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西田 暁史 (ニシダ アキフミ) - 助教 |
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Shuuki Takizawa, Akifumi Nishida, Masayuki Yamamura
Ecosphere ( Wiley ) 13 ( 3 ) 2022年03月 [査読有り]
研究論文(学術雑誌) 共著
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Determinism of microbial community assembly by drastic environmental change
Akifumi Nishida*, Mayuko Nakagawa, Masayuki Yamamura
PLOS ONE ( Public Library of Science (PLoS) ) 16 ( 12 ) e0260591 - e0260591 2021年12月 [査読有り]
研究論文(学術雑誌) 共著
Microbial community assembly is shaped by deterministic and stochastic processes, but the relationship between these processes and the environment is not understood. Here we describe a rule for the determinism and stochasticity of microbial community assembly affected by the environment using in silico, in situ, and ex situ experiments. The in silico experiment with a simple mathematical model showed that the existence of essential symbiotic microorganisms caused stochastic microbial community assembly, unless the community was exposed to a non-adapted nutritional concentration. Then, a deterministic assembly occurred due to the low number of microorganisms adapted to the environment. In the in situ experiment in the middle of a river, the microbial community composition was relatively deterministic after the drastic environmental change caused by the treated wastewater contamination, as analyzed by 16S rRNA gene sequencing. Furthermore, by culturing microbial communities collected from the upstream natural area and downstream urban area of the river in test tubes with varying carbon source concentrations, the upstream community assembly became deterministic with high carbon concentrations while the downstream community assembly became deterministic with low carbon concentrations. These results suggest that large environmental changes, which are different from the original environment, result in a deterministic microbial community assembly.
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Satoshi WATANABE, Shoichiro KAMEOKA, Natsuko O. SHINOZAKI, Ryuichi KUBO, Akifumi NISHIDA, Minoru KURIYAMA, Aya K. TAKEDA
Bioscience of Microbiota, Food and Health ( BMFH Press ) 40 ( 2 ) 123 - 134 2021年04月 [査読有り]
研究論文(学術雑誌) 共著
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Usefulness of Machine Learning-Based Gut Microbiome Analysis for Identifying Patients with Irritable Bowels Syndrome
Hirokazu Fukui (co-1st), Akifumi Nishida (co-1st), Satoshi Matsuda, Fumitaka Kira, Satoshi Watanabe, Minoru Kuriyama, Kazuhiko Kawakami, Yoshiko Aikawa, Noritaka Oda, Kenichiro Arai, Atsushi Matsunaga, Masahiko Nonaka, Katsuhiko Nakai, Masao Matsumoto, Shinji Morishita, Aya K. Takeda, Hiroto Miwa
Journal of Clinical Medicine 9(8) ( 2403 ) 2020年07月 [査読有り]
研究論文(学術雑誌) 共著
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Effect of light wavelength on hot spring microbial mat biodiversity
Akifumi Nishida, Vera Thiel, Mayuko Nakagawa, Shotaro Ayukawa, Masayuki Yamamura
PLOS ONE ( Public Library of Science (PLoS) ) 13 ( 1 ) e0191650 - e0191650 2018年01月 [査読有り]
研究論文(学術雑誌) 共著
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多摩川の微生物生態系モデル構築による下水処理水の影響や季節変動の解析
提供機関: とうきゅう環境財団 多摩川およびその流域の環境浄化に関する 基礎研究、応用研究、環境改善計画のための研究・活動助成
研究期間: 2017年09月 - 2019年03月 代表者: 西田 暁史