Kinetic model for methane oxidation by paddy soil as affected by temperature, moisture and N addition

ABSTRACTDissimilatory nitrate reduction to ammonium (DNRA), denitrification, anaerobic ammonium oxidation (anammox), and biological N2fixation (BNF) can influence the nitrogen (N) use efficiency of rice production. While the effect of N application on BNF is known, little is known about its effect on NO3−partitioning between DNRA, denitrification, and anammox. Here, we investigated the effect of N application on DNRA, denitrification, anammox, and BNF and on the abundance of relevant genes in three paddy soils in Australia. Rice was grown in a glasshouse with N fertilizer (150 kg N ha−1) and without N fertilizer for 75 days, and the rhizosphere and bulk soils were collected separately for laboratory incubation and quantitative PCR analysis. Nitrogen application reduced DNRA rates by >16% in all the soils regardless of the rhizospheric zone, but it did not affect thenrfAgene abundance. Without N, the amount and proportion of NO3−reduced by DNRA (0.42 to 0.52 μg g−1soil day−1and 45 to 55%, respectively) were similar to or higher than the amount and proportion reduced by denitrification. However, with N the amount of NO3−reduced by DNRA (0.32 to 0.40 μg g−1soil day−1) was 40 to 50% lower than the amount of NO3−reduced by denitrification. Denitrification loss increased by >20% with N addition and was affected by the rhizospheric zones. Nitrogen loss was minimal through anammox, while BNF added 0.02 to 0.25 μg N g−1soil day−1. We found that DNRA plays a significant positive role in paddy soil N retention, as it accounts for up to 55% of the total NO3−reduction, but this is reduced by N application.IMPORTANCEThis study provides evidence that nitrogen addition reduces nitrogen retention through DNRA and increases nitrogen loss via denitrification in a paddy soil ecosystem. DNRA is one of the major NO3−reduction processes, and it can outcompete denitrification in NO3−consumption when rice paddies are low in nitrogen. A significant level of DNRA activity in paddy soils indicates that DNRA plays an important role in retaining nitrogen by reducing NO3−availability for denitrification and leaching. Our study shows that by reducing N addition to rice paddies, there is a positive effect from reduced nitrogen loss but, more importantly, from the conversion of NO3−to NH4+, which is the favored form of mineral nitrogen for plant uptake.

Download Full-text

Non-linear dynamics of stable carbon and hydrogen isotope signatures based on a biological kinetic model of aerobic enzymatic methane oxidation

Isotopes in Environmental and Health Studies ◽

10.1080/10256016.2016.1092965 ◽

2015 ◽

Vol 52 (3) ◽

pp. 185-202 ◽

Cited By ~ 1

Author(s):

Vasily A. Vavilin ◽

Sergey V. Rytov ◽

Natalia Shim ◽

Carsten Vogt

Keyword(s):

Kinetic Model ◽

Methane Oxidation ◽

Hydrogen Isotope ◽

Stable Carbon ◽

Linear Dynamics ◽

Non Linear ◽

Carbon And Hydrogen Isotope

Download Full-text

Competitive interactions between methane- and ammonia-oxidizing bacteria modulate carbon and nitrogen cycling in paddy soil

Biogeosciences ◽

10.5194/bg-11-3353-2014 ◽

2014 ◽

Vol 11 (12) ◽

pp. 3353-3368 ◽

Cited By ~ 41

Author(s):

Y. Zheng ◽

R. Huang ◽

B. Z. Wang ◽

P. L. E. Bodelier ◽

Z. J. Jia

Keyword(s):

16S Rrna ◽

Nitrogen Cycling ◽

Methane Oxidation ◽

Paddy Soil ◽

16S Rrna Genes ◽

Rrna Genes ◽

Type I ◽

Ammonia Oxidizers ◽

Oxidation Activity ◽

Type Ia

Abstract. Pure culture studies have demonstrated that methanotrophs and ammonia oxidizers can both carry out the oxidation of methane and ammonia. However, the expected interactions resulting from these similarities are poorly understood, especially in complex, natural environments. Using DNA-based stable isotope probing and pyrosequencing of 16S rRNA and functional genes, we report on biogeochemical and molecular evidence for growth stimulation of methanotrophic communities by ammonium fertilization, and that methane modulates nitrogen cycling by competitive inhibition of nitrifying communities in a rice paddy soil. Pairwise comparison between microcosms amended with CH4, CH4+Urea, and Urea indicated that urea fertilization stimulated methane oxidation activity 6-fold during a 19-day incubation period, while ammonia oxidation activity was significantly suppressed in the presence of CH4. Pyrosequencing of the total 16S rRNA genes revealed that urea amendment resulted in rapid growth of Methylosarcina-like MOB, and nitrifying communities appeared to be partially inhibited by methane. High-throughput sequencing of the 13C-labeled DNA further revealed that methane amendment resulted in clear growth of Methylosarcina-related MOB while methane plus urea led to an equal increase in Methylosarcina and Methylobacter-related type Ia MOB, indicating the differential growth requirements of representatives of these genera. An increase in 13C assimilation by microorganisms related to methanol oxidizers clearly indicated carbon transfer from methane oxidation to other soil microbes, which was enhanced by urea addition. The active growth of type Ia methanotrops was significantly stimulated by urea amendment, and the pronounced growth of methanol-oxidizing bacteria occurred in CH4-treated microcosms only upon urea amendment. Methane addition partially inhibited the growth of Nitrosospira and Nitrosomonas in urea-amended microcosms, as well as growth of nitrite-oxidizing bacteria. These results suggest that type I methanotrophs can outcompete type II methane oxidizers in nitrogen-rich environments, rendering the interactions among methane and ammonia oxidizers more complicated than previously appreciated.

Download Full-text

Non-linear dynamics of carbon and hydrogen isotopic signatures based on a biological kinetic model of nitrite-dependent methane oxidation by “Candidatus Methylomirabilis oxyfera”

Antonie van Leeuwenhoek ◽

10.1007/s10482-013-0031-1 ◽

2013 ◽

Vol 104 (6) ◽

pp. 1097-1108 ◽

Cited By ~ 9

Author(s):

V. A. Vavilin ◽

S. V. Rytov

Keyword(s):

Kinetic Model ◽

Methane Oxidation ◽

Linear Dynamics ◽

Isotopic Signatures ◽

Non Linear

Download Full-text

Nitrogen Mineralization, Soil Microbial Biomass and Extracellular Enzyme Activities Regulated by Long-Term N Fertilizer Inputs: A Comparison Study from Upland and Paddy Soils in a Red Soil Region of China

Agronomy ◽

10.3390/agronomy11102057 ◽

2021 ◽

Vol 11 (10) ◽

pp. 2057

Author(s):

Sehrish Ali ◽

Kailou Liu ◽

Waqas Ahmed ◽

Huang Jing ◽

Muhammad Qaswar ◽

...

Keyword(s):

Microbial Biomass ◽

Paddy Soil ◽

Enzyme Activities ◽

Soil Microbial Biomass ◽

Inorganic Nitrogen ◽

N Addition ◽

Upland Soil ◽

Total N ◽

Soil Microbial

A long-term experiment (38 years) was conducted to elucidate the effects of long-term N addition on the net N mineralization in both paddy and upland soils, based on their initial soil N status, with and in connection with soil microbial biomass and N cycling extracellular enzyme activities. Two treatments without N addition CK (No fertilizer) and K (inorganic potassium fertilizer) and two treatments with N addition N (inorganic nitrogen fertilizer) and NK (inorganic nitrogen and potassium fertilizer) were placed in incubation for 90 days. Results showed that the total N and soil organic carbon (SOC) contents were higher in the treatments with N application compared to the treatments without N in both paddy and upland soils. The SOC content of paddy soil was increased relative to upland soil by 56.2%, 45.7%, 61.1% and 62.2% without N (CK, K) and with N (N and NK) treatments, respectively. Site-wise, total N concentration in paddy soil was higher by 0.06, 0.10, 0.57 and 0.60 times under the CK, K, N and NK treatments, respectively, compared with upland soil. In paddy soil, soil microbial biomass nitrogen (SMBN) was higher by 39.6%, 2.77%, 29.5% and 31.4%, and microbial biomass carbon (SMBC) was higher by 11.8%, 11.9%, 10.1% and 12.3%, respectively, in CK, K, N and NK treatment, compared with upland soil. Overall, compared to upland soil, the activities of leucine-aminopeptidase (LAP) were increased by 31%, 18%, 20% and 11%, and those of N-acetyl-b-D-glucosaminidase (NAG) were increased by 70%, 21%, 13% and 18% by CK, K, N and NK treatments, respectively, in paddy soil. A significantly linear increase was found in the NO3−-N and NH4+-N concentrations during the 90 days of the incubation period in both soils. NK treatment showed the highest N mineralization potential (No) along with mineralization rate constant, k (NMR) at the end of the incubation. SMBC, SMBN, enzyme activities, NO3−-N and NH4+-N concentrations and the No showed a highly significant (p ≤ 0.05) positive correlation. We concluded that long-term N addition accelerated the net mineralization by increasing soil microbial activities under both soils.

Download Full-text

Discrepancy in exchangeable and soluble ammonium-induced effects on aerobic methane oxidation: a microcosm study of a paddy soil

Biology and Fertility of Soils ◽

10.1007/s00374-021-01579-9 ◽

2021 ◽

Author(s):

Hester van Dijk ◽

Thomas Kaupper ◽

Clemens Bothe ◽

Hyo Jung Lee ◽

Paul L. E. Bodelier ◽

...

Keyword(s):

Methane Oxidation ◽

Paddy Soil ◽

Ammonium Concentration ◽

Soil Slurry ◽

Soil Enrichment ◽

Microcosm Study ◽

Uptake Rates ◽

Methane Uptake ◽

Total Ammonium ◽

Dose Dependent

AbstractAmmonium-induced stimulatory, inhibitory, and/or neutral effects on soil methane oxidation have been attributable to the ammonium concentration and mineral forms, confounded by other edaphic properties (e.g., pH, salinity), as well as the site-specific composition of the methanotrophic community. We hypothesize that this inconsistency may stem from the discrepancy in the cation adsorption capacity of the soil. We postulate that the effects of ammonium on the methanotrophic activity in soil are more accurately portrayed by relating methane uptake rates to the soluble ammonium (bioavailable), rather than the exchangeable (total) ammonium. To reduce adsorption (exchangeable) sites for ammonium in a paddy soil, two successive pre-incubation steps were introduced resulting in a 1000-fold soil dilution (soil enrichment), to be compared to a soil slurry (tenfold dilution) incubation. Ammonium was supplemented as NH4Cl at 0.5–4.75gL−1 after pre-incubation. While NH4Cl significantly stimulated the methanotrophic activity at all concentrations in the soil slurry incubation, methane uptake showed a dose-dependent effect in the soil enrichment. The trend in methane uptake could be explained by the soluble ammonium concentration, which was proportionate to the supplemented ammonium in the soil enrichment. In the soil slurry incubation, a fraction (36–63%) of the supplemented ammonium was determined to be adsorbed to the soil. Accordingly, Methylosarcina was found to predominate the methanotrophic community after the incubation, suggesting the relevance of this methanotroph at elevated ammonium levels (< 3.25gL−1 NH4Cl). Collectively, our results showed that the soluble, rather than the exchangeable ammonium concentration, is relevant when determining the effects of ammonium on methane oxidation, but this does not exclude other (a)biotic factors concurrently influencing methanotrophic activity.

Download Full-text