptation to different growing conditions and bacterial catabolism [ 32 ], biomarker discovery [ 33 ], and pathogen-host cell interactions [ 34 , 35 ]. In several other studies, different proteome analysis approaches have been employed to study the bacterial response to commonly used antibiotics such as ciprofloxacin [ 36 , 37 , 38 , 39 , 40 ], tobramycin [ 41 , 42 ], colistin [ 43 , 44 , 45 ], polymyxin B [ 46 ], daptomycin [ 47 , 48 ], and silver nanoparticles [ 49 ] ( Table 2 ). In addition, many biological processes are regulated by post-translational modifications (PTMs).…”