scholarly journals Nitrogen and Sulfur Additions Improved the Diversity of nirK- and nirS-Type Denitrifying Bacterial Communities of Farmland Soil

Biology ◽  
2021 ◽  
Vol 10 (11) ◽  
pp. 1191
Author(s):  
Xuan Chen ◽  
Hui Wei ◽  
Jiaen Zhang
Keyword(s):  
Bacterial Communities ◽  
Ammonium Nitrogen ◽  
N2o Emissions ◽  
Soil Microbial Diversity ◽  
Soil Microbial ◽  
Farmland Soil ◽  
Long Time ◽  
Water Ph ◽  
Anthropogenic Nitrogen ◽  
Denitrifying Microorganisms

Anthropogenic nitrogen (N) and sulfur (S) deposition can change above- and belowground biodiversity, including soil microbial diversity. The diversity of denitrifying microorganisms is of great significance to the calculation of the global nitrogen cycle and nitrogen flux. For a long time, nirK and nirS have been used as the functional genes to study denitrifying microorganisms, and have gradually become molecular markers for studying the composition and diversity of denitrifying bacteria. Here, three-time exposures to N and S applications (7, 30, and 60 days), were independently established. Additionally, the abundance, diversity, and structure of nirK- and nirS-type denitrifying communities were examined by sequencing analyses in response to three treatments, namely, N and S (TN/S), sodium chloride (TNaCl) and deionized water (pH = 7.0) (CK). Our results suggest that TN/S led to higher electrical conductivity (EC), total nitrogen (TN), total organic carbon (TOC), nitrate nitrogen (NO3−-N), ammonium nitrogen (NH4+-N), and lower pH compared with TNaCl and CK, which affected the diversity of nirK- and nirS-type denitrifying bacterial communities. We also observed that the nirK-type denitrifying community demonstrated a higher sensitivity to N and S additions. Overall, our results are important for the understanding of nitrogen in soil and N2O emissions.

scholarly journals Analysis of Soil Fungal and Bacterial Communities in Tianchi Volcano Crater, Northeast China

Life ◽  
2021 ◽  
Vol 11 (4) ◽  
pp. 280
Author(s):  
Xiao Wang ◽  
Lorenzo Pecoraro
Keyword(s):  
High Altitude ◽  
Fungal Community ◽  
Bacterial Communities ◽  
Northeast China ◽  
Extreme Environments ◽  
Soil Microbial Diversity ◽  
Soil Microbial ◽  
Operational Taxonomic Units ◽  
Tianchi Volcano

High-altitude volcanoes, typical examples of extreme environments, are considered of particular interest in biology as a possible source of novel and exclusive microorganisms. We analyzed the crater soil microbial diversity of Tianchi Volcano, northeast China, by combining molecular and morphological analyses of culturable microbes, and metabarcoding based on Illumina sequencing, in order to increase our understanding of high-altitude volcanic microbial community structure. One-hundred and seventeen fungal strains belonging to 51 species and 31 genera of Ascomycota, Basidiomycota and Mucoromycota were isolated. Penicillium, Trichoderma, Cladosporium, Didymella, Alternaria and Fusarium dominated the culturable fungal community. A considerable number of isolated microbes, including filamentous fungi, such as Aureobasidium pullulans and Epicoccum nigrum, yeasts (Leucosporidium creatinivorum), and bacteria (Chryseobacterium lactis and Rhodococcus spp.), typical of high-altitude, cold, and geothermal extreme environments, provided new insights in the ecological characterization of the investigated environment, and may represent a precious source for the isolation of new bioactive compounds. A total of 1254 fungal and 2988 bacterial operational taxonomic units were generated from metabarcoding. Data analyses suggested that the fungal community could be more sensitive to environmental and geographical change compared to the bacterial community, whose network was characterized by more complicated and closer associations.

scholarly journals Soil fungal and bacterial communities in southern boreal forests of the Greater Khingan Mountains and their relationship with soil properties

2020 ◽  
Vol 10 (1) ◽  
Author(s):  
Thi-Minh-Dien Vuong ◽  
Jian-Yong Zeng ◽  
Xiu-Ling Man
Keyword(s):  
Boreal Forest ◽  
Soil Properties ◽  
Microbial Communities ◽  
Bacterial Communities ◽  
Boreal Forests ◽  
Soil Microbial Communities ◽  
Ammonium Nitrogen ◽  
Coniferous Forests ◽  
Soil Microbial ◽  
Explicit Correlation

AbstractLittle is known about the relationship between soil microbial communities and soil properties in southern boreal forests. To further our knowledge about that relationship, we compared the soil samples in southern boreal forests of the Greater Khingan Mountains—the southernmost boreal forest biome in the world. The forests can be divided into boardleaf forests dominated by birch (Betula platyphylla) or aspen (Populus davidiana) and coniferous forests dominated by larch (Larix gmelinii) or pine (Pinus sylvestris var. mongolica). Results suggested different soil microbial communities and soil properties between these southern boreal forests. Soil protease activity strongly associated with soil fungal communities in broadleaf and coniferous forests (p < 0.05), but not with soil bacterial communities (p > 0.05). Soil ammonium nitrogen and total phosphorus contents strongly associated with soil fungal and bacterial communities in broadleaf forests (p < 0.05), but not in coniferous forests (p > 0.05). Soil potassium content demonstrated strong correlations with both soil fungal and bacterial communities in broadleaf and coniferous forests (p < 0.05). These results provide evidence for different soil communities and soil properties in southern boreal forest, and further elucidate the explicit correlation between soil microbial communities and soil properties in southern boreal forests.

scholarly journals A Degeneration Gradient of Poplar Trees Contributes to the Taxonomic, Functional, and Resistome Diversity of Bacterial Communities in Rhizosphere Soils

2021 ◽  
Vol 22 (7) ◽  
pp. 3438
Author(s):  
Juan Liu ◽  
Xiangwei He ◽  
Jingya Sun ◽  
Yuchao Ma
Keyword(s):  
Soil Fertility ◽  
Microbial Diversity ◽  
Resistance Genes ◽  
Bacterial Communities ◽  
Rhizosphere Soil ◽  
Antibiotics Resistance ◽  
Plant Growth Promoting Bacteria ◽  
Soil Microbial Diversity ◽  
Antibiotic Target ◽  
And Function

Bacterial communities associated with roots influence the health and nutrition of the host plant. However, the microbiome discrepancy are not well understood under different healthy conditions. Here, we tested the hypothesis that rhizosphere soil microbial diversity and function varies along a degeneration gradient of poplar, with a focus on plant growth promoting bacteria (PGPB) and antibiotic resistance genes. Comprehensive metagenomic analysis including taxonomic investigation, functional detection, and ARG (antibiotics resistance genes) annotation revealed that available potassium (AK) was correlated with microbial diversity and function. We proposed several microbes, Bradyrhizobium, Sphingomonas, Mesorhizobium, Nocardioides, Variovorax, Gemmatimonadetes, Rhizobacter, Pedosphaera, Candidatus Solibacter, Acidobacterium, and Phenylobacterium, as candidates to reflect the soil fertility and the plant health. The highest abundance of multidrug resistance genes and the four mainly microbial resistance mechanisms (antibiotic efflux, antibiotic target protection, antibiotic target alteration, and antibiotic target replacement) in healthy poplar rhizosphere, corroborated the relationship between soil fertility and microbial activity. This result suggested that healthy rhizosphere soil harbored microbes with a higher capacity and had more complex microbial interaction network to promote plant growing and reduce intracellular levels of antibiotics. Our findings suggested a correlation between the plant degeneration gradient and bacterial communities, and provided insight into the role of high-turnover microbial communities as well as potential PGPB as real-time indicators of forestry soil quality, and demonstrated the inner interaction contributed by the bacterial communities.

scholarly journals Effects of Organic Fertilizers on the Soil Microorganisms Responsible for N2O Emissions: A Review

2021 ◽  
Vol 9 (5) ◽  
pp. 983
Author(s):  
Cristina Lazcano ◽  
Xia Zhu-Barker ◽  
Charlotte Decock
Keyword(s):  
Community Structure ◽  
Microbial Community ◽  
Best Management Practices ◽  
Management Practices ◽  
Organic Fertilizers ◽  
N2o Emissions ◽  
Soil C ◽  
Best Management ◽  
C Stocks ◽  
Denitrifying Microorganisms

The use of organic fertilizers constitutes a sustainable strategy to recycle nutrients, increase soil carbon (C) stocks and mitigate climate change. Yet, this depends largely on balance between soil C sequestration and the emissions of the potent greenhouse gas nitrous oxide (N2O). Organic fertilizers strongly influence the microbial processes leading to the release of N2O. The magnitude and pattern of N2O emissions are different from the emissions observed from inorganic fertilizers and difficult to predict, which hinders developing best management practices specific to organic fertilizers. Currently, we lack a comprehensive evaluation of the effects of OFs on the function and structure of the N cycling microbial communities. Focusing on animal manures, here we provide an overview of the effects of these organic fertilizers on the community structure and function of nitrifying and denitrifying microorganisms in upland soils. Unprocessed manure with high moisture, high available nitrogen (N) and C content can shift the structure of the microbial community, increasing the abundance and activity of nitrifying and denitrifying microorganisms. Processed manure, such as digestate, compost, vermicompost and biochar, can also stimulate nitrifying and denitrifying microorganisms, although the effects on the soil microbial community structure are different, and N2O emissions are comparatively lower than raw manure. We propose a framework of best management practices to minimize the negative environmental impacts of organic fertilizers and maximize their benefits in improving soil health and sustaining food production systems. Long-term application of composted manure and the buildup of soil C stocks may contribute to N retention as microbial or stabilized organic N in the soil while increasing the abundance of denitrifying microorganisms and thus reduce the emissions of N2O by favoring the completion of denitrification to produce dinitrogen gas. Future research using multi-omics approaches can be used to establish key biochemical pathways and microbial taxa responsible for N2O production under organic fertilization.

scholarly journals MicroMundo@UPorto: an experimental microbiology project fostering student's antimicrobial resistance awareness and personal and social development

2021 ◽  
Author(s):  
Patrícia Antunes ◽  
Carla Novais ◽  
Ângela Novais ◽  
Filipa Grosso ◽  
Teresa G Ribeiro ◽  
...  
Keyword(s):  
Antimicrobial Resistance ◽  
Service Learning ◽  
University Students ◽  
School Students ◽  
Socially Responsible ◽  
Soil Microbial Diversity ◽  
Soil Microbial ◽  
Societal Challenge ◽  
The One ◽  
Scientific Skills

Abstract Antimicrobial resistance (AMR) is a global societal challenge requiring the contribution of professionals along with general community citizens for their containment. Portugal is one of the European countries where a lack of knowledge on the correct use of antimicrobials and AMR problematic is preeminent. Moreover, youth demotivation to pursue science careers is emerging. To address these problems an innovative experimental service-learning pedagogical strategy, MicroMundo@UPorto, was implemented in Portugal during 2018 through University of Porto as a partner of the global Citizen Science project ‘Tiny Earth’ responding to the AMR crisis. In this first edition of MicroMundo@UPorto, university students (n = 41; Pharmaceutical Sciences and Nutrition Sciences) organized in eight teams tutored by university professors/researchers (n = 13) on Microbiology and AMR theoretical and practical aspects as well on communication skills to enable their guidance of younger school students (n = 140/3 schools) in experiments to discover antimicrobial-producing microorganisms while exploring the soil microbial diversity. Post-survey-based evaluation revealed that this project allowed university students to acquire diverse personal, social and scientific skills while increasing AMR awareness, in the One-Health perspective, and interest for science in school students. This University to Society approach can be successfully extended across Portugal and for education in Microbiology in general, with benefits for the future generations contributing to socially responsible and scientifically-literate citizens.

scholarly journals Improvement of Soil Microbial Diversity through Sustainable Agricultural Practices and Its Evaluation by -Omics Approaches: A Perspective for the Environment, Food Quality and Human Safety

2021 ◽  
Vol 9 (7) ◽  
pp. 1400
Author(s):  
Marta Bertola ◽  
Andrea Ferrarini ◽  
Giovanna Visioli
Keyword(s):  
Microbial Diversity ◽  
Food Quality ◽  
Plant Biomass ◽  
Soil Microbial Communities ◽  
Well Being ◽  
Plant Health ◽  
Soil Microbiome ◽  
Soil Microbial Diversity ◽  
Soil Biodiversity ◽  
Soil Microbial

Soil is one of the key elements for supporting life on Earth. It delivers multiple ecosystem services, which are provided by soil processes and functions performed by soil biodiversity. In particular, soil microbiome is one of the fundamental components in the sustainment of plant biomass production and plant health. Both targeted and untargeted management of soil microbial communities appear to be promising in the sustainable improvement of food crop yield, its nutritional quality and safety. –Omics approaches, which allow the assessment of microbial phylogenetic diversity and functional information, have increasingly been used in recent years to study changes in soil microbial diversity caused by agronomic practices and environmental factors. The application of these high-throughput technologies to the study of soil microbial diversity, plant health and the quality of derived raw materials will help strengthen the link between soil well-being, food quality, food safety and human health.

scholarly journals Soil microbial diversity–biomass relationships are driven by soil carbon content across global biomes

2021 ◽  
Author(s):  
Felipe Bastida ◽  
David J. Eldridge ◽  
Carlos García ◽  
G. Kenny Png ◽  
Richard D. Bardgett ◽  
...  
Keyword(s):  
Microbial Diversity ◽  
Soil Carbon ◽  
Soil Microbial Communities ◽  
Ecosystem Functions ◽  
Arid Environments ◽  
Soil Microbial Diversity ◽  
Soil Biodiversity ◽  
Soil C ◽  
Soil Microbial ◽  
Biomass Ratio

AbstractThe relationship between biodiversity and biomass has been a long standing debate in ecology. Soil biodiversity and biomass are essential drivers of ecosystem functions. However, unlike plant communities, little is known about how the diversity and biomass of soil microbial communities are interlinked across globally distributed biomes, and how variations in this relationship influence ecosystem function. To fill this knowledge gap, we conducted a field survey across global biomes, with contrasting vegetation and climate types. We show that soil carbon (C) content is associated to the microbial diversity–biomass relationship and ratio in soils across global biomes. This ratio provides an integrative index to identify those locations on Earth wherein diversity is much higher compared with biomass and vice versa. The soil microbial diversity-to-biomass ratio peaks in arid environments with low C content, and is very low in C-rich cold environments. Our study further advances that the reductions in soil C content associated with land use intensification and climate change could cause dramatic shifts in the microbial diversity-biomass ratio, with potential consequences for broad soil processes.

The influence of weather conditions on mid-field ponds situated in a reclaimed area in Sępopolska Plain

2010 ◽  
Vol 39 (1) ◽  
Author(s):  
Ireneusz Cymes ◽  
Iwona Cymes ◽  
Ewa Dragańska ◽  
Sławomir Szymczyk
Keyword(s):  
Weather Conditions ◽  
Negative Influence ◽  
Ammonium Nitrogen ◽  
Water Evaporation ◽  
Atmospheric Conditions ◽  
Natural Reservoir ◽  
Quality Of Water ◽  
Water Ph ◽  
Chlorine Ions ◽  
Agricultural Areas

The influence of weather conditions on mid-field ponds situated in a reclaimed area in Sępopolska PlainThe investigations were conducted in northeastern Poland near Lidzbark Warmiński (54° 08" N, 20° 36" E). Five mid-field ponds situated on grasslands were chosen: four of them were dredged and deepened, and one of them remained as a natural reservoir. The aim of this paper was to assess the influence of weather conditions on the quantity and quality of water in mid-field ponds situated in agricultural areas. It was found that the quantity of water in mid-field ponds was related much more to the air temperature, which was responsible for either water evaporation or snow melting, rather than to the amount of precipitation. The reduction in the volume of water stored in the ponds during very dry years had a negative influence on its quality. During the observation period, the dredged ponds were characterized by permanent water tables, whereas the natural reservoir dried out in very dry years. Atmospheric conditions influenced the concentrations of ammonium nitrogen and calcium and chlorine ions in the studied water bodies. The volume of water retained in mid-field ponds influenced the concentrations of phosphorus and sulphates. Increased precipitation sums caused lower water pH; however in warmer periods, at increased pH and COD

scholarly journals Nutrient, pH, Alkalinity, and Ionic Property Levels in Runoff Containment Basins in Alabama, Louisiana, Maryland, Mississippi, and Virginia Ornamental Plant Nurseries

HortScience ◽  
2017 ◽  
Vol 52 (4) ◽  
pp. 641-648 ◽  
Author(s):  
Warren E. Copes ◽  
Haibo Zhang ◽  
Patricia A. Richardson ◽  
Bruk E. Belayneh ◽  
Andrew Ristvey ◽  
...  
Keyword(s):  
Water Quality ◽  
Ammonium Nitrogen ◽  
Quality Parameter ◽  
Ornamental Plant ◽  
Total Alkalinity ◽  
Water Quality Parameter ◽  
Runoff Water ◽  
Manganese Zinc ◽  
Water Ph ◽  
Parameter Values

Nine runoff containment basins (RCBs), used directly or indirectly for irrigating plants in ornamental plant nurseries, and one adjacent stream were sampled for water quality between Feb. and July 2013 in Maryland (MD), Mississippi (MS), and Virginia (VA). Triplicate water samples were taken monthly. Analysis was done for 18 water quality variables including nitrate-nitrogen (NO3−-N) and ammonium-nitrogen (NH4+-N), orthophosphate-phosphorus (PO4-P) and total-phosphorus (T-P), potassium, calcium, magnesium, sulfur, aluminum, boron (B), copper (Cu), iron (Fe), manganese, zinc (Zn), pH, total alkalinity (T-Alk), electrical conductivity (EC), and sodium. Additionally, 15 RCBs from 10 nurseries in Alabama (AL), Louisiana (LA), and MS were sampled in 2014 and 2016. Most prevalent correlations (P = 0.01) were between macronutrients, EC, B, Fe, and Zn, but none were prevalent across a majority of RCBs. Water quality parameter values were mostly present at low to preferred levels in all 25 waterways. Macronutrient levels were highest for a RCB that receives fertility from fertigation derived runoff. Water pH ranged from acidic to alkaline (>8). Results of this study show water quality in RCBs can be suitable for promoting plant health in ornamental plant nurseries, but also shows levels will vary between individual RCBs, therefore demonstrates need to verify water quality from individual water sources.

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