期刊
MICROBES AND ENVIRONMENTS
卷 27, 期 2, 页码 204-208出版社
JAPANESE SOC MICROBIAL ECOLOGY, DEPT BIORESOURCE SCIENCE
DOI: 10.1264/jsme2.ME11258
关键词
Bacterial community; phylogenetic analysis; 16S rRNA gene; plant-associated bacteria
资金
- BRAIN
- Ministry of Agriculture, Forestry, and Fisheries of Japan [PMI-0002]
- Ministry of Education, Science, Sports, and Culture of Japan [23248052, 23658057]
- Development of Mitigation and Adaptation Techniques to Global Warming in the Sectors of Agriculture, Forestry, and Fisheries
- Grants-in-Aid for Scientific Research [23248052, 23658057, 12J07071, 22580074] Funding Source: KAKEN
Pyrosequence targeting of the 16S rRNA gene has been adopted for microbial communities associated with field-grown plants. To examine phylogenetic drifts according to read length and bioinformatic tools, original and chopped sequences (250-570 bp) covering the V1-V4 regions of 16S rRNA genes were compared using pyrosequence and Sanger reads of rice root microbiomes. The phylogenetic assignment at genus level depended on read length, especially in the genus Bradyrhizobium, which is one of the ecologically important bacterial genera associated with plants. We discuss the methodology of phylogenetic assignments of plant-associated bacteria by 16S rRNA pyrosequence.
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