I transformed my bacteria using electroporation, I need to isolate the plasmid now. The size of plasmid is about 5kb. I tried this protocol, https://bio-protocol.org/bio101/e30 but it didn't work. Any Suggestions?
did you tried to extract those plasmid from s.aures and p.aeruginosa or from e.coli?
Because tiye protocol seems for e.coli and if p.aerugnosa is a gram negative not so different from e.coli, s.aureus is quite different in terms of membrane stability.
First of all, also for gram negative as e.coli i suggest ti you to use commercial kit that today are quite cheap and works very well.
give a look to the ProteoCool n°12 at Page6 of my blog: https://proteocool.blogspot.com/?m=1
moreover the first things to consider is how you can extract the dna from the cells efficiently.
For example for s.aureus preliminary incubation. with lysostaphin (attached you find a protocol suggested by qiagen) is essential to broke the cells and extract the plasmid from inside.