Impacts of Organic and Inorganic Fertilizers on Nitrification in a Cold Climate Soil are Linked to the Bacterial Ammonia Oxidizer Community

Fan, Fenliang; QianBao, Yang; Li, Zhaojun; Wei, Dan; Cui, Xian; Liang, Yongchao

doi:10.1007/s00248-011-9897-5

Cited by 109 publications

(72 citation statements)

References 41 publications

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“…The first explanation is in accordance with numerous previous studies that have accredited AOB the prevailing importance for ammonia oxidation under conditions of elevated ammonium (e.g. Di et al, 2010;Taylor et al, 2010Fan et al, 2011Verhamme, Prosser and Nicol 2011). Additionally, we show that even in a soil were AOB exist in such low numbers that they are not detectable in situ, they can grow to become a significant part of the soil microbial community and likely contribute to nitrification when relieved from intrinsic limitations, in our case via addition of ammonium.…”

Section: Effect Of Ammonium Addition To Soil Microcosmssupporting

confidence: 75%

Ammonia-limited conditions cause of Thaumarchaeal dominance in volcanic grassland soil

Daebeler

Bodelier

Hefting

et al. 2015

FEMS Microbiology Ecology

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One sentence summary: Our study supports the niche-differentiating potential of ammonium concentration for AOA and AOB, and we conclude that ammonium limitation can be a major reason for absence of detectable AOB in soil. Editor: Tillmann Lueders ABSTRACTThe first step of nitrification is carried out by ammonia-oxidizing bacteria (AOB) and archaea (AOA). It is largely unknown, by which mechanisms these microbes are capable of coexistence and how their respective contribution to ammonia oxidation may differ with varying soil characteristics. To determine how different levels of ammonium availability influence the extent of archaeal and bacterial contributions to ammonia oxidation, microcosm incubations with controlled ammonium levels were conducted. Net nitrification was monitored and ammonia-oxidizer communities were quantified. Additionally, the nitrification inhibitor allylthiourea (ATU) was applied to discriminate between archaeal and bacterial contributions to soil ammonia oxidation. Thaumarchaeota, which were the only ammonia oxidizers detectable at the start of the incubation, grew in all microcosms, but AOB later became detectable in ammonium amended microcosms. Low and high additions of ammonium increasingly stimulated AOB growth, while AOA were only stimulated by the low addition. Treatment with ATU had no effect on net nitrification and sizes of ammonia-oxidizing communities suggesting that the effective concentration of ATU to discriminate between archaeal and bacterial ammonia oxidation is not the same in different soils. Our results support the niche-differentiating potential of ammonium concentration for AOA and AOB, and we conclude that ammonium limitation can be a major reason for absence of detectable AOB in soil.

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Section: Effect Of Ammonium Addition To Soil Microcosmssupporting

confidence: 75%

Ammonia-limited conditions cause of Thaumarchaeal dominance in volcanic grassland soil

Daebeler

Bodelier

Hefting

et al. 2015

FEMS Microbiology Ecology

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“…Unlike AOB, we observed that community structure of AOA exhibited no obvious change which is consistent by Shen et al (2011) andWang et al (2009). Fan et al (2011) also reported that the community structure of AOA in soil exhibited little variation among fertilization treatments. Cluster analysis showed that the CK treatment could not be clearly separated from the fertilized treatments (Figure 4b).…”

Section: Discussionsupporting

confidence: 63%

Effect of chemical fertilization and green manure on the abundance and community structure of ammonia oxidizers in a paddy soil

Fang

Yan

Chen

et al. 2015

Chilean J. Agric. Res.

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Ammonia oxidization is a critical step in the soil N cycle and can be affected by the fertilization regimes. Chinese milkvetch (Astragalus sinicus L., MV) is a major green manure of rice (Oryza sativa L.) fields in southern China, which is recommended as an important agronomic practice to improve soil fertility. Soil chemical properties, abundance and community structures of ammonia-oxidizing bacteria (AOB) and ammonia-oxidizing archaea (AOA) in a MV-rice rotation field under different fertilization regimes were investigated. The field experiment included six treatments: control, without MV and chemical fertilizer (CK); 100% chemical fertilizer (NPK); 18 000 kg MV ha -1 plus 100% chemical fertilizer (NPKM1); 18 000 kg MV ha -1 plus 40% chemical fertilizer (NPKM2); 18 000 kg MV ha -1 alone (MV); and 18 000 kg MV ha -1 plus 40% chemical fertilizer plus straw (NPKMS). Results showed that NPKMS treatment could improve the soil fertility greatly although the application of 60% chemical fertilizer. The abundance of AOB only in the MV treatment had significant difference with the control; AOA were more abundant than AOB in all corresponding treatments. The NPKMS treatment had the highest AOA abundance (1.19 × 10 8 amoA gene copies g -1 ) and the lowest abundance was recorded in the CK treatment (3.21 × 10 7 amoA gene copies g -1 ). The abundance of AOA was significantly positively related to total N, available N, NH4 + -N, and NO3 --N. The community structure of AOA exhibited little variation among different fertilization regimes, whereas the community structure of AOB was highly responsive. Phylogenetic analysis showed that all AOB sequences were affiliated with Nitrosospira or Nitrosomonas and all AOA denaturing gradient gel electrophoresis (DGGE) bands belonged to the soil and sediment lineage. These findings could be fundamental to improve our understanding of AOB and AOA in the N cycle in the paddy soil.Key words: Abundance, ammonia-oxidizing archaea (AOA), ammonia-oxidizing bacteria (AOB), Astragalus sinicus, community structure, Chinese milk vetch, soil chemical properties. INTRODUCTIONAppropriate fertilizer application is an important management practice to improve soil fertility. In recent years, due to the rapid population growth and continuous decline in the amount of cultivated land area, the application rate of fertilizer keeps on rising in tropical and subtropical regions of China in order to obtain high crop production. However, the long-term inappropriate fertilization has caused many environmental problems, such as high acidity, low nutrients in cultivated land and unbalanced ecosystem (Chen et al., 2010). Recently, soil quality has gained much attention as a result of environmental issues related to soil degradation and production sustainability under different farming systems (Galantini and Rosell, 2006). Chinese milk vetch (Astragalus sinicus L., MV) is considered as the most popular green manure in paddy field of South China, due to its high N-fixing potential and better growth under wet paddy soi...

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“…It has been suggested that the AOB/AOA ratio is directly correlated to inorganic nitrogen loads. For example, Fan et al showed that increased inorganic fertilization led to a 6-to 60-fold increase in the AOB/AOA ratio (11). Integration of our results with these previous studies suggests that ammonia oxidation in ammonium-fertigated soilless culture systems is primarily associated with AOB and not AOA.…”

Section: Discussionsupporting

confidence: 72%

Impact of Short-Term Acidification on Nitrification and Nitrifying Bacterial Community Dynamics in Soilless Cultivation Media

Cytryn

Levkovitch

Negreanu

et al. 2012

Appl Environ Microbiol

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ABSTRACTSoilless medium-based horticulture systems are highly prevalent due to their capacity to optimize growth of high-cash crops. However, these systems are highly dynamic and more sensitive to physiochemical and pH perturbations than traditional soil-based systems, especially during nitrification associated with ammonia-based fertilization. The objective of this study was to assess the impact of nitrification-generated acidification on ammonia oxidation rates and nitrifying bacterial community dynamics in soilless growth media. To achieve this goal, perlite soilless growth medium from a commercial bell pepper greenhouse was incubated with ammonium in bench-scale microcosm experiments. Initial quantitative real-time PCR analysis indicated that betaproteobacterial ammonia oxidizers were significantly more abundant than ammonia-oxidizing archaea, and therefore, research focused on this group. Ammonia oxidation rates were highest between 0 and 9 days, when pH values dropped from 7.4 to 4.9. Pyrosequencing of betaproteobacterial ammonia-oxidizingamoAgene fragments indicated that r-strategist-likeNitrosomonaswas the dominant ammonia-oxidizing bacterial genus during this period, seemingly due to the high ammonium concentration and optimal growth conditions in the soilless media. Reduction of pH to levels below 4.8 resulted in a significant decrease in both ammonia oxidation rates and the diversity of ammonia-oxidizing bacteria, with increased relative abundance of the r-strategist-likeNitrosospira. Nitrite oxidizers (NitrospiraandNitrobacter) were on the whole more abundant and less sensitive to acidification than ammonia oxidizers. This study demonstrates that nitrification and nitrifying bacterial community dynamics in high-N-load intensive soilless growth media may be significantly different from those inin-terraagricultural systems.

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Impacts of Organic and Inorganic Fertilizers on Nitrification in a Cold Climate Soil are Linked to the Bacterial Ammonia Oxidizer Community

Cited by 109 publications

References 41 publications

Ammonia-limited conditions cause of Thaumarchaeal dominance in volcanic grassland soil

Ammonia-limited conditions cause of Thaumarchaeal dominance in volcanic grassland soil

Effect of chemical fertilization and green manure on the abundance and community structure of ammonia oxidizers in a paddy soil

Impact of Short-Term Acidification on Nitrification and Nitrifying Bacterial Community Dynamics in Soilless Cultivation Media

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