Phylogenetic and functional analysis of key denitrifiers in rice paddy soil : towards community genomics of soil microorganisms

稻田土壤中关键反硝化菌的系统发育和功能分析：土壤微生物群落基因组学

• 批准号: 19380041
• 负责人: SENOO Keishi
• 金额: $ 12.65万
• 依托单位: The University of Tokyo
• 依托单位国家: 日本
• 项目类别: Grant-in-Aid for Scientific Research (B)
• 财政年份: 2007
• 资助国家: 日本
• 起止时间: 2007 至 2009
• 项目状态: 已结题
• 来源: https://kaken.nii.ac.jp/grant/KAKENHI-PROJECT-19380041/
• 关键词: 水田土壌; 脱窒細菌; 土壌核酸; SIP解析; FSC分離法; クローンライブラリ解析; 脱窒機能遺伝子; 16S rRNA遺伝子; 土壌DNA; 土壌RNA; 定量PCR; 土壌微生物; nirS; nirK; 16S rRNA; 群集構造解析; 亜硝酸還元酵素遺伝子; Stable Isotope Probins法

Rice paddy soil has been shown to have strong denitrifying activity. However, the microbial populations responsible for denitrification have not been well characterized. We used multiple approaches, including stable isotope probing, large-scale 16S rRNA gene sequence analysis, nitrite reductase gene analysis, and a novel single-cell isolation procedure, to identify the key players in denitrification in rice paddy soil. Based on the culture-independent analyses, bacteria in the orders Burkholderiales and Rhodocyclales were identified as the key players in denitrification in rice paddy soil under both laboratory and field conditions. Based on 16S rRNA gene, nirS and nirK sequence, oligonucleotide probes for phylogenetic and functional microarray were successfully designed.

水稻土壤已被证明具有很强的反硝化活性。然而，负责反硝化的微生物种群尚未得到很好的表征。我们使用了多种方法，包括稳定同位素探测、大规模16S rRNA基因序列分析、亚硝酸盐还原酶基因分析和一种新的单细胞分离方法，以确定水稻土壤反硝化的关键参与者。通过与培养无关的分析，在实验室和田间条件下确定了burkholderales和Rhodocyclales细菌是水稻土壤反硝化的关键参与者。基于16S rRNA基因、近红外光谱（nirS）和nirK序列，成功设计了用于系统发育和功能芯片的寡核苷酸探针。

项目成果

Seasonal Change in Diversity of Nitrate Reducing Genes in Rice Field Soil

稻田土壤硝态氮还原基因多样性的季节变化

• 发表时间: 2008
• 作者: Megumi Yoshida;Takayuki Saito;Satoshi Ishii;Shigeto Otsuka;Keishi Senoo
• 通讯作者: Keishi Senoo

Microbial populations responding to denitrification-inductive conditions in rice paddy soil, as revealed by comparative 16S rRNA gene analysis

通过比较 16S rRNA 基因分析揭示微生物种群对稻田土壤反硝化诱导条件的响应

• 发表时间: 2009
• 期刊: Appl.Environ.Microbiol. 75
• 作者: Ishii S;他
• 通讯作者: 他

Diversity of denitrifying bacteria in rice field soil revealed by Stable Isotope Probing

稳定同位素探测揭示稻田土壤反硝化细菌多样性

• 发表时间: 2007
• 作者: Takayuki Saito;Shigeto Otsuka;Masaya Nishiyama;Keishi Senoo
• 通讯作者: Keishi Senoo

Multiple Approaches to Identify Key Players in Denitrification in Rice Paddy Soil

确定稻田土壤反硝化关键参与者的多种方法

• 发表时间: 2009
• 作者: 妹尾啓史;石井聡;多胡香奈子;吉田愛美;大塚重人
• 通讯作者: 大塚重人

脱窒機能遺伝子 nirS, nirK 解析に基づく水田土壌の脱窒細菌群集構造

基于反硝化功能基因nirS和nirK分析的水稻土反硝化细菌群落结构

• 发表时间: 2008
• 作者: 吉田愛美;石井聡;斉藤貴之;大塚重人;妹尾啓史
• 通讯作者: 妹尾啓史