Have you ever heard of chronic pelvic pain syndrome? It's also called chronic prostatitis, but not nearly as often anymore because it encompasses a lot of other things now.
There is also something called urethral syndrome that might apply better.
Also, have you been tested for mycoplasma genitalium? https://www.webmd.com/sexual-conditions/mycoplasma-genitalium It's a newer STD, and a lot of docs don't know about it. If you're in the US, the FDA recently approved a test for it.
I mean, I guess it's possible that you have what the book describes. I'd imagine that even if they are hard to kill, the pathogen wouldn't be hard to find in your urine. Have you been under the care of a urologist? You've had the ultrasound, cystoscopy? They've sent your urine out for culture?