Are there any full featured pdf readers that integrate comment function?

I'm needing reading some research papers whose formats are almost pdf.However I cannot find a good pdf reader which can make some notes while reading. Currently I use **xournal** however there seems not many choices when I want to make different comments. There exists another problem:the comments made is actually on another layer so other pdf readers cannot recongnize it. "Export to PDF" seems a little rude for me.