You should try dplyr::mutate_at :
library(dplyr)
airquality %>%
group_by(City, year) %>%
summarise_at(.vars = c("PM10", "PM25", "Ozone", "CO2"), .funs = mean)
# A tibble: 8 x 6
# Groups: City [?]
City year PM10 PM25 Ozone CO2
1 CityA 1990 0.004087379 0.5146409 0.44393422 0.61196671
2 CityA 2000 0.039414194 0.8865582 0.06754322 0.69870187
3 CityA 2010 0.116901563 0.6608619 0.51499227 0.32952099
4 CityB 1990 -1.535888778 -0.9601897 1.17183649 0.08380664
5 CityB 2000 0.226046487 0.4037230 0.86554997 -0.05698204
6 CityB 2010 -0.824719956 0.1508471 0.32089806 -0.12871853
7 CityC 2000 -0.824509111 -0.6928741 0.85553837 0.12137923
8 CityC 2010 -1.626150294 1.5176198 0.21183149 -0.63859910