Contrasting effects of warming and N deposition on soil microbial functional genes in a subtropical forest

Abstract Background Nitrogen (N) saturation theory proposes that an ecosystem might switch from N limitation to carbon (C), phosphorus (P), or other nutrient limitations if it receives continuous N input. Yet, after N limitation is removed, which nutrient is the most limited and whether topography modulates such change is rarely tested at a microbial level. Here, we conducted a two-year N addition experiment under two different topography positions (i.e. a slope and a valley) in a N-saturated subtropical forest. Soil enzyme activity was measured, and ecoenzymatic stoichiometry indexes were calculated as indicators of microbial resource limitation. Results In the valley, two-year N addition changed the activity of all studied enzymes to various degrees. As a result, microbial C limitation was aggravated in the valley, and consequently microbial decomposition of soil labile organic C increased, but microbial P limitation was alleviated due to the stoichiometry balance. On the slope, however, N addition did not significantly change the activity of the studied enzymes, and did not alter the status of microbial resource limitation. Conclusions These results indicate that C is a more limited element for microbial growth than P after removing N limitation, but we also highlight that topography can regulate the effect of N deposition on soil microbial resource limitation in subtropical forests. These findings provide useful supplements to the N saturation theory.

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Long-term throughfall exclusion decreases soil organic phosphorus associated with reduced plant roots and soil microbial biomass in a subtropical forest

Geoderma ◽

10.1016/j.geoderma.2021.115309 ◽

2021 ◽

Vol 404 ◽

pp. 115309

Author(s):

Yuexin Fan ◽

Shengxu Lu ◽

Min He ◽

Liuming Yang ◽

Weifang Hu ◽

...

Keyword(s):

Microbial Biomass ◽

Soil Microbial Biomass ◽

Organic Phosphorus ◽

Subtropical Forest ◽

Plant Roots ◽

Soil Microbial ◽

Soil Organic Phosphorus ◽

Throughfall Exclusion

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Microbial Mechanisms Mediating Increased Soil C Storage under Elevated Atmospheric N Deposition

Applied and Environmental Microbiology ◽

10.1128/aem.03156-12 ◽

2012 ◽

Vol 79 (4) ◽

pp. 1191-1199 ◽

Cited By ~ 47

Author(s):

Sarah D. Eisenlord ◽

Zachary Freedman ◽

Donald R. Zak ◽

Kai Xue ◽

Zhili He ◽

...

Keyword(s):

Forest Floor ◽

Forest Ecosystems ◽

N Deposition ◽

Fungal Communities ◽

Functional Genes ◽

Atmospheric N Deposition ◽

Soil C ◽

C Storage ◽

Genes Encoding ◽

Soil C Storage

ABSTRACTFuture rates of anthropogenic N deposition can slow the cycling and enhance the storage of C in forest ecosystems. In a northern hardwood forest ecosystem, experimental N deposition has decreased the extent of forest floor decay, leading to increased soil C storage. To better understand the microbial mechanisms mediating this response, we examined the functional genes derived from communities of actinobacteria and fungi present in the forest floor using GeoChip 4.0, a high-throughput functional-gene microarray. The compositions of functional genes derived from actinobacterial and fungal communities was significantly altered by experimental nitrogen deposition, with more heterogeneity detected in both groups. Experimental N deposition significantly decreased the richness and diversity of genes involved in the depolymerization of starch (∼12%), hemicellulose (∼16%), cellulose (∼16%), chitin (∼15%), and lignin (∼16%). The decrease in richness occurred across all taxonomic groupings detected by the microarray. The compositions of genes encoding oxidoreductases, which plausibly mediate lignin decay, were responsible for much of the observed dissimilarity between actinobacterial communities under ambient and experimental N deposition. This shift in composition and decrease in richness and diversity of genes encoding enzymes that mediate the decay process has occurred in parallel with a reduction in the extent of decay and accumulation of soil organic matter. Our observations indicate that compositional changes in actinobacterial and fungal communities elicited by experimental N deposition have functional implications for the cycling and storage of carbon in forest ecosystems.

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Responses of soil respiration to elevated carbon dioxide and nitrogen addition in young subtropical forest ecosystems in China

Biogeosciences ◽

10.5194/bg-7-315-2010 ◽

2010 ◽

Vol 7 (1) ◽

pp. 315-328 ◽

Cited By ~ 84

Author(s):

Q. Deng ◽

G. Zhou ◽

J. Liu ◽

S. Liu ◽

H. Duan ◽

...

Keyword(s):

Soil Respiration ◽

Elevated Co2 ◽

Forest Ecosystems ◽

N Deposition ◽

Subtropical Forest ◽

N Addition ◽

Above Ground Biomass ◽

Respiration Rates ◽

Ambient Co2 ◽

Ambient N Deposition

Abstract. Global climate change in the real world always exhibits simultaneous changes in multiple factors. Prediction of ecosystem responses to multi-factor global changes in a future world strongly relies on our understanding of their interactions. However, it is still unclear how nitrogen (N) deposition and elevated atmospheric carbon dioxide concentration [CO2] would interactively influence forest floor soil respiration in subtropical China. We assessed the main and interactive effects of elevated [CO2] and N addition on soil respiration by growing tree seedlings in ten large open-top chambers under CO2 (ambient CO2 and 700 μmol mol−1) and nitrogen (ambient and 100 kg N ha−1 yr−1) treatments. Soil respiration, soil temperature and soil moisture were measured for 30 months, as well as above-ground biomass, root biomass and soil organic matter (SOM). Results showed that soil respiration displayed strong seasonal patterns with higher values observed in the wet season (April–September) and lower values in the dry season (October–March) in all treatments. Significant exponential relationships between soil respiration rates and soil temperatures, as well as significant linear relationships between soil respiration rates and soil moistures (below 15%) were found. Both CO2 and N treatments significantly affected soil respiration, and there was significant interaction between elevated [CO2] and N addition (p<0.001, p=0.003, and p=0.006, respectively). We also observed that the stimulatory effect of individual elevated [CO2] (about 29% increased) was maintained throughout the experimental period. The positive effect of N addition was found only in 2006 (8.17% increased), and then had been weakened over time. Their combined effect on soil respiration (about 50% increased) was greater than the impact of either one alone. Mean value of annual soil respiration was 5.32 ± 0.08, 4.54 ± 0.10, 3.56 ± 0.03 and 3.53 ± 0.03 kg CO2 m−2 yr−1 in the chambers exposed to elevated [CO2] and high N deposition (CN), elevated [CO2] and ambient N deposition (CC), ambient [CO2] and high N deposition (NN), and ambient [CO2] and ambient N deposition (CK as a control), respectively. Greater above-ground biomass and root biomass was obtained in the CN, CC and NN treatments, and higher soil organic matter was observed only in the CN treatment. In conclusion, the combined effect of elevated [CO2] and N addition on soil respiration was apparent interaction. They should be evaluated in combination in subtropical forest ecosystems in China where the atmospheric CO2 and N deposition have been increasing simultaneously and remarkably.

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Agricultural practice negatively affects soil microbial diversity and nitrogen functional genes comparing to adjacent native forest soils

10.22541/au.163705519.94774515/v2 ◽

2021 ◽

Author(s):

Tiehang Wu ◽

Michael Sabula ◽

Holli Milner ◽

Gary Strickland ◽

Gan Liu

Keyword(s):

Community Structure ◽

Bacterial Diversity ◽

Forest Soils ◽

Agricultural Practices ◽

Functional Genes ◽

Agricultural Practice ◽

Soil Bacterial Diversity ◽

Soil Microbial Diversity ◽

Soil Microbial ◽

Soil Bacterial

Soil microbial diversity and community are determined by anthropogenic activities and environmental conditions, which greatly affect the functioning of ecosystem. We investigated the soil bacterial diversity, communities, and nitrogen (N) functional genes with different disturbance intensity levels from crop, transition, to forest soils at three locations in the coastal region of Georgia, USA. Illumina high-throughput DNA sequencing based on bacterial 16S rRNA genes were performed for bacterial diversity and community analyses. Nitrifying (AOB amoA) and denitrifying (nirK) functional genes were further detected using quantitative PCR (qPCR) and Denaturing Gradient Gel Electrophoresis (DGGE). Soil bacterial community structure determined by Illumina sequences were significantly different between crop and forest soils (p < 0.01), as well as between crop and transition soils (p = 0.01). However, there is no difference between transition and forest soils. Compared to less disturbed forest, agricultural practice significantly decreased soil bacterial richness and Shannon diversity. Soil pH and nitrate contents together contributed highest for the observed different bacterial communities (Correlations = 0.381). Two OTUs (OTU5, OTU8) belonging to Acidobacteriales species decreased in crop soils, however, agricultural practices significantly increased an OTU (OTU4) of Nitrobacteraceae. The relative abundance of AOB amoA gene was significantly higher in crop soils than in forest and transition soils. Distinct grouping of soil denitrifying bacterial nirK communities was observed and agricultural practices significantly decreased the diversity of nirK gene compared to forest soils. Anthropogenic effects through agricultural practices negatively affecting the soil bacterial diversity, community structure, and N functional genes.

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Environmental Controls on Soil Microbial Communities in a Seasonally Dry Tropical Forest

Applied and Environmental Microbiology ◽

10.1128/aem.00342-18 ◽

2018 ◽

Vol 84 (17) ◽

Cited By ~ 8

Author(s):

Silvia Pajares ◽

Julio Campo ◽

Brendan J. M. Bohannan ◽

Jorge D. Etchevers

Keyword(s):

Tropical Forest ◽

Tropical Forests ◽

Soil Microbial Communities ◽

Soil Heterogeneity ◽

N Deposition ◽

Seasonally Dry Tropical Forest ◽

Content Type ◽

Soil Microbial ◽

Seasonally Dry ◽

Rainfall Seasonality

ABSTRACTSeveral studies have shown that rainfall seasonality, soil heterogeneity, and increased nitrogen (N) deposition may have important effects on tropical forest function. However, the effects of these environmental controls on soil microbial communities in seasonally dry tropical forests are poorly understood. In a seasonally dry tropical forest in the Yucatan Peninsula (Mexico), we investigated the influence of soil heterogeneity (which results in two different soil types, black and red soils), rainfall seasonality (in two successive seasons, wet and dry), and 3 years of repeated N enrichment on soil chemical and microbiological properties, including bacterial gene content and community structure. The soil properties varied with the soil type and the sampling season but did not respond to N enrichment. Greater organic matter content in the black soils was associated with higher microbial biomass, enzyme activities, and abundances of genes related to nitrification (amoA) and denitrification (nirKandnirS) than were observed in the red soils. Rainfall seasonality was also associated with changes in soil microbial biomass and activity levels and N gene abundances.Actinobacteria,Proteobacteria,Firmicutes, andAcidobacteriawere the most abundant phyla. Differences in bacterial community composition were associated with soil type and season and were primarily detected at higher taxonomic resolution, where specific taxa drive the separation of communities between soils. We observed that soil heterogeneity and rainfall seasonality were the main correlates of soil bacterial community structure and function in this tropical forest, likely acting through their effects on soil attributes, especially those related to soil organic matter and moisture content.IMPORTANCEUnderstanding the response of soil microbial communities to environmental factors is important for predicting the contribution of forest ecosystems to global environmental change. Seasonally dry tropical forests are characterized by receiving less than 1,800 mm of rain per year in alternating wet and dry seasons and by high heterogeneity in plant diversity and soil chemistry. For these reasons, N deposition may affect their soils differently than those in humid tropical forests. This study documents the influence of rainfall seasonality, soil heterogeneity, and N deposition on soil chemical and microbiological properties in a seasonally dry tropical forest. Our findings suggest that soil heterogeneity and rainfall seasonality are likely the main factors controlling soil bacterial community structure and function in this tropical forest. Nitrogen enrichment was likely too low to induce significant short-term effects on soil properties, because this tropical forest is not N limited.

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Phosphorus Reduces Negative Effects of Nitrogen Addition on Soil Microbial Communities and Functions

Microorganisms ◽

10.3390/microorganisms8111828 ◽

2020 ◽

Vol 8 (11) ◽

pp. 1828 ◽

Cited By ~ 1

Author(s):

Zongwei Xia ◽

Jingyi Yang ◽

Changpeng Sang ◽

Xu Wang ◽

Lifei Sun ◽

...

Keyword(s):

Microbial Communities ◽

Bacterial Diversity ◽

Soil Microbial Communities ◽

N Deposition ◽

N Fixation ◽

N Addition ◽

Soil Bacterial Diversity ◽

Soil Microbial ◽

Soil Bacterial ◽

P Addition

Increased soil nitrogen (N) from atmospheric N deposition could change microbial communities and functions. However, the underlying mechanisms and whether soil phosphorus (P) status are responsible for these changes still have not been well explained. Here, we investigated the effects of N and P additions on soil bacterial and fungal communities and predicted their functional compositions in a temperate forest. We found that N addition significantly decreased soil bacterial diversity in the organic (O) horizon, but tended to increase bacterial diversity in the mineral (A) horizon soil. P addition alone did not significantly change soil bacterial diversity but mitigated the negative effect of N addition on bacterial diversity in the O horizon. Neither N addition nor P addition significantly influenced soil fungal diversity. Changes in soil microbial community composition under N and P additions were mainly due to the shifts in soil pH and NO3− contents. N addition can affect bacterial functional potentials, such as ureolysis, N fixation, respiration, decomposition of organic matter processes, and fungal guilds, such as pathogen, saprotroph, and mycorrhizal fungi, by which more C probably was lost in O horizon soil under increased N deposition. However, P addition can alleviate or switch the effects of increased N deposition on the microbial functional potentials in O horizon soil and may even be a benefit for more C sequestration in A horizon soil. Our results highlight the different responses of microorganisms to N and P additions between O and A horizons and provides an important insight for predicting the changes in forest C storage status under increasing N deposition in the future.

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Different Molecular Characterization of Soil Particulate Fractions under N Deposition in a Subtropical Forest

Forests ◽

10.3390/f10100914 ◽

2019 ◽

Vol 10 (10) ◽

pp. 914

Author(s):

Jing Geng ◽

Shulan Cheng ◽

Huajun Fang ◽

Jie Pei ◽

Meng Xu ◽

...

Keyword(s):

Organic Matter ◽

Chemical Structure ◽

Critical Role ◽

N Deposition ◽

Subtropical Forest ◽

Gas Chromatography Mass Spectrometry ◽

N Addition ◽

Pyrolysis Gas ◽

C Cycle ◽

N Treatment

Key Findings: Combining physical fractionation and pyrolysis–gas chromatography/mass spectrometry (py-GC/MS) technique can help better understand the dynamics of soil organic matter (SOM). Background and Objectives: SOM plays a critical role in the global carbon (C) cycle. However, its complexity remains a challenge in characterizing chemical molecular composition within SOM and under nitrogen (N) deposition. Materials and Methods: Three particulate organic matter (POM) fractions within SOM and under N treatments were studied from perspectives of distributions, C contents and chemical signatures in a subtropical forest. N addition experiment was conducted with two inorganic N forms (NH4Cl and NaNO3) applied at three rates of 0, 40, 120 kg N ha−1 yr−1. Three particle-size fractions (>250 μm, 53–250 μm and <53 μm) were separated by a wet-sieving method. Py-GC/MS technique was used to differentiate between chemical composition. Results: A progressive proportion transfer of mineral-associated organic matter (MAOM) to fine POM under N treatment was found. Only C content in fine POM was sensitive to N addition. Principal component analyses (PCA) showed that the coarse POM had the largest plant-derived markers (lignins, phenols, long-chain n-alkanes, and n-alkenes). Short-chain n-alkanes and n-alkenes, benzofurans, aromatics and polycyclic aromatic hydrocarbons mainly from black carbon prevailed in the fine POM. N compounds and polysaccharides from microbial products dominated in the MAOM. Factor analysis revealed that the degradation extent of three fractions was largely distinct. The difference in chemical structure among three particulate fractions within SOM was larger than treatments between control and N addition. In terms of N treatment impact, the MAOM fraction had fewer benzofurans compounds and was enriched in polysaccharides, indicating comparatively weaker mineralization and stronger stabilization of these substances. Conclusions: Our findings highlight the importance of chemical structure in SOM pools and help to understand the influence of N deposition on SOM transformation.

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