Effects of nitrogen deposition on carbon and nutrient cycling along a natural soil acidity gradient as revealed by metagenomics

Hagh‐Doust, Niloufar; Mikryukov, Vladimir; Anslan, Sten; Bahram, Mohammad; Puusepp, Rasmus; Dulya, Olesya V.; Tedersoo, Leho

doi:10.1111/nph.18897

Cited by 18 publications

(3 citation statements)

References 112 publications

(148 reference statements)

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Soil microbes influence soil nutrient cycling, decomposition processes and plant health by modifying their metabolic functions [52]. In the present study, pathways related to cell metabolism and genetic information processing appeared significantly increased under salt stress in both salt-sensitive and salt-tolerant varieties of soybean (Figure 8A).…”

Section: Discussionsupporting

confidence: 53%

Exogenous Selenium Endows Salt-Tolerant and Salt-Sensitive Soybeans with Salt Tolerance through Plant-Microbial Coactions

Wang,

Xu,

Wuriyanghan

et al. 2023

Agronomy

View full text Add to dashboard Cite

Soil salinization is a common abiotic stress that seriously affects soybean growth and yield, underscoring the need to enhance plant salt tolerance for sustainable agriculture development. Selenium is a beneficial element that has been shown to promote plant growth, development and stress resistance. This study employed pot experiments to investigate the effects of different salt levels (0, 50, 100 and 150 mM NaCl) on salt-tolerant (Zhonghuang 13) and salt-sensitive soybean (Dongnong 63) varieties. Additionally, the critical salt concentration (100 mM NaCl) was selected to explore the effects of exogenous selenium (0, 0.5, 1 and 3 mg·kg−1) on improving salt tolerance in salt-tolerant and salt-sensitive soybeans under salt stress. Results showed that as salt concentration increased, plant height, shoot and root fresh weight, SPAD value and enzyme activity of both salt-tolerant and salt-sensitive soybeans significantly decreased. The increasing concentration of exogenous selenium significantly decreased the proline content of salt-sensitive and salt-tolerant soybeans by 40.65–58.87% and 38.51–50.46%, respectively, and the MDA content by 19.33–30.36% and 16.94–37.48%, respectively. Selenium supplementation also reduced the content of Na+ in salt-sensitive and salt-tolerant soybeans and improved K+ absorption in soybeans, which increased the K+/Na+ ratio. Moreover, high-throughput sequencing of the 16S ribosomal RNA gene demonstrated that selenium application optimized the rhizosphere microecology structure of salt-tolerant and salt-sensitive soybean varieties and enhanced functional genes related to lipid metabolism, energy metabolism and cell motility of rhizosphere microorganisms. In summary, selenium application improved the salt tolerance of the two soybean varieties by enhancing the physiological resistance to salt stress and optimizing the structure and function of the rhizosphere microbial community.

show abstract

Section: Discussionsupporting

confidence: 53%

Exogenous Selenium Endows Salt-Tolerant and Salt-Sensitive Soybeans with Salt Tolerance through Plant-Microbial Coactions

Wang,

Xu,

Wuriyanghan

et al. 2023

Agronomy

View full text Add to dashboard Cite

show abstract

“…It also relates to microorganisms producing these compounds, which are significantly enriched in various ecological niches. Soil physicochemical properties are the most important environmental factors affecting microbial and functional gene composition (Jiang et al, 2021;Hagh-Doust et al, 2023). We found that fungal communities were more sensitive to ginseng cultivation years and soil physicochemical properties relative to bacteria (Table 1 and Figure 7).…”

Section: Figurementioning

confidence: 89%

Influence of cultivation duration on microbial taxa aggregation in Panax ginseng soils across ecological niches

Shi,

Yang,

et al. 2024

Front. Microbiol.

View full text Add to dashboard Cite

IntroductionMicrobial communities are crucial for plant health and productivity. However, the influence of cultivation age on the ecological processes in assembling plant microbiomes at various ecological niches remains unclear.MethodsWe selected 12 samples from ginseng farmlands with different cultivation years (N4: 4 years old, N6: 6 years old). We used soil physicochemical properties, enzyme activities, and high-throughput sequencing (16S rDNA and ITS) to examine the rhizoplane (RP), rhizosphere (RS), and bulk soil (BS).ResultsOur results indicated that cultivation years significantly affect the soil microbiome’s diversity and community composition across different ecological niches. The BS microbiome experienced the largest effect, while the RS experienced the smallest. N6 showed a greater impact than N4. This effect was more pronounced on the fungal communities than the bacterial communities of various ecological niches and can be closely related to the soil’s physicochemical properties. In N4 soils, we observed an upward trend in both the number of ASVs (amplicon sequence variations) and the diversity of soil microbial taxa across various ecological niches. In N4RP, the bacteria Sphingomonas, known for degrading toxic soil compounds, was present. All ecological niches in N4 showed significant enrichment of Tetracladium fungi, positively associated with crop yield (N4RP at 6.41%, N4RS at 11.31%, and N4BS at 3.45%). In N6 soils, we noted a stark decline in fungal diversity within the BS, with a 57.5% reduction in ASVs. Moreover, Sphingomonas was abundantly present in N6RS and N6BS soils. The relative abundance of the pathogen-inhibiting fungus Exophiala in N6RP and N6RS reached 34.18% and 13.71%, respectively, marking increases of 4.9-fold and 7.7-fold. Additionally, another pathogeninhibiting fungus, Humicola, showed significant enrichment in N6BS, with a 7.5-fold increase. The phenolic acid-producing fungus Pseudogymnoascus in N6RP, N6RS, and N6BS showed increases of 2.41-fold, 2.55-fold, and 4.32-fold, respectively. We hypothesize that functional genes related to the metabolism of terpenoids and polyketides, as well as signaling molecules and interactions, regulate soil microbial taxa in ginseng from different cultivation years.DiscussionIn conclusion, our study enhances understanding of plant-microbe interactions and aids the sustainable development of medicinal plants, particularly by addressing ginseng succession disorder.

show abstract

“…Atmospheric N deposition leads to N enrichment in soil, inducing changes in plant growth and soil biological activity, thereby affecting global carbon (C) and N cycling (Püspök et al, 2023 ). Nitrogen deposition affects soil C cycle functional genes more than N cycle functional genes (Li et al, 2022b ; Hagh-Doust et al, 2023 ). It is reported that N deposition increased the relative abundance of genes related to labile C degradation, on the contrary, the relative abundance of functional genes related to degradation of more recalcitrant C did not change or decrease (Ma et al, 2022 ).…”

Section: Introductionmentioning

confidence: 99%

Metagenomics reveals the response of desert steppe microbial communities and carbon-nitrogen cycling functional genes to nitrogen deposition

Ye,

Zhao,

et al. 2024

Front. Microbiol.

View full text Add to dashboard Cite

IntroductionNitrogen (N) deposition seriously affects the function of carbon (C) and N cycling in terrestrial ecosystems by altering soil microbial communities, especially in desert steppe ecosystems. However, there is a need for a comprehensive understanding of how microorganisms involved in each C and N cycle process respond to N deposition.MethodsIn this study, shotgun metagenome sequencing was used to investigate variations in soil C and N cycling-related genes in the desert steppe in northern China after 6 years of the following N deposition: N0 (control); N30 (N addition 30 kg ha−1 year−1): N50 (N addition 50 kg ha−1 year−1).ResultsN deposition significantly increased the relative abundance of Actinobacteria (P < 0.05) while significantly decreased the relative abundances of Proteobacteria and Acidobacteria (P < 0.05). This significantly impacted the microbial community composition in desert steppe soils. The annual addition or deposition of 50 kg ha−1 year−1 for up to 6 years did not affect the C cycle gene abundance but changed the C cycle-related microorganism community structure. The process of the N cycle in the desert steppe was affected by N deposition (50 kg ha−1 year−1), which increased the abundance of the pmoA-amoA gene related to nitrification and the nirB gene associated with assimilation nitrite reductase. There may be a niche overlap between microorganisms involved in the same C and N cycling processes.DiscussionThis study provides new insights into the effects of N deposition on soil microbial communities and functions in desert steppe and a better understanding of the ecological consequences of anthropogenic N addition.

show abstract

Effects of nitrogen deposition on carbon and nutrient cycling along a natural soil acidity gradient as revealed by metagenomics

Cited by 18 publications

References 112 publications

Exogenous Selenium Endows Salt-Tolerant and Salt-Sensitive Soybeans with Salt Tolerance through Plant-Microbial Coactions

Exogenous Selenium Endows Salt-Tolerant and Salt-Sensitive Soybeans with Salt Tolerance through Plant-Microbial Coactions

Influence of cultivation duration on microbial taxa aggregation in Panax ginseng soils across ecological niches

Metagenomics reveals the response of desert steppe microbial communities and carbon-nitrogen cycling functional genes to nitrogen deposition

Contact Info

Product

Resources

About