In order to investigate the effect of stacking frequency on antibiotic resistance genes （ARGs） and movable genetic elements （MGEs） in continuous composting of ectopic fermentation bed，two conditions were set： turning over once every day （F1 group） and turning over once every two days （F2 group）. Fifteen target genes，including 2 tetracycline （tetG，tetW），3 sulfonamide （sul1，sul2，dfrA1），2 β-lactamse （bla_TEM-1，fexA），2 MLSB （ermX，ermQ），2 FCA （optrA，IsaE） and 1 aminoglycoside （aac（6?）-Ib-cr），1 integrase （intI1） and 2 transposon （Tn916/1545，ISCRI） genes，were identified by PCR in composting process，and 7 genes with high detection rate （tetG，tetW，sul1，sul2，bla_TEM-1，ermQ，intI1） were quantitatively detected by qPCR. The PCR results showed that，11 kinds of ARGs （tetG，tetW，sul1，sul2，bla_TME-1，fexA，ermX，ermQ，optrA，IsaE，aac （6?）-Ib-cr） and 3 kinds of MGEs （intI1，Tn916/1545，ISCRI） were detected in both groups. The detection rates of 7 genes （tetG，tetW，sul1，sul2，bla_TME-1，ermQ、intI1） were high. In F1 and F2 groups，12 species were detected at 0 to 5 d，and 1 species was detected at 33 d in F1 and 40 d in F2，and the detection rates increased significantly after 40 d，indicating that the species of ARGs and MGEs changed with temperature. qPCR results showed that the total relative abundance of 7 target genes in F1 and F2 groups decreased firstly，then increased and then decreased，and decreased by 82.33% and 78.89% at the end of the experiment compared with 0 d，respectively. The relative abundance of tetG，tetW，sul1，bla_TEM-1，ermQ and intI1 decreased by 16.51%，87.89%，54.58%，99.99%，97.80%，59.29%，and 64.32%，99.46%，50.91%，99.29%，82.22%，99.92% in F1 and F2 groups，respectively. The results showed that the types and relative abundance of ARGs could be reduced by ectopic fermentation bed during degradation manure and sewage at high temperature，and the removal efficiency of most ARGs was better by turning over once every two days.