Yes it is more than possible for a human pathogen to either help or not harm other organisms. Look at killer E. coli, that bug causes no issues in cattle but if a human contracts it watch out. Certain strains of salmonella are normal flora for lizards but potentially pathogenic to humans. Same with campylobacter in poultry.
One thing to note, whooping cough and gonorrhea are caused by two different organisms...
~~Nonpathogenic microbes are our friends~~