Impact of Land Use on Bacterial Diversity and Community Structure in Temperate Pine and Indigenous Forest Soils

Soil microbial communities are an important part of ecosystems that possess the capability to improve ecosystem services; however, several aspects of the ecology of forest soil bacterial communities are still unknown. Here, we investigated the impact of land-use change on soil bacterial communities and the soil characteristics. High-throughput sequencing was used to ascertain the bacterial diversity and canonical correspondence analysis was used to determine relationships between the bacterial communities and environmental variables. Our results show spatial heterogeneity in the distribution of the microbial communities and significant relationships between the microbes and soil characteristics (axis 1 of the canonical correspondence analysis (CCA) plot explained 64.55% of the total variance while axis 2 described 24.49%). Knowledge of this is essential as it has direct consequences for the functioning of the soil ecosystem.

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Neutral processes and high inter-annual turnover shape the assembly of soil bacterial communities in a Mediterranean watershed

10.1101/542076 ◽

2019 ◽

Author(s):

Myrto Tsiknia ◽

Stilianos Fodelianakis ◽

Nikolaos P. Nikolaidis ◽

Nikolaos V. Paranychianakis

Keyword(s):

Stochastic Processes ◽

Microbial Communities ◽

Bacterial Communities ◽

Ecosystem Functioning ◽

Soil Microbial Communities ◽

Soil Bacterial Communities ◽

Environmental Selection ◽

Mediterranean Landscapes ◽

Soil Bacterial ◽

Annual Turnover

AbstractThere is a renewed interest in recent years on the ecological processes (stochastic vs selective) driving the assembly of microbial communities. Such information could potentially improve our understanding on ecosystem functioning and resilience to disturbances, ecosystem response to environmental shifts, and adoption of sustainable soil management practices. Herein, employing a suite of existing methodologies, we show that stochastic processes have an important role on the assembly of soil bacterial communities at a Mediterranean watershed. Moreover, we document that the relative contribution of assembly processes varies over the years. The observed intensification of stochastic processes was accompanied by a decrease in the contribution of variable selection in favor of homogeneous selection and dispersal and this trend was only marginally affected by land use (natural vs agricultural lands) or soil depth. Our study also revealed a high inter-annual turnover of soil microbial communities that was likely stimulated by the weak environmental selection and the prevailing environmental conditions (drying-wetting cycles) in Mediterranean landscapes, implying potential impacts on ecosystem functioning and our ability to predict soil response to environmental shifts. Using nitrogen mineralization rate (NMR) as a representative function we document highly variable NMR over the sampling years, land uses and soil depths and lack of significant associations with the monitored environmental variables and individual taxa. In summary, our study provides novel insights on the organization and functioning of microbial communities at Mediterranean ecosystems and sets directions towards a more advanced understanding of the relationships among environmental factors, microbial community structure, and ecosystem functioning that could contribute to sustainable management of these severely degraded ecosystems.

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Soil characteristics more strongly influence soil bacterial communities than land-use type

FEMS Microbiology Ecology ◽

10.1111/j.1574-6941.2011.01192.x ◽

2011 ◽

Vol 79 (1) ◽

pp. 12-24 ◽

Cited By ~ 202

Author(s):

Eiko E. Kuramae ◽

Etienne Yergeau ◽

Lina C. Wong ◽

Agata S. Pijl ◽

Johannes A. Veen ◽

...

Keyword(s):

Land Use ◽

Bacterial Communities ◽

Soil Characteristics ◽

Land Use Type ◽

Soil Bacterial Communities ◽

Soil Bacterial

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Changes in soil bacterial communities, and carbon and nitrogen metrics as potential indicators of land use effects in a humid tropical forest

Pedobiologia ◽

10.1016/j.pedobi.2021.150730 ◽

2021 ◽

Vol 85-86 ◽

pp. 150730

Author(s):

William D. Eaton ◽

Katie M. McGee ◽

Morgan Larimer ◽

Elizabeth Hoke ◽

Olivia Karas ◽

...

Keyword(s):

Land Use ◽

Tropical Forest ◽

Bacterial Communities ◽

Carbon And Nitrogen ◽

Soil Bacterial Communities ◽

Land Use Effects ◽

Humid Tropical Forest ◽

Soil Bacterial

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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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Impact of Maize–Mushroom Intercropping on the Soil Bacterial Community Composition in Northeast China

Agronomy ◽

10.3390/agronomy10101526 ◽

2020 ◽

Vol 10 (10) ◽

pp. 1526

Author(s):

Xiaoqin Yang ◽

Yang Wang ◽

Luying Sun ◽

Xiaoning Qi ◽

Fengbin Song ◽

...

Keyword(s):

Bacterial Communities ◽

Northeast China ◽

Management Practice ◽

Bacterial Community Composition ◽

Soil Microbial Communities ◽

Chemical Properties ◽

Crop Productivity ◽

Rrna Gene ◽

Soil Bacterial Communities ◽

Soil Bacterial

Conservative agricultural practices have been adopted to improve soil quality and maintain crop productivity. An efficient intercropping of maize with mushroom has been developed in Northeast China. The objective of this study was to evaluate and compare the effects of planting patterns on the diversity and structure of the soil bacterial communities at a 0–20 cm depth in the black soil zone of Northeast China. The experiment consisted of monoculture of maize and mushroom, and intercropping in a split-plot arrangement. The characteristics of soil microbial communities were performed by 16S rRNA gene amplicom sequencing. The results showed that intercropping increased soil bacterial richness and diversity compared with maize monoculture. The relative abundances of Acidobacteria, Chloroflexi, Saccharibacteria and Planctomycetes were significantly higher, whereas Proteobacteria and Firmicutes were lower in intercropping than maize monoculture. Redundancy analysis suggested that pH, NO3−-N and NH4+-N contents had a notable effect on the structure of the bacterial communities. Moreover, intercropping significantly increased the relative abundance of carbohydrate metabolism pathway functional groups. Overall, these findings demonstrated that intercropping of maize with mushroom strongly impacts the physical and chemical properties of soil as well as the diversity and structure of the soil bacterial communities, suggesting this is a sustainable agricultural management practice in Northeast China.

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The Influence of Land Use Patterns on Soil Bacterial Community Structure in the Karst Graben Basin of Yunnan Province, China

Forests ◽

10.3390/f11010051 ◽

2019 ◽

Vol 11 (1) ◽

pp. 51 ◽

Cited By ~ 1

Author(s):

Jiangmei Qiu ◽

Jianhua Cao ◽

Gaoyong Lan ◽

Yueming Liang ◽

Hua Wang ◽

...

Keyword(s):

Land Use ◽

Surface Layer ◽

Bacterial Community ◽

Bacterial Communities ◽

Yunnan Province ◽

Soil Bacterial Community ◽

Land Use Patterns ◽

Use Patterns ◽

Soil Bacterial Communities ◽

Soil Bacterial

Land use patterns can change the structure of soil bacterial communities. However, there are few studies on the effects of land use patterns coupled with soil depth on soil bacterial communities in the karst graben basin of Yunnan province, China. Consequently, to reveal the structure of the soil bacterial community at different soil depths across land use changes in the graben basins of the Yunnan plateau, the relationship between soil bacterial communities and soil physicochemical properties was investigated for a given area containing woodland, shrubland, and grassland in Yunnan province by using next-generation sequencing technologies coupled with soil physicochemical analysis. Our results indicated that the total phosphorus (TP), available potassium (AK), exchangeable magnesium (E-Mg), and electrical conductivity (EC) in the grassland were significantly higher than those in the woodland and shrubland, yet the total nitrogen (TN) and soil organic carbon (SOC) in the woodland were higher than those in the shrubland and grassland. Proteobacteria, Verrucomicrobia, and Acidobacteria were the dominant bacteria, and their relative abundances were different in the three land use types. SOC, TN, and AK were the most important factors affecting soil bacterial communities. Land use exerts strong effects on the soil bacterial community structure in the soil’s surface layer, and the effects of land use attenuation decrease with soil depth. The nutrient content of the soil surface layer was higher than that of the deep layer, which was more suitable for the survival and reproduction of bacteria in the surface layer.

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Land-use system shapes soil bacterial communities in Southeastern Amazon region

Applied Soil Ecology ◽

10.1016/j.apsoil.2015.06.005 ◽

2015 ◽

Vol 95 ◽

pp. 151-160 ◽

Cited By ~ 52

Author(s):

Lucas William Mendes ◽

Maria Julia de Lima Brossi ◽

Eiko Eurya Kuramae ◽

Siu Mui Tsai

Keyword(s):

Land Use ◽

Bacterial Communities ◽

Amazon Region ◽

Soil Bacterial Communities ◽

Land Use System ◽

Soil Bacterial

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Changes in Diversity, Abundance, and Structure of Soil Bacterial Communities in Brazilian Savanna Under Different Land Use Systems

Microbial Ecology ◽

10.1007/s00248-013-0235-y ◽

2013 ◽

Vol 66 (3) ◽

pp. 593-607 ◽

Cited By ~ 54

Author(s):

Pabulo Henrique Rampelotto ◽

Adão de Siqueira Ferreira ◽

Anthony Diego Muller Barboza ◽

Luiz Fernando Wurdig Roesch

Keyword(s):

Land Use ◽

Bacterial Communities ◽

Brazilian Savanna ◽

Land Use Systems ◽

Soil Bacterial Communities ◽

Soil Bacterial

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Activation of the SA-Associated Plant Defense Pathway Alters the Composition of Soil Bacterial Communities

10.21203/rs.3.rs-159617/v1 ◽

2021 ◽

Author(s):

Jing Zhang ◽

Peter G.L. Klinkhamer ◽

Klaas Vrieling ◽

T. Martijn Bezemer

Keyword(s):

Plant Growth ◽

Microbial Communities ◽

Signaling Pathway ◽

Bacterial Communities ◽

Rhizosphere Soil ◽

Soil Microbial Communities ◽

Core Microbiome ◽

Soil Microbial ◽

Soil Bacterial ◽

Sa Signaling

Abstract Background and aimsMany plant species grow better in sterilized than in live soil. Foliar application of SA mitigates this negative effect of live soil on the growth of the plant Jacobaea vulgaris. To examine what causes the positive effect of SA application on plant growth in live soils, we analyzed the effects of SA application on the composition of active rhizosphere bacteria in the live soil. Methods We studied this over four consecutive plant cycles (generations), using mRNA sequencing of the microbial communities in the rhizosphere of J. vulgaris. ResultsOur study shows that the composition of the rhizosphere bacterial communities of J. vulgaris greatly differed among generations. Application of SA resulted in both increases and decreases in a number of active bacterial genera in the rhizosphere soil, but the genera that were affected by the treatment differed among generations. In the first generation, there were no genera that were significantly affected by the SA treatment, indicating that induction of the SA defense pathway in plants does not lead to immediate changes in the soil microbial community. 89 species out of the total 270 (32.4%) were present in all generations in all soils of SA-treated and control plants suggesting that these make up the “core” microbiome. On average in each generation, 72.9% of all genera were present in both soils. Application of SA to plants significantly up-regulated genera of Caballeronia, unclassified Cytophagaceae, Crinalium and Candidatus Thermofonsia Clade 2, and down-regulated genera of Thermomicrobiales, unclassified Rhodobacterales, Paracoccus and Flavihumibacter. While the functions of many of these bacteria are poorly understood, bacteria of the genus Caballeronia play an important role in fixing nitrogen and promoting plant growth, and hence this suggests that activation of the SA signaling pathway in J. vulgaris plants may select for bacterial genera that are beneficial to the plant. ConclusionsOverall, our study shows that aboveground activation of defenses in the plant affects soil microbial communities and, as soil microbes can greatly influence plant performance, this implies that induction of plant defenses can lead to complex above-belowground feedbacks. Further studies should examine how activation of the SA signaling pathway in the plant changes the functional genes of the rhizosphere soil bacterial community.

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