Nitrapyrin affects the abundance of ammonia oxidizers rather than community structure in a yellow clay paddy soil

Gu, Yan; Mi, Wenhai; Xie, Yinan; Ma, Qian; Wu, Lianghuan; Hu, Zhaoping; Feng, Danni

doi:10.1007/s11368-018-2075-3

Cited by 20 publications

(13 citation statements)

References 59 publications

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“…Surprisingly, similar trends were observed for the abundance of AOB amoA gene in the rhizosphere of wheat, suggesting a weak efficiency of the nitrapyrin on its target group. Previous studies on the effect of nitrapyrin on the AOA to AOB ratio and its effect on nitrification rates have reported inconclusive results, with nitrapyrin affecting either AOA, AOB or both (21–24).…”

Section: Discussionmentioning

confidence: 96%

“…It remains unresolved whether this nitrification inhibitor (NI) leads to direct or indirect shifts in the overall soil microbial community structure and functioning. The effects of adding various NIs together with N-containing fertilizers have been shown to range from no changes in the community structure of ammonia-oxidizers and in the abundances of total bacteria (24, 65) to only minimal and transient changes on the overall microbial community structure, depending on the compartment (66). In contrast to these findings, we found here widespread effects of nitrapyrin on soil and wheat rhizosphere microbial communities across different sampling dates.…”

Section: Discussionmentioning

confidence: 99%

“…Similarly, Shen et al (2013) found a very weak inhibitory effect of nitrapyrin on the AOB, but a moderate effect on the AOA. Interestingly, the inhibition of AOA by nitrapyrin was shown to lead to a reduction in the AOA to AOB ratio in soils with low nitrogen use efficiency, which was positively correlated with potential nitrification rates (24). Overall, these studies suggest that nitrapyrin shifts the AOA to AOB ratio, thus inhibiting nitrification at different rates depending on the relative contribution of AOA and AOB to nitrification.…”

Section: Introductionmentioning

confidence: 99%

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Nitrapyrin has far reaching effects on the soil microbial community structure, composition, diversity and functions

Schmidt

Wang

Garbeva

et al. 2020

Preprint

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Nitrapyrin is one of the most common nitrification inhibitors that are used to retain N in the ammonia form in soil to improve crop yields and quality. Whereas the inhibitory effect of nitrapyrin is supposedly specific to ammonia oxidizers, in view of the keystone role of this group in soils, nitrapyrin could have far-reaching impacts. Here, we tested the hypothesis that nitrapyrin leads to large shifts in soil microbial community structure, composition, diversity and functions, beyond its effect on ammonia-oxidizers. To test this hypothesis, we set-up a field experiment where wheat (Triticum aestivum cv. AC Walton) was fertilized with ammonium nitrate (NH4NO3) and supplemented or not with nitrapyrin. Rhizosphere and bulk soils were sampled twice, DNA was extracted, the 16S rRNA gene and ITS region were amplified and sequenced to follow shifts in archaeal, bacterial and fungal community structure, composition and diversity. To assess microbial functions, several genes involved in the nitrogen cycle were quantified by real-time qPCR and volatile organic compounds (VOCs) were trapped in the rhizosphere at the moment of sampling. As expected, sampling date and plant compartment had overwhelming effects on the microbial communities. However, within these strong effects, we found statistically significant effects of nitrapyrin on the relative abundance of Thaumarchaeota, Proteobacteria, Nitrospirae and Basidiomycota, and on several genera. Nitrapyrin also significantly affected bacterial and fungal community structure, and the abundance of all the N-cycle gene tested, but always in interaction with sampling date. In contrast, nitrapyrin had no significant effect on the emission of VOCs, where only sampling date significantly influenced the profiles observed. Our results point out far-reaching effects of nitrapyrin on soil and plant associated microbial communities, well beyond its predicted direct effect on ammonia-oxidizers. In the longer term, these shifts might counteract the positive effect of nitrapyrin on crop nutrition and greenhouse gas emissions.

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Section: Discussionmentioning

confidence: 96%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Nitrapyrin has far reaching effects on the soil microbial community structure, composition, diversity and functions

Schmidt

Wang

Garbeva

et al. 2020

Preprint

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“…The obtained effective tags were clustered into operational taxonomic units (OTUs) of ≥97% sequence similarity using UPARSE ( Edgar, 2013 ). The representative sequences classified into organisms by a naive Bayesian model using the RDP classifier (version 2.2) based on the SILVA database in the main OTUs were analyzed using BLAST with the NCBI database to obtain the most similar published sequences ( Gu et al, 2019 ). Finally, the complete dataset was deposited into the NCBI Sequence Read Archive (SRA) database under accession number SRP269446 .…”

Section: Methodsmentioning

confidence: 99%

Different Amounts of Nitrogen Fertilizer Applications Alter the Bacterial Diversity and Community Structure in the Rhizosphere Soil of Sugarcane

Wang

Cai³

et al. 2021

Front. Microbiol.

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Sugarcane cropping systems receive elevated application of nitrogen (N) fertilizer for higher production, which may affect production costs and cause environmental pollution. Therefore, it is critical to elucidate the response of soil microbial to N fertilizer inputs in sugarcane soil. A field experiment was carried out to investigate the effects of optimum (N375, 375 kg N/ha) and excessive (N563, 563 kg N/ha) amounts of N fertilizer on soil bacterial diversity and community structure in a sugarcane cropping system by MiSeq high-throughput sequencing; 50,007 operational taxonomic units (OTUs) were obtained by sequencing the 16S rRNA gene amplicons. Results showed that the most abundant phyla in the sugarcane rhizosphere soil were Proteobacteria, Actinobacteria, Acidobacteria, and Planctomycetes, whose ensemble mean accounted for 74.29%. Different amounts of N application indeed change the bacterial diversity and community structures. Excessive application of N fertilizers significantly decreased the pH and increased the available N in soils and unexpectedly obtained a lower yield. Excessive N resulted in a relatively lower bacterial species richness and significantly increased the relative abundance of phyla Proteobacteria, Acidobacteria, and Bacteroidetes and the genera Sphingomonas and Gemmatimonas, while optimum N treatment significantly increased the phylum Actinobacteria and the genera Bacillus and Nitrospira (P < 0.05). N application shifted the N cycle in nitrification, mainly on the Nitrospira, but showed no significant effect on the genera related to nitrogen fixation, methane oxidation, sulfate reduction, and sulfur oxidation (P > 0.05). Overall, the optimum amount of N application might be conducive to beneficial microorganisms, such as Actinobacteria, Nitrospira, and Bacillus and, thus, result in a healthier ecosystem and higher sustainable crop production.

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“…This supported the hypothesis that AOB are more sensitive to NIs than AOA and NIs would work through selectively inhibiting AOB. Previous studies illustrated that although the number of AOA far exceeds that of AOB in most terrestrial ecosystems, the N 2 O production capacity of AOB was 10-1,000 times higher than that of AOA (Leininger et al, 2006;Jung et al, 2011;Xia et al, 2011;Gu et al, 2019). The main reason for that was that AOB-related N 2 O was produced via nitrifierdenitrification and incomplete NH 2 OH oxidation (Shaw et al, 2006;Wu et al, 2018), while the N 2 O produced by AOA could not be attributed to nitrifier-denitrification, due to a lack of NO reductase (Tourna et al, 2011;Jung et al, 2014;Stieglmeier et al, 2014).…”

Section: Response Of Ammonia Oxidizers To Nitrification Inhibitorsmentioning

confidence: 99%

A meta-analysis to examine whether nitrification inhibitors work through selectively inhibiting ammonia-oxidizing bacteria

Lei

Fan²,

Yu³

et al. 2022

Front. Microbiol.

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Nitrification inhibitor (NI) is often claimed to be efficient in mitigating nitrogen (N) losses from agricultural production systems by slowing down nitrification. Increasing evidence suggests that ammonia-oxidizing archaea (AOA) and ammonia-oxidizing bacteria (AOB) have the genetic potential to produce nitrous oxide (N2O) and perform the first step of nitrification, but their contribution to N2O and nitrification remains unclear. Furthermore, both AOA and AOB are probably targets for NIs, but a quantitative synthesis is lacking to identify the “indicator microbe” as the best predictor of NI efficiency under different environmental conditions. In this present study, a meta-analysis to assess the response characteristics of AOB and AOA to NI application was conducted and the relationship between NI efficiency and the AOA and AOB amoA genes response under different conditions was evaluated. The dataset consisted of 48 papers (214 observations). This study showed that NIs on average reduced 58.1% of N2O emissions and increased 71.4% of soil NH4+ concentrations, respectively. When 3, 4-dimethylpyrazole phosphate (DMPP) was applied with both organic and inorganic fertilizers in alkaline medium soils, it had higher efficacy of decreasing N2O emissions than in acidic soils. The abundance of AOB amoA genes was dramatically reduced by about 50% with NI application in most soil types. Decrease in N2O emissions with NI addition was significantly correlated with AOB changes (R2 = 0.135, n = 110, P < 0.01) rather than changes in AOA, and there was an obvious correlation between the changes in NH4+ concentration and AOB amoA gene abundance after NI application (R2 = 0.037, n = 136, P = 0.014). The results indicated the principal role of AOB in nitrification, furthermore, AOB would be the best predictor of NI efficiency.

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Nitrapyrin affects the abundance of ammonia oxidizers rather than community structure in a yellow clay paddy soil

Cited by 20 publications

References 59 publications

Nitrapyrin has far reaching effects on the soil microbial community structure, composition, diversity and functions

Nitrapyrin has far reaching effects on the soil microbial community structure, composition, diversity and functions

Different Amounts of Nitrogen Fertilizer Applications Alter the Bacterial Diversity and Community Structure in the Rhizosphere Soil of Sugarcane

A meta-analysis to examine whether nitrification inhibitors work through selectively inhibiting ammonia-oxidizing bacteria

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