Community analysis of nodule-assoicated rhizosphere for revealing a mechanism of continuous cropping promlem in legumious plants

• Project/Area Number: 22580074
• Research Category: Grant-in-Aid for Scientific Research (C)
• Allocation Type: Single-year Grants
• Section: 一般
• Research Field: Plant nutrition/Soil science
• Research Institution: National Agriculture and Food Research Organization
• Principal Investigator: IKEDA Seishi 独立行政法人農業・食品産業技術総合研究機構, 北海道農業研究センター大規模畑作研究領域, 主任研究員 (20396609)
• Project Period (FY): 2010-04-01 – 2015-03-31
• Project Status: Completed (Fiscal Year 2014)
• Budget Amount: ¥4,680,000 (Direct Cost: ¥3,600,000、Indirect Cost: ¥1,080,000); Fiscal Year 2014: ¥910,000 (Direct Cost: ¥700,000、Indirect Cost: ¥210,000); Fiscal Year 2013: ¥910,000 (Direct Cost: ¥700,000、Indirect Cost: ¥210,000); Fiscal Year 2012: ¥910,000 (Direct Cost: ¥700,000、Indirect Cost: ¥210,000); Fiscal Year 2011: ¥910,000 (Direct Cost: ¥700,000、Indirect Cost: ¥210,000); Fiscal Year 2010: ¥1,040,000 (Direct Cost: ¥800,000、Indirect Cost: ¥240,000)
• Keywords: 根粒 / 連作障害 / マメ科 / 土壌微生物 / 根圏 / 細菌 / 糸状菌 / 線虫 / 真核微生物 / ダイズ / インゲン / 微生物多様性 / RISA / 連作 / 土壌DNA / 微生物 / 多様性 / 連鎖障害 / 生態学 / 土壌学 / 遺伝子 / 植物

Outline of Final Research Achievements

As a hypothesis, the nodules biomass in a field was considered as a main factor for causing problems in continuous cropping of leguminous plants. After continuous cropping of three different nodulation phenotypes of soybeans (non-nodule, super-nodule, and wild type soybeans) on the same fields for three years, kidney beans were cultivated on those field as a succeeding crop. The community analysis of rhizosphere soils of these kidney beans revealed that the populations of nematode had no correlation to the nodule biomass in a preceding crop. However, the community structure of non-nodulated soybean mutant was shown to be similar to that of kidney beans which had been continuously cropping for four years. In addition, the community analysis clarified that the relative abundance of Mortierella elongate was increased in the rhizosphere of kidney beans as responding to the nodule biomass of preceding crops.

Research Products

• [Journal Article] Bacterial community shifts associated with high abundance of Rhizobium spp. in potato roots under macronutrient-deficient conditions (2015)
  • Author(s): Yusuke Unno, Takuro Shinano, Kiwamu Minamisawa, Seishi Ikeda
  • Journal Title: Soil Biology & Biochemistry Volume: 80 Pages: 232-236
  • DOI: 10.1016/j.soilbio.2014.10.002
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Elevated atmospheric CO2 levels affect community structure of rice root-associated bacteria (2015)
  • Author(s): Takashi Okubo, Dongyan Liu, Hirohito Tsurumaru, Seishi Ikeda, Susumu Asakawa, Takeshi Tokida, Kanako Tago, Masahito Hayatsu, Naohiro Aoki, Ken Ishimaru, Kazuhiro Ujiie, Yasuhiro Usui, Hirofumi Nakamura, Hidemitsu Sakai, Kentaro Hayashi, Toshihiro Hasegawa and Kiwamu Minamisawa
  • Journal Title: Frontiers in Microbiology Volume: 6 Pages: 1-8
  • DOI: 10.3389/fmicb.2015.00136
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Metagenomic Analysis of the Bacterial Community Associated with the Taproot of Sugar Beet (2015)
  • Author(s): Hirohito Tsurumaru, Takashi Okubo, Kazuyuki Okazaki, Megumi Hashimoto, Kaori Kakizaki, Eiko Hanzawa, Hiroyuki Takahashi, Noriyuki Asanome, Fukuyo Tanaka, Yasuyo Sekiyama, Seishi Ikeda, and Kimwamu Minamisawa
  • Journal Title: Microbes and Environments Volume: 30 Issue: 1 Pages: 63-69
  • DOI: 10.1264/jsme2.ME14109
  • NAID: 130005061718
  • ISSN: 1342-6311, 1347-4405
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Characterization of Leaf Blade- and Leaf Sheath-Associated Bacterial Communities and Assessment of Their Responses to Environmental Changes in CO₂, Temperature, and Nitrogen Levels under Field Conditions (2015)
  • Author(s): Seishi Ikeda, Takeshi Tokida, Hirofumi Nakamura, Hidemitsu Sakai, Yasuhiro Usui, Takashi Okubo, Kanako Tago, Kentaro Hayashi, Yasuyo Sekiyama, Hiroshi Ono, Satoru Tomita, Masahito Hayatsu, Toshihiro Hasegawa, and Kiwamu Minamisawa
  • Journal Title: Microbes and Environments Volume: 30 Issue: 1 Pages: 51-62
  • DOI: 10.1264/jsme2.ME14117
  • NAID: 130005061713
  • ISSN: 1342-6311, 1347-4405
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Low Nitrogen Fertilization Adapts Rice Root Microbiome to Low Nutrient Environment by Changing Biogeochemical Functions (2014)
  • Author(s): Seishi Ikeda, Kazuhiro Sasaki, Takashi Okubo, Akifumu Yamashita, Kimihiro Terasawa, Zhihua Bao, Dongyan Liu, Takeshi Watanabe, Jun Murase, Susumu Asakawa, Shima Eda, Hisayuki Mitsui, Tadashi Sato, and Kiwamu Minamisawa
  • Journal Title: Microbes and Environments Volume: 29 Issue: 1 Pages: 50-59
  • DOI: 10.1264/jsme2.ME13110
  • NAID: 130003390907
  • ISSN: 1342-6311, 1347-4405
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] An Assessment of the Diversity of Culturable Bacteria from Main Root of Sugar Beet (2014)
  • Author(s): Kazuyuki Okazaki, Takao Iino, Yosuke Kuroda, Kazunori Taguchi, Hiroyuki Takahashi, Takuji Ohwada, Hiroto Tsurumaru, Takashi Okubo, Kiwamu Minamisawa, and Seishi Ikeda
  • Journal Title: Microbes and Environments Volume: 29 Issue: 2 Pages: 220-223
  • DOI: 10.1264/jsme2.ME13182
  • NAID: 130004057181
  • ISSN: 1342-6311, 1347-4405
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] Phylogeny and Functions of Bacterial Communities Associated with Field-Grown Rice Shoots (2014)
  • Author(s): Takashi Okubo, Seishi Ikeda, Kazuhiro Sasaki, Kenshiro Ohshima, Masahira Hattori, Tadashi Sato, and
  • Journal Title: Microbes and Environments Volume: 29 Issue: 3 Pages: 329-332
  • DOI: 10.1264/jsme2.ME14077
  • NAID: 130004677526
  • ISSN: 1342-6311, 1347-4405
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] An Assessment of Urea-Formaldehyde Fertilizer on the Diversity of Bacterial Communities in Onion and Sugar Beet (2014)
  • Author(s): Seishi Ikeda, Keijiro Suzuki, Makoto Kawahara, Masao Noshiro, and Naokazu Takahashi
  • Journal Title: Microbes and Environments Volume: 29 Issue: 2 Pages: 231-234
  • DOI: 10.1264/jsme2.ME13157
  • NAID: 130004057177
  • ISSN: 1342-6311, 1347-4405
  • Peer Reviewed / Open Access / Acknowledgement Compliant
• [Journal Article] 植物共生科学の新展開と農学研究におけるパラダイムシフト (2013)
  • Author(s): 池田成志、鶴丸博人、大久保卓、岡崎和之、南澤究、
  • Journal Title: 化学と生物 Volume: 7 Pages: 462-470
  • NAID: 10031184722
  • Peer Reviewed
• [Journal Article] Molecular Characterization of the Bacterial Community in a Potato Phytosphere (2013)
  • Author(s): Someya, N., Y.O. Kobayashi, S. Tsuda and S. Ikeda
  • Journal Title: Microbes and Environments Volume: 28 Issue: 3 Pages: 295-305
  • DOI: 10.1264/jsme2.ME13006
  • NAID: 10031191412
  • ISSN: 1342-6311, 1347-4405
  • Peer Reviewed
• [Journal Article] 植物生育促進細菌の研究動向 (2013)
  • Author(s): 鶴丸博人、橋本萌、池田成志、南澤究
  • Journal Title: 日本土壌肥料学雑誌 Volume: 84 Pages: 418-423
  • NAID: 110009766666
  • Peer Reviewed
• [Journal Article] 環境微生物研究とリスク管理 (2013)
  • Author(s): 池田成志
  • Journal Title: 日本微生物生態学会誌 Volume: 28 Pages: 75-76
• [Journal Article] 植物共生微生物と「土づくり」 (2013)
  • Author(s): 池田 成志
  • Journal Title: あぐりぽーと Volume: 101 Pages: 6-6
• [Journal Article] 生産現場で働く微生物資材・連載３・植物共生微生物と農業・その２ (2012)
  • Author(s): 池田 成志
  • Journal Title: ニューカントリー Volume: 7 Pages: 50-52
• [Journal Article] 生産現場で働く微生物資材・連載３・植物共生微生物と農業・その１ (2012)
  • Author(s): 池田 成志
  • Journal Title: ニューカントリー Volume: 6 Pages: 52-53
• [Journal Article] Pyrosequence Read Length of 16S rRNA Gene Affects Phylogenetic Assignment of Plant-associated Bacteria (2012)
  • Author(s): 大久保 卓
  • Journal Title: Microbes and Environments Volume: 27 Issue: 2 Pages: 204-208
  • DOI: 10.1264/jsme2.ME11258
  • NAID: 10030432208
  • ISSN: 1342-6311, 1347-4405
  • Peer Reviewed
• [Journal Article] Nitrogen Cycling in Rice Paddy Environments: Past Achievements and Future Challenges (2011)
  • Author(s): Ishii, S.
  • Journal Title: Microbes and Environments Volume: 26 Issue: 4 Pages: 282-292
  • DOI: 10.1264/jsme2.ME11293
  • NAID: 10029977814
  • ISSN: 1342-6311, 1347-4405
  • Peer Reviewed
• [Journal Article] The Genotype of the Calcium/Calmodulin-Dependent Protein Kinase Gene (CCaMK) Determines Bacterial Community Diversity in Rice Roots under Paddy and Upland Field Conditions (2011)
  • Author(s): Ikeda, S.
  • Journal Title: Applied Environmental Microbiology Volume: 77 Issue: 13 Pages: 4399-4405
  • DOI: 10.1128/aem.00315-11
  • Peer Reviewed
• [Journal Article] Isolation and Genetic Characterization of Aurantimonas and Methylobacterium Strains from Stems of Hypernodulated Soybeans (2011)
  • Author(s): Anda, M.
  • Journal Title: Microbes and Environments Volume: 26 Issue: 2 Pages: 172-180
  • DOI: 10.1264/jsme2.ME10203
  • NAID: 10029123041
  • ISSN: 1342-6311, 1347-4405
  • Peer Reviewed
• [Journal Article] Autoregulation of nodulation interferes with impacts of nitrogen fertilization levels on the leaf-associated bacterial community in soybeans (2011)
  • Author(s): Ikeda, S.
  • Journal Title: Applied Environmental Microbiology Volume: 77 Issue: 6 Pages: 1973-1980
  • DOI: 10.1128/aem.02567-10
  • Peer Reviewed
• [Journal Article] A rapid and simple PCR method for identifying isolates of the genus Azospirillum within populations of rhizosphere bacteria (2011)
  • Author(s): Shime, A.
  • Journal Title: Journal of Applied Microbiology Volume: 111 Pages: 915-924
  • Peer Reviewed
• [Journal Article] Autoregulation of Nodulation Interferes with Impacts of Nitrogen Fertilization Levels on the Leaf-Associated Bacterial Community in Soybeans (2011)
  • Author(s): Ikeda, et al.
  • Journal Title: Ikeda, S., M.Anda, S.Inaba, S.Eda, S.Sato, K.Sasaki, S.Tabata, H.Mitsui, T.Sato, T.Shinano, K.Minamisawa Volume: 77 Pages: 1973-1980
  • Peer Reviewed
• [Journal Article] Community- and Genome-Based Views of Plant-Associated Bacteria : Plant-Bacterial Interactions in Soybean and Rice (2010)
  • Author(s): Ikeda, S., T.Okubo, M.Anda, H.Nakashita, M.Yasuda, S.Sato, T.Kaneko, S.Tabata, S.Eda, A.Momiyama, K.Terasawa, H.Mitsui, K.Minamisawa
  • Journal Title: Plant and Cell Physiology Volume: 51 Pages: 1398-1410
  • NAID: 10027351961
  • Peer Reviewed
• [Presentation] 根粒根圏土壌微生物相の群集構造解析によるマメ科作物の連作障害の発生機構の解明 (2014)
  • Author(s): 池田成志、臼木一英、南澤 究
  • Organizer: 日本土壌肥料学会北海道支部会
  • Place of Presentation: 札幌市
  • Year and Date: 2014-12-03
• [Presentation] 植物共生科学の新展開と農学研究のパラダイムシフト (2014)
  • Author(s): 池田成志、南澤究
  • Organizer: 日本生物工学会
  • Place of Presentation: 札幌市
  • Year and Date: 2014-09-09
  • Invited
• [Presentation] Molecular community analysis for unraveling plant-microbes interactions in arable land (2014)
  • Author(s): Seishi Ikeda and Kiwamu Minamisawa
  • Organizer: the 6th East Asian Federation of Ecological Societies International Congress
  • Place of Presentation: Haikou, China
  • Year and Date: 2014-04-11
  • Invited
• [Presentation] ジャガイモそうか病に対する抵抗性レベルの異なるジャガイモ8品種間における根および塊茎関連細菌群集の構造比較 (2012)
  • Author(s): 小林晃
  • Organizer: 日本植物病理学会大会
  • Place of Presentation: 福岡国際会議場
  • Year and Date: 2012-03-30
• [Presentation] 植物共生微生物と農業 (2012)
  • Author(s): 池田成志
  • Organizer: 農の周辺講座、有機実業、大牧牧場、共催
  • Place of Presentation: とかちプラザ(招待講演)
  • Year and Date: 2012-03-02
• [Presentation] 植物共生科学の新展開と農業再考 (2012)
  • Author(s): 池田成志
  • Organizer: 茨城大学推進研究プロジェクト公開シンポジウム
  • Place of Presentation: 茨城大学(招待講演)
  • Year and Date: 2012-02-11
• [Presentation] 植物共生科学の新展開と農業への応用について (2012)
  • Author(s): 池田 成志
  • Organizer: 平成24年度日本微生物生態学会大会
  • Place of Presentation: 豊橋科学技術大学
• [Presentation] 植物共生微生物相の解析による有機栽培作物の特性評価の試み (2011)
  • Author(s): 池田成志
  • Organizer: 日本有機農業学会
  • Place of Presentation: 北海道大学
  • Year and Date: 2011-12-11
• [Presentation] 緩効性肥料が植物共生微生物相に及ぼす影響 (2011)
  • Author(s): 池田成志
  • Organizer: 日本土壌肥料学会北海道支部秋季大会
  • Place of Presentation: 北海道大学
  • Year and Date: 2011-12-01
• [Presentation] 植物共生微生物と農業 (2011)
  • Author(s): 池田成志
  • Organizer: 北農会第2回シンポジウム
  • Place of Presentation: 北農健保会館(招待講演)
  • Year and Date: 2011-11-29
• [Presentation] ジャガイモから分離した蛍光性シュードモナス菌株の多様性 (2011)
  • Author(s): 染谷信孝
  • Organizer: 日本土壌微生物学会
  • Place of Presentation: 鳴子公民館
  • Year and Date: 2011-11-26
• [Presentation] 有機栽培ジャガイモの根系に共生する細菌群集の構造解析 (2011)
  • Author(s): 池田成志
  • Organizer: 日本土壌微生物学会大会
  • Place of Presentation: 鳴子公民館
  • Year and Date: 2011-11-25
• [Presentation] A rapid and simple PCR method to identify isolates belonging to the Genus Azospirillum (2011)
  • Author(s): 小林創平
  • Organizer: 10th international conference of the east and southeast Asiafederation of soil science societies
  • Place of Presentation: Cinnamon Lakeside, Colombo, Sri Lanka
  • Year and Date: 2011-10-11
• [Presentation] 非培養法および培養によるジャガイモ共生細菌の多様性比較 (2011)
  • Author(s): 染谷信孝
  • Organizer: 日本微生物生態学会大会
  • Place of Presentation: 京都大学
  • Year and Date: 2011-10-09
• [Presentation] Taxonomic and ecological evaluation of actinomycetes isolated in Vietnam (2011)
  • Author(s): 崎山弥生
  • Organizer: International Union of Microbiological Societies 2011 Congress
  • Place of Presentation: 札幌コンベンションセンター
  • Year and Date: 2011-09-08
• [Presentation] A rapid and simple PCR-based detection method targeting the genus Azospirillum (2011)
  • Author(s): Shime, A.
  • Organizer: International Union of Microbiological Societies 2011 Congress
  • Place of Presentation: 札幌コンベンションセンター
  • Year and Date: 2011-09-07
• [Presentation] Comparison of root- and tuber-associated bacterial communities between common scab-resistant and -susceptible barieties of potato (2011)
  • Author(s): 小林有紀
  • Organizer: International Union of Microbiological Societies 2011 Congress
  • Place of Presentation: 札幌コンベンションセンター
  • Year and Date: 2011-09-07
• [Presentation] Genetic diversity of fluorescent pseudomonads in the phyllosphere and rhizosphere of potato plants in Japan (2011)
  • Author(s): 染谷信孝
  • Organizer: International Union of Microbiological Societies 2011 Congress
  • Place of Presentation: 札幌コンベンションセンター
  • Year and Date: 2011-09-07
• [Presentation] Molecular diversity of potato-associated bacteria (2011)
  • Author(s): 染谷信孝
  • Organizer: International Union of Microbiological Societies 2011 Congress
  • Place of Presentation: 札幌コンベンションセンター
  • Year and Date: 2011-09-07
• [Presentation] 植物共生科学の新展開と肥培管理の再考 (2011)
  • Author(s): 池田成志
  • Organizer: 平成23年度第60回北海道高等学校農業教育研究大会/第15回全国高等学校農業協会北海道支部大会・分科会
  • Place of Presentation: とかちプラザ
  • Year and Date: 2011-07-26
• [Presentation] 植物共生科学の新展開と肥培管理の再考 (2011)
  • Author(s): 池田成志
  • Organizer: NPO法人有機農業技術会議・第4回有機農業技術原論研究会
  • Place of Presentation: アジア太平洋資料センター(招待講演)
  • Year and Date: 2011-06-19
• [Presentation] OsCCaMKは水稲根と陸稲根の細菌群集構造を変化させる (2011)
  • Author(s): 南澤究
  • Organizer: 植物微生物研究会第21回研究交流会
  • Place of Presentation: 岡山大学創立50周年記念館(岡山)
• [Book] 改訂新編土壌微生物実験法（13－4 RISA） (2013)
  • Author(s): 池田成志（分担）
  • Publisher: 養賢堂
• [Patent(Industrial Property Rights)] 植物の生育促進剤 (2013)
  • Inventor(s): 岡崎和之、池田成志、他8名
  • Industrial Property Rights Holder: 農業・食品産業技術総合研究機構
  • Industrial Property Rights Type: 特許
  • Industrial Property Number: 2013-146402
  • Filing Date: 2013-07-12