Disease Control

Journal of General Plant Pathology

, Volume 77, Issue 2, pp 121-131

First online:

Microbial community profiles in intercellular fluid of rice

  • Hideki TakahashiAffiliated withDepartment of Life Science, Graduate School of Agricultural Science, Tohoku University Email author 
  • , Hiroyuki SekiguchiAffiliated withRhizosphere Environment Research Team, National Agricultural Research Center for Hokkaido Region, Shinsei, Memuro
  • , Toyoaki ItoAffiliated withEnvironmental Crop Science, Graduate School of Agricultural Science, Tohoku University
  • , Masashi SasaharaAffiliated withDepartment of Crop Protection, Miyagi Prefectural Furukawa Agricultural Experiment Station
  • , Noriko HatanakaAffiliated withDepartment of Crop Protection, Miyagi Prefectural Furukawa Agricultural Experiment Station
  • , Atsushi OhbaAffiliated withDepartment of Crop Protection, Miyagi Prefectural Furukawa Agricultural Experiment Station
  • , Shu HaseAffiliated withDepartment of Life Science, Graduate School of Agricultural Science, Tohoku University
  • , Sugihiro AndoAffiliated withDepartment of Life Science, Graduate School of Agricultural Science, Tohoku University
  • , Hiroshi HasegawaAffiliated withNational Agricultural Research Center for Tohoku Region, National Agricultural Research Organization
    • , Shigehito TakenakaAffiliated withRhizosphere Environment Research Team, National Agricultural Research Center for Hokkaido Region, Shinsei, Memuro

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Abstract

Plants harbor microorganisms that are thought to stimulate plant defense systems or promote plant growth. Individual species in these intercellular microbial communities are often not sufficiently abundant to be easily described, although some endophytic microorganisms amenable to culture have been characterized. To better understand the microbial population of plants, we collected intercellular fluid (IF) from leaf blades and sheaths of rice and subsequently isolated DNA from the IF. Denaturing gradient gel electrophoresis (DGGE) analysis of 16S and 18S rDNA fragments amplified from IF DNA by PCR indicated that these band patterns were distinguishable from those of a leaf surface-wash fluid (SF). Analysis of a set of rDNA fragments amplified from IF DNA of rice with different genotypes, paddies or growth stages for the primary survey of overall microbial community in the IF suggested that this approach is suitable for analyzing microbial diversity in the IF from various plant samples. Actually, comparative analysis of amplified rDNA fragments of rice and other five plant species indicated that the microbial diversity in IF is likely to vary substantially among plant species. We can also use sequence analysis of 16S rDNA fragments amplified from rice IF DNA to identify species including unculturable bacteria and proteobacteria and Xanthomonas and 18S rDNA fragments to identify Tilletiaria anomala, Tilletia iowensis, Ustilago maydis and unculturable eukaryotes. Thus, IF DNA analysis seems to be a good tool to further study the microbial ecology of plants.

Keywords

Endophyte Intercellular fluid Microbial community Unculturable microorganisms Rice (Oryza sativa)