What? You've entirely misrepresented the conclusions of that study. It says that interaction with the environment is important for a healthy microbiome and immune system. It only dismisses the term "hygiene hypothesis" in the sense that it leads people to think things like over-handwashing are responsible.

Conclusion: Evidence suggests a combination of strategies, including natural childbirth, breast feeding, increased social exposure through sport, other outdoor activities, less time spent indoors, diet and appropriate antibiotic use, may help restore the microbiome and perhaps reduce risks of allergic disease. Preventive efforts must focus on early life. The term ‘hygiene hypothesis’ must be abandoned.