Community structure of methanogenic archaea in paddy field soil under double cropping (rice–wheat)

Watanabe, Takeshi; Kimura, Makoto; Asakawa, Susumu

doi:10.1016/j.soilbio.2005.09.020

Cited by 120 publications

(123 citation statements)

References 38 publications

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“…6). This stability of methanogen populations has also been observed previously (19,27,46). In the drainage treatment, however, the growth of methanogenic populations, as revealed by mcrA gene abundance, was suppressed in four soil compartments during the second dry/wet cycle.…”

Section: Discussionsupporting

confidence: 85%

“…In addition, O 2 stress could also repress the mcrA transcription, although it recovered to some extent after reflooding (52). Alternate dry/wet cycles did not influence the structure of the methanogenic community, a finding consistent with several earlier studies demonstrating the stable structure of methanogenic archaea in rice field soil under different conditions (17,27,46,51). A recent study using the traditional culture method also showed no effects of water management on the methanogenic community (14).…”

Section: Discussionsupporting

confidence: 84%

“…In a Japanese rice field study, it was found that the structure of methanogenic archaea remained surprisingly stable under drainage conditions, even in the dry seasons when no methane was produced (46,48). A stable structure of the methanogenic community was also revealed in our previous study on a typical Chinese rice field soil under drainage conditions (27).…”

supporting

confidence: 51%

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Responses of MethanogenmcrAGenes and Their Transcripts to an Alternate Dry/Wet Cycle of Paddy Field Soil

Conrad

2012

Appl Environ Microbiol

145

105

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Intermittent drainage can substantially reduce methane emission from rice fields, but the microbial mechanisms remain poorly understood. In the present study, we determined the rates of methane production and emission, the dynamics of ferric iron and sulfate, and the abundance of methanogen mcrA genes (encoding the alpha subunit of methyl coenzyme M reductase) and their transcripts in response to alternate dry/wet cycles in paddy field soil. We found that intermittent drainage did not affect the growth of rice plants but significantly reduced the rates of both methane production and emission. The dry/wet cycles also resulted in shifts of soil redox conditions, increasing the concentrations of ferric iron and sulfate in the soil. Quantitative PCR analysis revealed that both mcrA gene copies and mcrA transcripts significantly decreased after dry/wet alternation compared to continuous flooding. Correlation and regression analyses showed that the abundance of mcrA genes and transcripts positively correlated with methane production potential and soil water content and negatively correlated with the concentrations of ferric iron and sulfate in the soil. However, the transcription of mcrA genes was reduced to a greater extent than the abundance of mcrA genes, resulting in very low mcrA transcript/gene ratios after intermittent drainage. Furthermore, terminal restriction fragment length polymorphism analysis revealed that the composition of methanogenic community remained stable under dry/ wet cycles, whereas that of metabolically active methanogens strongly changed. Collectively, our study demonstrated a stronger effect of intermittent drainage on the abundance of mcrA transcripts than of mcrA genes in rice field soil.

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Section: Discussionsupporting

confidence: 85%

Section: Discussionsupporting

confidence: 84%

supporting

confidence: 51%

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Responses of MethanogenmcrAGenes and Their Transcripts to an Alternate Dry/Wet Cycle of Paddy Field Soil

Conrad

2012

Appl Environ Microbiol

145

105

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“…The spike addition of additional acetate (Fig 5B, day 15 Although methanogens have been found in various environments such as human dental plaque (Kulik et al, 2001), and rice paddy (Watanabe et al, 2006), the current study shows the first evidence of the systematic presence of thermophilic methanogens in grass lawn. To explain this finding, further study is required addressing questions such as below:…”

Section: Comparison Of Methane Production Of Turf Grass Samples From mentioning

confidence: 58%

Rapid start-up of thermophilic anaerobic digestion with the turf fraction of MSW as inoculum

Suwannoppadol

Cord‐Ruwisch

2011

Bioresource Technology

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This is a PDF file of an unedited manuscript that has been accepted for publication. As a service to our customers we are providing this early version of the manuscript. The manuscript will undergo copyediting, typesetting, and review of the resulting proof before it is published in its final form. Please note that during the production process errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain. Stirring of the culture was not conducive for successful start-up as it resulted specifically in propionate accumulation.

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“…Real-time PCR was carried out to quantify the methanogenic archaea 16S rRNA genes in soil samples using LightCycler ST300, LightCycler Software Version 3.5 (Roche Diagnostics, Germany) and SYBR Premix Ex Taq (TaKaRa, Japan). The primer pair 1106F (forward) and 1378R (reverse) was used for PCR amplification targeting the 16S rRNA gene of methanogenic archaea (Watanabe et al, 2006(Watanabe et al, , 2009. Each reaction mixture (25 µl) consisted of 12.5 µl 1×SYBR Premix Ex Taq, 0.25 µl of each primer, 1 µl of DNA template diluted 20 times, and sterilize distilled water.…”

Section: Dna Extraction and Real-time Pcrmentioning

confidence: 99%

Relation between methanogenic archaea and methane production potential in selected natural wetland ecosystems across China

et al. 2011

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Abstract. Methane (CH 4 ) emissions from natural wetland ecosystems exhibit large spatial variability at regional, national, and global levels related to temperature, water table, plant type and methanogenic archaea etc. To understand the underlying factors that induce spatial differences in CH 4 emissions, and the relationship between the population of methanogenic archaea and CH 4 production potential in natural wetlands around China, we measured the CH 4 production potential and the abundance of methanogenic archaea in vertical soil profiles sampled from the Poyang wetland in the subtropical zone, the Hongze wetland in the warm temperate zone, the Sanjiang marsh in the cold temperate zone, and the Ruoergai peatland in the Qinghai-Tibetan Plateau in the alpine climate zone. The top soil layer had the highest population of methanogens (1.07-8.29×10 9 cells g −1 soil) in all wetlands except the Ruoergai peatland and exhibited the maximum CH 4 production potential measured at the mean in situ summer temperature. There is a significant logarithmic correlation between the abundance of methanogenic archaea and the soil organic carbon (R 2 = 0.72, P < 0.001, n = 13) and between the abundance of methanogenic archaea and the total nitrogen concentrations (R 2 = 0.76, P < 0.001, n = 13) in wetland soils. This indicates that the amount of soil organic carbon may affect the population of methanogens in wetland ecosystems. While the CH 4 production potential is not significantly related to methanogen population (R 2 = 0.01, P > 0.05, n = 13), it is related to the dissolved organic carbon concentration (R 2 = 0.31, P = 0.05, n = 13). This suggests that the methanogen population might be not an effective index for predicting the CH 4 production in wetland ecosystems. The CH 4 production rate of the top soil layer increases with increasing latitude, from 273.64 µg CH 4 kg −1 soil d −1 in the Poyang wetland toCorrespondence to: W. X. Ding (wxding@mail.issas.ac.cn) 664.59 µg CH 4 kg −1 soil d −1 in the Carex lasiocarpa marsh of the Sanjiang Plain. We conclude that CH 4 production potential in the freshwater wetlands of Eastern China is mainly affected by the supply of methanogenic substrates rather than temperature; in contrast, low summer temperatures at high elevations in the Ruoergai peatland of the QinghaiTibetan Plateau result in the presence of dominant species of methanogens with low CH 4 production potential, which in turn suppresses CH 4 production.

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Community structure of methanogenic archaea in paddy field soil under double cropping (rice–wheat)

Cited by 120 publications

References 38 publications

Responses of MethanogenmcrAGenes and Their Transcripts to an Alternate Dry/Wet Cycle of Paddy Field Soil

Responses of MethanogenmcrAGenes and Their Transcripts to an Alternate Dry/Wet Cycle of Paddy Field Soil

Rapid start-up of thermophilic anaerobic digestion with the turf fraction of MSW as inoculum

Relation between methanogenic archaea and methane production potential in selected natural wetland ecosystems across China

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