Molecular Monitoring of Bacterial Community Structure in Long-Aged Nukadoko : Pickling Bed of Fermented Rice Bran Dominated by Slow-Growing Lactobacilli(MICROBIAL PHYSIOLOGY AND BIOTECHNOLOGY)
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概要
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Nukadoko is the fermented rice bran bed traditionally used for pickling vegetables in Japan. Here, we investigate the bacterial community structure of nukadoko using several culture-independent methods. Denaturing gradient gel electrophoresis (DGGE) and sequence analysis of V2-V3 16S rRNA gene (16S rDNA) fragments amplified from a long-aged nukadoko bacterial community indicated seven predominant operational taxonomic units (OTUs) closely related to known Lactobacillus species. Phylogenetic analysis of these OTUs indicated a major cluster consisting of six OTUs including a dominant OTU closely related to Lactobacillus acidifarinae and one distinct OTU corresponding to Lactobacillus acetotolerans. L. acetotolerans was commonly detected as a dominant species in samples from different seasons. The succession of microbial community structure in the fermentation and ripening processes was investigated using a laboratory model nukadoko. The L. acidifarinae-like bacteria grew rapidly with a pH decrease in the first few days after inoculation, whereas L. acetotolerans grew slowly and became dominant after one week. Real-time quantitative polymerase chain reaction (Q-PCR) showed that the doubling time of L. acetotolerans was 12h, while that of total bacteria was 4h. Real-time quantitative reverse transcription polymerase chain reaction (Q-RT-PCR) targeting 16S rRNA showed a low metabolic activity of L. acetotolerans throughout the fermentation and ripening processes. Fluorescence in situ hybridization (FISH) showed that L. acetotolerans was a dominant bacterium in the ripening period and had a low metabolic activity. These results indicate that the slow-growing L. acetotolerans stably dominated nukadoko microbiota after the L. acidifarinae-like bacteria mainly contributed to the lactic acid fermentation of the rice bran.
- 2007-12-25
著者
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Sakai Kenji
Department of Plant Resources, Kyushu University
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Nakayama Jiro
Department of Bioscience and Biotechnology, Faculty of Agriculture, Kyushu University
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Nagao Jun-ichi
Dep. Of Functional Bioscience Section Of Infection Biology Fukuoka Dental Coll. 2-15-1 Tamura Sawara
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Sonomoto Kenji
Department Of Bioscience And Biotechnology Faculty Of Agriculture Graduate School Kyushu University:
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Tanaka Shigemitsu
Department of Cardiology, Tokai University of Medicine
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Sonomoto Kenji
Department Of Biochemical Engineering And Science Faculty Of Computer Science And Systems Engineerin
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Nakayama Jiro
Department Of Applied Biological Chemistry Graduate School Of Agricultural And Life Sciences The Uni
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Sakai Kenji
Department Of Plant Resources Kyushu University
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Sakai Kenji
Department Of Environmental Chemistry And Engineering Faculty Of Engineering Oita University
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Hoshiko Hiroyuki
Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu Universi
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Fukuda Mizuki
Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu Universi
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Tanaka Hidetoshi
Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu Universi
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Sakamoto Naoshige
Department of Bioscience and Biotechnology, Faculty of Agriculture, Graduate School, Kyushu Universi
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Ohue Kazutoshi
Department of Applied Chemistry, Faculty of Engineering, Oita University
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Tanaka Shigemitsu
Department Of Bioscience And Biotechnology Faculty Of Agriculture Graduate School Kyushu University
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Hoshiko Hiroyuki
Department Of Bioscience And Biotechnology Faculty Of Agriculture Graduate School Kyushu University
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Fukuda Mizuki
Department Of Bioscience And Biotechnology Faculty Of Agriculture Graduate School Kyushu University
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Ohue Kazutoshi
Department Of Applied Chemistry Faculty Of Engineering Oita University
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Sakamoto Naoshige
Department Of Bioscience And Biotechnology Faculty Of Agriculture Graduate School Kyushu University
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Sakai Kenji
Department Of Drug Metabolism And Pharmacokinetics Nippon Boehringer Ingelheim Co. Ltd.
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Tanaka Hidetoshi
Department Of Bioscience And Biotechnology Faculty Of Agriculture Graduate School Kyushu University
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Sakai Kenji
Department Of Applied Chemistry Faculty Of Engineering Oita University:(present)department Of Plant
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Sakai Kenji
Department Of Applied Chemistry Faculty Of Engineering Oita University
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NAKAYAMA Jiro
Department of Agricultural Chemistry, The University of Tokyo
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