The objective of this study was to investigate the endophytic bacterial communities in seeds of Beijing high-quality hybrid maize varieties, which had genetic relationships used microbial culture-dependent methods. The results of this study indicated that the hybrid maize, which had same male parent Jing 2416, Jinghua 8, Jingnongke 728,Jingdan 68 and NK718 had 10,4,13 and 18 OTUs, respectively. The first dominant species (Microbacterium maritypicum DSM 12512T) (AJ853910) of the hybrid Jingnongke 728 was consistent with the second dominant species of the hybrid Jingdan 68 and consistent with the tied for third dominant species of the hybrid NK718. The tied for second dominant species (Microbacterium saperdae IFO 15038T) (AB004719) of the hybrid Jingnongke 728 was consistent with the tied for second dominant species of the hybrid Jingdan 68. Jingke 968 and Jingke 665 with the same male parent Jing 92 had 14 and 7 OTUs, The second dominant species (Bacillus horneckiae DSM 23495T (FR749913)) of the hybrid Jingke 968 was consistent with the first dominant species of the hybrid Jingke665. The result indicated that the endophytic bacterial diversity had certain relevance in the seeds of hybrid maize which were genetically related. Hybrid maize with the same male parent had same dominant species and had similar OTU number while hybrid maize with different male parents had different OTU numbers and community structures. Accrording to the available literature, this was the first research reported in world on the diversity of endophytic bacterial communities in seeds of Beijing high-quality hybrid maize varieties.