Development of evaluation technique for soil quality using ITS-DNA microarray of indicator microorganisms.

2013 Fiscal Year Final Research Report

• Project/Area Number: 23710091
• Research Category: Grant-in-Aid for Young Scientists (B)
• Allocation Type: Multi-year Fund
• Research Field: Environmental technology/Environmental materials
• Research Institution: Toyohashi University of Technology
• Principal Investigator: OKAMURA KEIKO 豊橋技術科学大学, エレクトロニクス先端融合研究所, 研究員 (10570533)
• Project Period (FY): 2011 – 2012
• Keywords: 強酸性茶園土壌 / AOA / AOB / amoA遺伝子 / PNR / 定量PCR / T-RFLP解析 / クローンライブラリー解析

Research Abstract

Ammonia oxidation is the important step of nitrification and is performed by both ammonia-oxidizing archaea (AOA) and bacteria (AOB). In tea orchard soil, we must employ available means to inhibition incomplete nitrification by ammonia oxidizing microorganisms and to prevent denitrification by ammonia oxidizing bacteria. The aim of this study is to reveal activity and diversity of AOA and AOB in acidic tea orchard soil to develop agricultural management technologies.
Archaeal amoA genes are more abundant than bacterial amoA genes in soil samples, and qPCR suggested that ammonia oxidization is driven by AOA in acidic tea orchard soil. The result of the phylogenetic analyses showed that all clones in clone libraries for tea orchard soils can distinguished from those for unplanted soil. These results suggest the specific AOA populations dominate as ammonia oxidizers in acidic soils, particularly acidic tea orchard soils, as a result of the adaptation to specific ecological niches.

Research Products

• [Journal Article] Defensive bacteriome symbiont with a drastically reduced genome (2013)
  • Author(s): Nakabachi, A., Ueoka, R., Oshima, K., Teta, R., Mangoni, A., Gurgui, M., Oldham, N.J., van Echten-Deckert, G., Okamura, K., Yamamoto, K., Inoue, H., Ohkuma, M., Hongoh, Y., Miyagishima, S.Y., Hattori, M., Piel, J., Fukatsu, T.
  • Journal Title: Curr. Biol. Volume: 23 Pages: 1478-1484
  • DOI: 10.1016/j.cub.2013.06.027
• [Journal Article] Community structure and population dynamics of ammonia oxidizers in composting processes of ammonia-rich livestock waste (2013)
  • Author(s): Yamada, T., Araki, S., Ikeda-Ohtsubo, W., Okamura, K., Hiraishi, A., Ueda, H., Ueda, Y., Miyauchi, K., Endo, G.
  • Journal Title: Syst Appl Microbiol. Volume: 36(5) Pages: 359-67
  • DOI: 10.1016/j.syapm.2013.02.001
• [Journal Article] Relationships between 16S-23S rRNA gene internal transcribed spacer DNA and genomic DNA similarities in the taxonomy of phototrophic bacteria (2013)
  • Author(s): Okamura, K., Hisada, T., Takata, K., and Hiraishi, A.
  • Journal Title: Journal of Physics : Conference Series Volume: 433 Pages: 012037
  • DOI: 10.1088/1742-6596
  • Peer Reviewed
• [Journal Article] Carotenoids in Rhodoplanes species : variation of compositions and substrate specificity of predicted carotenogenesis enzymes (2012)
  • Author(s): Takaichi, S., Sasikala, C., Ramana, C.V., Okamura, K., and Hiraishi A.
  • Journal Title: Curr. Microbiol. Volume: 65(2) Pages: 150-155
  • DOI: 10.1007/s00284-012-0139-y
  • Peer Reviewed
• [Journal Article] Ammonia-oxidizing activity and microbial community structure in acid tea (Camellia sinensis) orchard soil (2012)
  • Author(s): Okamura, K., Takanashi, A., Yamada, T., and Hiraishi, A.
  • Journal Title: Journal of Physics : Conference Series Volume: 352 Pages: 012052
  • DOI: 10.1088/17426596
  • Peer Reviewed
• [Presentation] Comparison of hybridization analyses of 16S-23S rRNA gene internal transcribed spacer DNA and of genomic DNA in phototrophic genera (2012)
  • Author(s): K. Okamura et al.
  • Organizer: The Irago Conference 2012
  • Place of Presentation: Irago Sea-Park & Spa
  • Year and Date: 20121115-16
• [Presentation] Diversity analysis of ammonia-oxidizing archaea and bacteria in acidic tea orchard soil (2012)
  • Author(s): A. Takanashi et al.
  • Organizer: The Irago Conference 2012
  • Place of Presentation: Irago Sea-Park & Spa
  • Year and Date: 20121115-16
• [Presentation] Analysis of ammonia-oxidizing microorganisms in acid tea orchard soil in terms of quantity, quality, and activity (2012)
  • Author(s): A. Takanashi et al.
  • Organizer: 第28回日本微生物生態学会大会
  • Place of Presentation: 豊橋技術科学大学
  • Year and Date: 20120919-22
• [Presentation] 酸性茶園土壌におけるアンモニア酸化微生物の活性と多様性 (2012)
  • Author(s): 高梨藍生
  • Organizer: 環境バイオテクノロジー学会、2012年度大会
  • Place of Presentation: 京都大学宇治キャンパス宇治おうばくプラザ
  • Year and Date: 20120625-26
• [Presentation] 強酸性茶園土壌におけるアンモニア酸化活性とアンモニア酸化微生物の群集構造解析 (2012)
  • Author(s): 高梨藍生
  • Organizer: 日本農芸化学会2012年度大会
  • Place of Presentation: 京都女子大学
  • Year and Date: 20120322-26
• [Presentation] Ammonia-oxidizing activity and community structure in hyper-acidic tea (Camellia sinensis) orchard soil (2011)
  • Author(s): K. Okamura et al.
  • Organizer: The Asia-Pacific Interdisciplinary Research Conference 2011
  • Place of Presentation: Toyohashi Univ. Technol.
  • Year and Date: 20111117-18