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Effect of Paddy-Upland Rotation on Methanogenic Archaeal Community Structure in Paddy Field Soil

  • Soil Microbiology
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Abstract

Methanogenic archaea are strict anaerobes and demand highly reduced conditions to produce methane in paddy field soil. However, methanogenic archaea survive well under upland and aerated conditions in paddy fields and exhibit stable community. In the present study, methanogenic archaeal community was investigated in fields where paddy rice (Oryza sativa L.) under flooded conditions was rotated with soybean (Glycine max [L.] Merr.) under upland conditions at different rotation histories, by polymerase chain reaction (PCR)-denaturing gradient gel electrophoresis (DGGE) and real-time quantitative PCR methods targeting 16S rRNA and mcrA genes, respectively. Soil samples collected from the fields before flooding or seeding, during crop cultivation and after harvest of crops were analyzed. The abundance of the methanogenic archaeal populations decreased to about one-tenth in the rotational plots than in the consecutive paddy (control) plots. The composition of the methanogenic archaeal community also changed. Most members of the methanogenic archaea consisting of the orders Methanosarcinales, Methanocellales, Methanomicrobiales, and Methanobacteriales existed autochthonously in both the control and rotational plots, while some were strongly affected in the rotational plots, with fatal effect to some members belonging to the Methanosarcinales. This study revealed that the upland conversion for one or longer than 1 year in the rotational system affected the methanogenic archaeal community structure and was fatal to some members of methanogenic archaea in paddy field soil.

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Acknowledgments

This study was supported in part by a Grant-in-Aid (Soil eDNA) from the Ministry of Agriculture, Forestry and Fisheries of Japan.

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Authors and Affiliations

  1. Soil Biology and Chemistry, Graduate School of Bioagricultural Sciences, Nagoya University, Chikusa, Nagoya, Aichi, 464-8601, Japan

    Dongyan Liu, Hiroki Ishikawa, Makoto Kimura & Susumu Asakawa

  2. NARO Tohoku Agricultural Research Center, Daisen, Akita, 014-0120, Japan

    Mizuhiko Nishida, Kazunari Tsuchiya & Tomoki Takahashi

Authors
  1. Dongyan Liu
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  2. Hiroki Ishikawa
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  3. Mizuhiko Nishida
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  4. Kazunari Tsuchiya
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  5. Tomoki Takahashi
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  6. Makoto Kimura
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  7. Susumu Asakawa
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Corresponding author

Correspondence to Dongyan Liu.

Additional information

Accession number: The Genbank/EMBL/DDBJ accession numbers for the 16S rRNA gene sequences of methanogenic archaea are AB 915261-AB 915320.

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Liu, D., Ishikawa, H., Nishida, M. et al. Effect of Paddy-Upland Rotation on Methanogenic Archaeal Community Structure in Paddy Field Soil. Microb Ecol 69, 160–168 (2015). https://doi.org/10.1007/s00248-014-0477-3

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  • DOI: https://doi.org/10.1007/s00248-014-0477-3

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