Search results for "soil microbial"

Re-Clustering tool using an Open-Reference method that improves OTU definition

2019

International audience; 1.Environmental microbial communities are now widely studied using metabarcoding approaches, thanks to the democratization of high‐throughput DNA sequencing technologies. The massive number of reads produced with these technologies requires bioinformatic solutions to be treated. A key step in the analysis is to cluster reads into Operational Taxonomic Units (or OTUs) and thus reduce the amount of data for downstream analyses. Due to the important impact of the clustering method on the quantity and quality of OTUs, finding an equilibrium between the reliability and time‐consuming nature of the chosen strategy is a real challenge. The present article proposes a new pos…

Effects of the introduction of a biocontrol strain of Trichoderma atroviride on non target soil micro-organisms

2009

International audience; The main objective of this study was to assess the impact of the application of an antagonistic strain of Trichoderma atroviride on the native microbial soil communities. The structures of the fungal and bacterial communities were assessed by T-RFLP (terminal restriction fragment length polymorphism) method, based on T-RFLP analysis of 18S and 16S rRNA genes, respectively. Results showed that the introduction of the strain I-1237 into two soils slightly modified the microbial diversity, only for a short period of time. Nine months post-inoculation resilience took place, resulting in similar structures of the fungal and bacterial communities in the inoculated and cont…

From wastes to resources: citrus hydrolatesas natural biostimulants of soil microorganisms

The hydrolates result from the industrial extraction process of the essential oils through cold pressing of the citrus peels. Today, they are considered a waste to be disposed of. However, due to the presence of water soluble compounds (sugars, polyphenols, acids), hydrolates could be reused instead of being, due to the high economic burden, a problem in the disposal of the same, charged to the company.The aim of this work was to evaluate the effects of citrus hydrolate when directly applied as irrigation water on soil microbial biomass, activity and structure community. The soil used for the experiment was collected from the topsoil (0-10 cm) of a citrus orchard, air-dried and sieved at 2 …

Soil Quality as Affected by Intensive Versus Conservative Agricultural Managements

2017

Soils, the earth’s skin, are at the intersection of the lithosphere, hydrosphere, atmosphere, and biosphere. The persistence of life on our planet depends on the maintenance of soils as they constitute the biological engines of earth. Human population has increased exponentially in recent decades, along with the demand for food, materials, and energy, which have caused a shift from low-yield and subsistence agriculture to a more productive, high-cost, and intensive agriculture. However, soils are very fragile ecosystems and require centuries for their development, thus within the human timescale they are not renewable resources. Modern and intensive agriculture implies serious concern about…

A spatially explicit model to simulate soil microbial communities’ dynamics at an agricultural landscape scale

2021

Soil microorganisms play a major role in soil functions and are an efficient indicator to evaluate the impact of agricultural practices on soil quality. Biogeographical studies over wide scales ranging from landscape to countries have concluded that soil microbial abundance and soil prokaryotic richness is following a heterogeneous distribution in space under the dependence of soil properties (e.g. pH, soil texture, organic matter content) and agricultural practices. The goal of this study is the creation of a model that can predict dynamics of soil microbial communities depending on the agricultural management over time. For this, we focus on a monitored landscape (Fénay landscape, 1.200 h…

A new tool to assess the ecotoxicological impact of β-triketone herbicides on soil microbial communities

2018

International audience; The β-triketone herbicides are post-emergence maize selective herbicides that have beenintroduced on the market, in replacement of atrazine, banned in Europe in 2004. Qualified as “eco-friendly”, since they are based on natural phytotoxin properties, these herbicides target an enzymeinvolved in carotenoid biosynthesis called 4-hydroxyphenylpyruvate dioxygenase (HPPD) encoded bythe hppd gene. The inhibition of this enzyme provokes bleaching symptoms, necrosis and death ofweeds.The hppd gene is not only find in eukaryotes such as plants, animals and humans but also inprokaryotes such as fungi, yeasts and bacteria. In recent studies, we showed that, within the soil bact…

Comparison of different tillage systems in organic farming : effect of soil structure and organic matter repartition on soil micro-organisms and thei…

2009

Over the last decades, the surface traditionally ploughed has tended to decrease and replaced by shallow working tillage techniques without soil inversion, i.e., no tillage or reduced tillage with tines or discs. These techniques were mostly developed in conventional farming systems but nowadays they are also developed in organic farming systems. Nevertheless, these tillage techniques could generate crop nutrients deficiencies and a deterioration of soil structure, especially during the first years of their application. As the use of synthetic fertilizers is forbidden in organic farming, a decrease of the soil fertility could be very detrimental for crop growth. Indeed, soil micro-organisms…

Innovative tools to diagnose the impact of land use practices on soil microbial communities

2018

International audience; Preservation and sustainable use of soil biological communities represent major challenges in the current agroecological context. Indeed, most of soil ecosystem services results from biological functions particularly driven by taxonomic and functional assemblages of microbiological communities (i.e. nutrient cycling, soil aggregation, depollution, etc.). Consequently, soil microbial communities are logical candidates as effective indicators of soil quality and sustainability. But, good biological indicators must be associated with references that encompass an operating range of measured values that allow performing the desired diagnosis. Even if numerous studies have…

Ecological role of mycotoxins produced by Fusarium graminearum : consequences of the presence of deoxynivalenol (DON) in crop residues on the soil mi…

2012

Fusarium graminearum is a plant pathogenic fungus, causing devastating disease “Fusarium head blight” (FHB) in cereals including wheat and maize. It also contaminates the grains with mycotoxins including deoxynivalenol (DON) which are toxic to human and animals. This disease has resulted in the serious losses in grain yield and quality. We established through a first bibliographic review that during off season fungus survives saprophytically on the crop residues (ecological habitat) and serves as primary inoculum for the next season crop. However, we noticed also that the literature was poor about the role mycotoxins could play in the establishment of F. graminearum in such a habitat. The m…

Effect of temperature on soil microbial structure and fractionation during C mineralisation

2008

International audience; Microbial carbon mineralization in soils leads to the production of different gaseous or dissolved components that have environmental impacts. Our study deals with the influence of soil temperature on the production of gaseous and dissolved carbon components during carbon mineralization in forest soils in France. After an incubation of soil samples for 42 days at 4 different temperatures, we determined both size and 13C isotopic signature of dissolved organic carbon and CO2 pools. We also characterised the soil microbial community structure (PLFA profiles). While temperature clearly increases the CO2 production, a low decrease of the dissolved organic carbon pool was…