I need your kind help.
I intend to evaluate the genes associated with nosocomial infections with the hospital environments as my sample sites. Is it possible to employ metagenomics to characterize bacterial isolates from these environments? If yes, knowing fully well that resistance in bacteria is bi-factorial, is it possible to also use metagenomics analysis to differentiate chromosomally mediated resistance from that of plasmid encoded? Please I need possible methods I can employ.