Chlorate as a comammox Nitrospira specific inhibitor reveals nitrification and N2O production activity in coastal wetland

Sun, Dongyao; Tang, Xiufeng; Li, Jun; Liu, Min; Hou, Lijun; Yin, Guoyu; Chen, Cheng; Zhao, Qiang; Klümpe, Uli; Han, Ping

doi:10.1016/j.soilbio.2022.108782

Cited by 36 publications

(26 citation statements)

References 59 publications

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“…Although Nitrospira is capable of detoxifying hazardous chlorite by chlorite dismutases [64], the chlorate concentrations used here obviously resulted in growth inhibition and cell death, which is in line with previous observations in wetland sediment mesocosms [28]. Similarly, we can rule out that our results were caused by excessive growth of AOB, since nitrification rates were linear across these five-days incubations.…”

Section: Discussionsupporting

confidence: 93%

“…CMX also dominated the ammonia oxidizer communities in groundwater-fed rapid gravity sand filters (RGSF) [7, 67] and in coastal wetlands [28] at low NH 4 + concentrations (71 μM or 1.1 μmol g -1 , respectively). In contrast to our findings, CMX Nitrospira were identified as the driver of the two steps of nitrification in the RGSF [7] and to make a similar contribution to nitrification as AOB in wetland soils (27% of total nitrification) [28]. These contrasting results demonstrate that high abundance of CMX in an environment do not necessarily imply that they also control the complete nitrification process.…”

Section: Discussionmentioning

confidence: 99%

“…So far, CMX enrichments and isolates comprise only clade A representatives [27]. 13 C stable isotope probing confirmed growth of CMX clade A with NH4 + during incubations of wetland coast sediments [28], and CMX clade A were highly abundant in salt marsh sediments showing strong potential for nitrification [29]. However, the ecophysiological niche differentiation between the clades has rarely been studied in the context of their co-occurrence and competition with canonical nitrifiers.…”

Section: Introductionmentioning

confidence: 99%

“…In addition, genome resolved metagenomics revealed an important role of CMX Nitrospira in the nitrogen and carbon cycle in this oligotrophic habitat [21]. The aquifers are characterized by a high spatial heterogeneity of NH 4 + and NO 3 - concentrations across an oxygen gradient, linked to differences in groundwater flow regime and distance to groundwater recharge areas [28, 29, 30]. These settings are ideal for the investigation of the ecophysiological niche differentiation of CMX clade A and B, AOB and AOA.…”

Section: Introductionmentioning

confidence: 99%

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Differential contribution of nitrifying prokaryotes to groundwater nitrification

Krüger

Chaudhari

Thamdrup

et al. 2023

Preprint

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The ecophysiology of complete ammonia-oxidizing Nitrospira (CMX) and their widespread occurrence in groundwater suggests that CMX bacteria have a competitive advantage over ammonia-oxidizing bacteria (AOB) and archaea (AOA) in these environments. However, the specific contribution of their activity to nitrification processes has remained unclear. We aimed to disentangle the contribution of CMX, AOA and AOB to nitrification and to identify the environmental drivers of their niche differentiation at different levels of ammonium and oxygen in oligotrophic carbonate rock aquifers. CMX accounted for up to 95% of the ammonia oxidizer communities. Nitrification rates were positively correlated to CMX clade A associated phylotypes and AOB affiliated with Nitrosomonas ureae. Surprisingly, short-term incubations amended with the nitrification inhibitors allylthiourea and chlorate suggested that AOB contributed more than 90% to overall ammonia oxidation, while metaproteomics analysis confirmed an active role of CMX in both ammonia and nitrite oxidation. Ecophysiological niche differentiation of CMX clades A and B, AOB and AOA was linked to their requirements for ammonium, oxygen tolerance, and metabolic versatility. Our results demonstrate that despite numerical predominance of CMX, the first step of nitrification in oligotrophic groundwater is primarily governed by AOB. Higher growth yields at lower ammonia turnover rates and energy derived from nitrite oxidation most likely enable CMX to maintain consistently high populations.

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Section: Discussionsupporting

confidence: 93%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Differential contribution of nitrifying prokaryotes to groundwater nitrification

Krüger

Chaudhari

Thamdrup

et al. 2023

Preprint

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show abstract

“…After removing sedimentary carbonate using 0.1 M HCl, the concentraction of total organic carbon (TOC) and total nitrogen (TN) in the sediments were determined using a carbon-hydrogen-nitrogen elementary analyser (VVarioELIII, Elementary, Germany) and C N elemental analyser (Elementar Vario MAX CN, Germany), respectively (Lin et al, 2017;Hu et al, 2022). The sediment concentrations of NH 4 + and NO 3 were extracted with 2 M KCl solution and then determined using a continuous flow analyser (SAN Plus, Skalar Analytical B.V., The Netherlands) (Sun et al, 2022).…”

Section: Study Area and Samples Collectionmentioning

confidence: 99%

Dissimilatory nitrate reduction processes in surface sediments of shrimp ponds during the culture period

et al. 2022

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Intensive aquaculture in estuaries and coasts has resulted in several ecological and environmental problems. Among various nitrogen transformation pathway, dissimilatory nitrate (NO3-) reduction is considered to be highly important in regulating reactive nitrogen. However, there are relatively few studies on the processes and contribution of NOx- reduction in sediment during the shrimp pond culture period. Three sediment NO3- reduction processes, denitrification (DNF), anaerobic ammonium oxidation (ANA), and dissimilatory NO3- reduction to ammonium (DNRA), were surveyed in eight shrimp ponds across three subtropical estuaries using 15N isotope tracing experiments. The rates of DNF, ANA and DNRA ranged from 2.87–18.11, 0.10–1.92, and 0.21–1.25 nmol N g -1 h -1, respectively. DNF was responsible for 64.2–91.6% of the total NO3- reduction. Regarding environmental factors, C and N substrates, as well as salinity, significantly affected NO3- reduction. In general, the N losses were approximately 32.43–131.64 g N m-2 yr-1 for DNF and 2.38–15.85 g N m-2 yr-1 for ANA in this study, indicating that coastal reclamation is a nonnegligible way to remove nitrogen. Our results provide a scientific foundation for understanding the mechanism of nitrogen cycling in the artificial aquatic environment of shrimp ponds.

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Conversion of coastal marsh to aquaculture ponds altered soil ammonia oxidiser community and decreased ammonia oxidation potential

Ye,

Tang,

Lin

et al. 2024

J of Sust Agri & Env

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IntroductionAs a crucial component of the nitrogen cycle, ammonia oxidation in soil can be driven by canonical ammonia‐oxidising archaea (AOA) and bacteria, as well as complete ammonia oxidiser (CMX Nitrospira). Land use change can disrupt and alter the soil microbial community and the nitrogen cycle.Materials & MethodsWe compared the soil ammonia‐oxidising microorganisms and ammonia oxidation potentials in a coastal marsh and nearby reclaimed aquaculture ponds, monthly over a 10‐month period in southeastern China. The abundance of ammonia oxidisers was assessed by real‐time quantitative PCR and the community structure of CMX Nitrospira was evaluated by high‐throughput sequencing.ResultsThe ammonia oxidiser community was dominated by AOA in the marsh (91%) and was made up of similar proportions of AOA and CMX Nitrospira in the aquaculture ponds (46%–47%). The CMX Nitrospira community structure changed significantly between habitat types, mainly driven by opposite change in relative abundance of clade B versus clades A.2 and A.3. Aquaculture reclamation decreased the soil potential ammonia oxidation rate (PAO) by an order of magnitude, and AOA was the only significant predictor of PAO among all ammonia oxidiser groups.ConclusionOur results suggest that aquaculture reclamation from coastal marshes would significantly alter the soil ammonia oxidiser community and decrease ammonia oxidation rate, and CMX Nitrospira appear to play a relative larger role in nitrogen cycling in aquaculture ponds.

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Chlorate as a comammox Nitrospira specific inhibitor reveals nitrification and N2O production activity in coastal wetland

Cited by 36 publications

References 59 publications

Differential contribution of nitrifying prokaryotes to groundwater nitrification

Differential contribution of nitrifying prokaryotes to groundwater nitrification

Dissimilatory nitrate reduction processes in surface sediments of shrimp ponds during the culture period

Conversion of coastal marsh to aquaculture ponds altered soil ammonia oxidiser community and decreased ammonia oxidation potential

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