The　addition　of　second　metal　(Co)　to　nanoscale　iron　particles　(NIPs)　is　an　attractive　strategy　to　improve　catalytic　capacity.　However,　the　nanoparticles　tend　to　form　chain-like　aggregates.　In　this　study,　bacterial　16S　rRNA　gene,　antibiotic　resistance　genes　(ARGs)　and　mobile　genetic　elements　(MGEs)　from　secondary　effluent　were　significantly　removed　by　Ginkgo　biloba　L.　modified　nanoscale　iron-cobalt　particles　(GNICPs).　When　the　Co　loading,　initial　pH　value,　DO　and　dosage　were　10%,　7.33,　8.94 mg/L　and　1.12 g/L,　some　ARGs　and　MGEs　could　be　reduced　below　the　detection　limit　at　the　2nd　or　3rd　cycle.　Illumina　MiSeq　sequencing　demonstrated　that　negative　correlations　were　found　between　ARGs　and　reaction　time/cycles.　The　predicted　microbial　functions　by　FAPROTAX　database　indicated　GNICPs　were　effective　in　eliminating　human_pathogens_all.　Furthermore,　oligotyping　revealed　all　ARGs　and　MGEs　were　positively　correlated　with　oligotype　10,　which　indicated　GNICPs　removed　oligotype　10　easily.