Overwintering management on upland pasture causes shifts in an abundance of denitrifying microbial communities, their activity and N2O-reducing ability

Chroňáková, Alica; Radl, Viviane; Čuhel, Jiří; Šimek, Miloslav; Elhottová, Dana; Engel, Marion; Schloter, Michael

doi:10.1016/j.soilbio.2009.02.019

Cited by 56 publications

(28 citation statements)

References 35 publications

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“…1) since the overwintering management had begun (season 1994/1995). The found differences in microbial community composition in pasture soils under different degree of cattle impact are in accordance to results of previous studies of the same site; Radl et al (2007) and Chroňáková et al (2009) documented shifts at the level of methanogens and denitrifiers, respectively, evidencing the influence of cattle outdoor husbandry on the activity and abundance of both studied microbial guilds. Moreover, the introduction of strictly anaerobic rumen-born methanogens into pasture soil has been documented by Radl et al (2007), indicating that rumen associated microflora (archaea, bacteria and fungi) can contribute to the community composition of severely impacted soil.…”

Section: Resultssupporting

confidence: 91%

“…The increase of microbial biomass with increasing degree of animal impact from section NI to SI was in accordance to the soil properties of the different sections showing increasing levels of organic C (C org ), total N (N tot ), moisture, nitrate (NO 3 -), ammonium (NH 4 ? ), as well as abundance of archaea, methanogens (Radl et al 2007), and denitrifiers (Chroňáková et al 2009). Contrastingly, the increasing levels of nutrients along the gradient resulted in the suppression of arbuscular mycorrhizae at SI and MI sections (Jirout et al 2009).…”

Section: Resultsmentioning

confidence: 99%

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Evaluation of the denaturing gradient gel electrophoresis-apparatus as a parameter influencing soil microbial community fingerprinting

Ascher

Ceccherini

Chroňáková

et al. 2010

World J Microbiol Biotechnol

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We compared two denaturing gradient gel electrophoresis (DGGE) systems-DCode (Biorad, Hercules, CA, USA) and PhorU (Ingeny, Leiden, NL), performing community level 16S and 18S rRNA gene fragment-PCR-DGGE with total DNA extracted from upland pasture soil used for outdoor cattle husbandry. The methodological evaluation of the DGGE apparatus as parameter influencing DGGE fingerprinting, based on cluster analysis of soil bacterial and fungal community fingerprints, was made in terms of the resulting information about microbial community structures and their response to different degrees of cattle impact. Although the comparative DGGE analysis with different DGGE systems provided similar clustering of microbial community structures in correlation with the degree of cattle impact, our results suggest the DGGE system to be a factor influencing DGGE analysis. To our knowledge this is the first attempt to investigate the hypothetical impact of the DGGE system due to different technical characteristics, recommending the use of one and the same DGGE apparatus throughout an experiment, if the monitoring of microbial community structures requires multiple gel-to-gel analysis.

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Section: Resultssupporting

confidence: 91%

Section: Resultsmentioning

confidence: 99%

Evaluation of the denaturing gradient gel electrophoresis-apparatus as a parameter influencing soil microbial community fingerprinting

Ascher

Ceccherini

Chroňáková

et al. 2010

World J Microbiol Biotechnol

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“…This result was higher than those of previously reported: nosZ density of 3×10 6 -2.8×10 8 copies g −1 dry soil (Kandeler et al 2006;Dandie et al 2008;Hallin et al 2009). But Chronakova et al (2009) found the nosZ gene copy number was in a range of 9.1×10 7 -7.5×10 9 copies g −1 soil in an upland pasture soil. Henry et al (2006) found there was no significant difference between the abundances of nosZ and nirK in an agricultural soil of France.…”

Section: Abundances Of Nirs Nirk and Nosz Genes Under Different Irrmentioning

confidence: 95%

Response of denitrification genes nirS, nirK, and nosZ to irrigation water quality in a Chinese agricultural soil

Zhou

Zheng

Shen

et al. 2011

Environ Sci Pollut Res

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Purpose Denitrification is an important biochemical process in global nitrogen cycle, with a potent greenhouse gas product N 2 O. Wastewater irrigation can result in the changes of soil properties and microbial communities of agricultural soils. The purpose of this study was to examine how the soil denitrification genes responded to different irrigation regimes. Materials and methods Soil samples were collected from three rural districts of Beijing (China) with three different irrigation regimes: clean groundwater (CW), reclaimed water (RW), and wastewater (WW). The abundance and diversity of three denitrification microbial genes (nirS, nirK, and nosZ) were examined by real-time polymerase chain reaction (PCR) and denaturing gradient gel electrophoresis (DGGE) molecular approaches. Results and discussion The abundance of nirS in the WW treatment was higher than that in the CW treatment, and no significant difference was found between the RW and CW or WW treatments. The abundance of nirK gene of the RW and WW treatments was higher than that of the CW treatment. There was no difference for nosZ gene among the three treatments. Correspondence analysis based on the DGGE profiles showed that there was no obvious difference in the nosZ gene composition, but nirS and nirK genes changed with different irrigation regimes. Conclusions Irrigation with unclean water sources enhanced the soil NO 3 − content and changed the abundance and composition of soil denitrifiers, and different functional genes had different responses. Irrigation with unclean water sources increased the abundance of nirK gene and changed the community structures of nirS and nirK genes, while nosZ gene was relatively stable in the soil. These results could be helpful to explore the mechanisms of the variation of denitrification processes under long-term wastewater irrigation and partially explain the reason of more N 2 O output in the field with wastewater irrigation.

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“…However, it has rather been postulated for developing ecosystems that plants and microbes compete for nutrients, like N and phosphorus, as on the one hand nutrient availability is low and on the other hand plant performance and exudation is reduced (Chapin et al, 1994;Hammerli et al, 2007). Although ammonium and nitrate concentrations increased two-to sixfold from site 10a to the transient soils (50 and 70a), these values are still more than 10 times lower than values from pasture sites (Chronakova et al, 2009), confirming the assumption that strong competition for N still exists. Thus, it is likely that with the first occurrence of plant patches at site 50a, the nifH gene abundance reached its maximum even if the potential N-fixing activity was still negligible.…”

Section: Plants As Competitors For Nutrientsmentioning

confidence: 99%

Abundances and potential activities of nitrogen cycling microbial communities along a chronosequence of a glacier forefield

et al. 2010

Self Cite

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Glacier forefields are ideal ecosystems to study the development of nutrient cycles as well as single turnover processes during soil development. In this study, we examined the ecology of the microbial nitrogen (N) cycle in bulk soil samples from a chronosequence of the Damma glacier, Switzerland. Major processes of the N cycle were reconstructed on the genetic as well as the potential enzyme activity level at sites of the chronosequence that have been ice-free for 10, 50, 70, 120 and 2000 years. In our study, we focused on N fixation, mineralization (chitinolysis and proteolysis), nitrification and denitrification. Our results suggest that mineralization, mainly the decomposition of deposited organic material, was the main driver for N turnover in initial soils, that is, ice-free for 10 years. Transient soils being ice-free for 50 and 70 years were characterized by a high abundance of N fixing microorganisms. In developed soils, ice-free for 120 and 2000 years, significant rates of nitrification and denitrification were measured. Surprisingly, copy numbers of the respective functional genes encoding the corresponding enzymes were already high in the initial phase of soil development. This clearly indicates that the genetic potential is not the driver for certain functional traits in the initial phase of soil formation but rather a well-balanced expression of the respective genes coding for selected functions.

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Overwintering management on upland pasture causes shifts in an abundance of denitrifying microbial communities, their activity and N2O-reducing ability

Cited by 56 publications

References 35 publications

Evaluation of the denaturing gradient gel electrophoresis-apparatus as a parameter influencing soil microbial community fingerprinting

Evaluation of the denaturing gradient gel electrophoresis-apparatus as a parameter influencing soil microbial community fingerprinting

Response of denitrification genes nirS, nirK, and nosZ to irrigation water quality in a Chinese agricultural soil

Abundances and potential activities of nitrogen cycling microbial communities along a chronosequence of a glacier forefield

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