Ammonia oxidizers and nitrite-oxidizing bacteria respond differently to long-term manure application in four paddy soils of south of China

Liu, Haiyang; Li, Jia; Zhao, Yan; Xie, Kexin; Tang, Xianjin; Wang, Shaoxian; Li, Zhongpei; Liao, Yulin; Xu, Jianming; Di, Hongjie; Li, Yong

doi:10.1016/j.scitotenv.2018.03.108

Cited by 64 publications

(32 citation statements)

References 62 publications

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“…It was repeatedly reported that AOA was sensitive to inorganic N-fertilizer application in low pH soil, whereas AOB was sensitive to the change of soil N availability in neutral and alkaline soils (Di et al, 2009;Schauss et al, 2009;Bi et al, 2017). For instance, organic amendment enhanced AOB abundance in neutral-pH (Liu et al, 2018) and alkaline soils (Pereg et al, 2018;Tao et al, 2017), while it enhanced AOA growth in acidic soils (Chen et al, 2011). In this study, the soil pH value was close to neutral and ranged from 6.1 to 6.6 (Table S5), which could explain why AOB rather than AOA abundance was stimulated by compost addition.…”

Section: Discussionmentioning

confidence: 99%

Dynamics of ammonia oxidizers and denitrifiers in response to compost addition in black soil, Northeast China

Yang

Guan

Bello

et al. 2020

PeerJ

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Organic fertilizer application could have an impact on the nitrogen cycle mediated by microorganisms in arable soils. However, the dynamics of soil ammonia oxidizers and denitrifiers in response to compost addition are less understood. In this study, we examined the effect of four compost application rates (0, 11.25, 22.5 and 45 t/ha) on soil ammonia oxidizers and denitrifiers at soybean seedling, flowering and mature stage in a field experiment in Northeast China. As revealed by quantitative PCR, compost addition significantly enhanced the abundance of ammonia oxidizing bacteria (AOB) at seedling stage, while the abundance of ammonia oxidizing archaea was unaffected across the growing season. The abundance of genes involved in denitrification (nirS, nirK and nosZ) were generally increased along with compost rate at seedling and flowering stages, but not in mature stage. The non-metric multidimensional scaling analysis revealed that moderate and high level of compost addition consistently induced shift in AOB and nirS containing denitrifers community composition across the growing season. Among AOB lineages, Nitrosospira cluster 3a gradually decreased along with the compost rate across the growing season, while Nitrosomonas exhibited an opposite trend. Network analysis indicated that the complexity of AOB and nirS containing denitrifiers network gradually increased along with the compost rate. Our findings highlighted the positive effect of compost addition on the abundance of ammonia oxidizers and denitrifiers and emphasized that compost addition play crucial roles in shaping their community compositions and co-occurrence networks in black soil of Northeast China.

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Section: Discussionmentioning

confidence: 99%

Dynamics of ammonia oxidizers and denitrifiers in response to compost addition in black soil, Northeast China

Yang

Guan

Bello

et al. 2020

PeerJ

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“…Secondly, manure application increases soil organic matter and thus the soil pH buffering capacity and eventually reduces soil acidification [12]. Additionally, long-term manure application could also influence the microbial abundance and activity in the soil [13,14].…”

Section: Introductionmentioning

confidence: 99%

WITHDRAWN: Differences in the soil bacterial community under organic farming and conventional farming modes revealed by 16S rDNA sequencing

Yang

Fang

et al. 2020

Preprint

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Background The bacterial communities is complex and different in various agricultural ecosystem. In this study, high-throughput Illumina MiSeq sequencing was conducted to assess the differences in soil bacterial communities between organic farming and conventional farming modes. Results A total of 3, 919 operational taxonomic units were identified and classified as 26 phyla, 42 classes, 78 orders, 120 families, 281 genera. The dominant genera were Lysobacter , Pseudomonas , Massilia , Pseudarthrobacter , Ferruginibacter , Flavobacterium , Flavisolibacter , Brevundimonas , Haliangium and Sphingomonas . Analysis of soil bacterial diversity showed that the soil under the organic farming had a greater bacterial diversity than that under the conventional farming. Linear discriminant analysis effect size analysis showed that the major bacterial groups identified in the soil sample CK1 (2015.4) and CK6 (2017.10) under conventional farming mode were largely different from those in the soil sample O6 (2017.10) under organic farming mode. Redundancy analysis demonstrated that available nitrogen was the most important factor regulating bacterial composition under the organic farming mode, followed by soil rapidly available phosphorous and potassium. Massilia , Pseudomonas , Lysobacter and Pseudarthrobacter abundances showed a strong positive correlation with the content of available nitrogen. Conclusions Organic farming could improve soil organic matter, available nitrogen, rapidly available phosphorus and retard soil acidification. This modification of soil can directly or indirectly relate to the bacterial communities in soil. The shifts of bacterial communities were complicated and dynamic with respect to all sorts of the measures of cultivation and management under organic farming mode.

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“…In contrast, Zhou et al (2015) observed that ammonia-oxidising archaea in a permanent grassland soil was increased by 44 years of cattle slurry amendment. This was also observed in response to longterm manure application to rice paddy soils (Liu et al 2018), where both ammonia-oxidising archaea and nitrite-oxidising community structures were more sensitive to long-term manure application. This suggests that ammonia-oxidising archaea are better adapted to growth at low pH and low substrate availability.…”

Section: Animal Manuresmentioning

confidence: 55%

“…Microbial-based functions in soil have been shown to respond to organic fertiliser application. For example, repeated inputs of excreta and consequent increases in SOM have resulted in major change to N-cycling rates with enhanced nitrification and denitrification (Wang et al 2014(Wang et al , 2015Liu et al 2018). In terms of nitrification, bacteria had a more significant role in ammonia oxidation following long-term slurry or composted manure application with greater ammonia or ammonium concentrations and potentially higher nitrification rates (Wang et al 2014(Wang et al , 2015.…”

Section: Animal Manuresmentioning

confidence: 99%

Soil biodiversity and biogeochemical function in managed ecosystems

et al. 2020

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A complex combination of environmental, biological, chemical, and physical properties and processes determine soil biodiversity and its relationship to biogeochemical functions and ecosystem services. Vegetation, land-use, and land management, in turn, influence diversity and function in the soil ecosystem. The objective of this review was to assess how different land-use systems (crop production, animal production, and planted forest) affect soil biodiversity, and how consequent changes in soil biodiversity influence energy (carbon) and nutrient dynamics. Deficiencies in understanding relationships between soil biodiversity and biogeochemical function in managed ecosystems are highlighted, along with the need to investigate how diversity influences specific processes across different functional groups and trophic levels. The continued development and application of molecular techniques and data informatics with descriptive approaches will contribute to advancing our understanding of soil biodiversity and function in managed agricultural and forest ecosystems.

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Ammonia oxidizers and nitrite-oxidizing bacteria respond differently to long-term manure application in four paddy soils of south of China

Cited by 64 publications

References 62 publications

Dynamics of ammonia oxidizers and denitrifiers in response to compost addition in black soil, Northeast China

Dynamics of ammonia oxidizers and denitrifiers in response to compost addition in black soil, Northeast China

WITHDRAWN: Differences in the soil bacterial community under organic farming and conventional farming modes revealed by 16S rDNA sequencing

Soil biodiversity and biogeochemical function in managed ecosystems

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