The plaster walls and ceilings with polychrome mural paintings covering the interior of the stone chamber in the Kitora Tumulus had been seriously affected by microbial deterioration. Moreover, some parts of the mural paintings drawn on the thin plaster layers had become detached from the stone surface. For these reasons, it was decided to relocate the mural paintings and restore them in an air-conditioned facility. Almost all of the plaster with paintings on the walls and ceilings was relocated in 2008, and relocation of almost all of the plaster without paintings was also completed in 2010. Intermittent UV irradiation has been applied to control microbes on the remaining plaster since 2009. Although significant fungal growth on the plaster was suppressed effectively,dark colored fungi such as a black anamorphic basidiomycetous fungus Burgoa sp. were observed at some points on the walls and ceilings. In the present study, culture-independent,molecular based analysis was performed to monitor current bacterial colonization on the stone surface of walls and ceilings under intermittent UV irradiation. From the result of clone analysis,it was found that many sequences of clones prepared from four samples collected from the stone surface of walls and ceilings in October 2011 were related with the genus Promicromonospora in the phylum "Actinobacteria". Kigawa et.al.reported last year that actinobacteria were isolated as one of the major species from these same samples. To assess the changes of the microbial community under intermittent UV irradiation control in the stone chamber, continuous microbial monitoring and identification with phylogenetic characterization of isolates are still necessary.