Auteurs, date et publication :
Auteurs Chun‐Wei Chang , Hao Ye , Takeshi Miki , Ethan R. Deyle , Sami Souissi , Orlane Anneville , Rita Adrian , Yin‐Ru Chiang , Satoshi Ichise , Michio Kumagai , Shin‐ichiro S. Matsuzaki , Fuh‐Kwo Shiah , Jiunn‐Tzong Wu , Chih‐hao Hsieh , George Sugihara
Publication : Global Change Biology
Date : 2025
Volume : 26
Issue : 11
Pages : 6413-6423
Catégorie(s)
#INRAE #OLAAuteurs, date et publication :
Auteurs Stéphane Pesce , Olivier Perceval , Chloé Bonnineau , Carmen Casado-Martinez , Aymeric Dabrin , Emilie Lyautey , Emmanuel Naffrechoux , Benoit J.D. Ferrari
Publication : Environmental Science and Pollution Research
Date : 2025
Volume : 25
Issue : 1
Pages : 970-974
Catégorie(s)
#BiochemEnv #INRAEAuteurs, date et publication :
Auteurs Nathalie Lécrivain , Victor Frossard , Emmanuel Naffrechoux , Bernard Clément
Publication : Polycyclic Aromatic Compounds
Date : 2021
Volume : 41
Issue : 5
Pages : 950-962
Catégorie(s)
#INRAE #OLARésumé
The occurrence of Pseudomonas aeruginosa was monitored at a broad spatial scale in French agricultural soils, from various soil types and under various land uses to evaluate the ability of soil to be a natural habitat for that species. To appreciate the impact of agricultural practices on the potential dispersion of P. aeruginosa, we further investigated the impact of organic amendment at experimental sites in France and Burkina Faso. A real-time quantitative PCR (qPCR) approach was used to analyze a set of 380 samples selected within the French RMQS (“Réseau de Mesures de la Qualité des Sols”) soil library. In parallel, a culture-dependent approach was tested on a subset of samples. The results showed that P. aeruginosa was very rarely detected suggesting a sporadic presence of this bacterium in soils from France and Burkina Faso, whatever the structural and physico-chemical characteristics or climate. When we analyzed the impact of organic amendment on the prevalence of P. aeruginosa, we found that even if it was detectable in various manures (at levels from 103 to 105 CFU or DNA targets (g drywt)−1 of sample), it was hardly ever detected in the corresponding soils, which raises questions about its survival. The only case reports were from a vineyard soil amended with a compost of mushroom manure in Burgundy, and a few samples from two fields amended with raw urban wastes in the sub-urban area of Ouagadougou, Burkina Faso. In these soils the levels of culturable cells were below 10 CFU (g drywt)−1.
Auteurs, date et publication :
Auteurs Amélie Deredjian , Céline Colinon , Edmond Hien , Elisabeth Brothier , Benjamin Youenou , Benoit Cournoyer , Samuel Dequiedt , Alain Hartmann , Claudy Jolivet , Sabine Houot , Lionel Ranjard , Nicolas P. A. Saby , Sylvie Nazaret
Publication : Frontiers in Cellular and Infection Microbiology
Date : 2014
Volume : 4
Catégorie(s)
#Genosol #INRAE #PRO #PRO ColmarRésumé
Intra- and interannual variability of precipitation can lead to major modifications of grassland production and carbon storage capacity. Greater understanding of how climatic variability affects net CO2 exchange [i.e. net ecosystem exchange (NEE)] of grazed grasslands is important to adapt grassland management and reduce risks of carbon losses. Since 2002, we continuously measured NEE (i.e. eddy covariance technique) on an upland grassland site (7 ha), divided in two paddocks grazed by heifers (intensive: 1 LSU ha−1 yr−1, 213 kg N ha−1 yr−1 and extensive: 0.5 LSU ha−1 yr−1, no fertilization). For years with dry and warm growing seasons (i.e. 2003, 2005 and 2008), absolute annual NEE was higher in the intensive paddock compared with the extensive paddock. The opposite was observed during years of ample seasonal rainfall and soil moisture (i.e. 2004, 2006 and 2007). Contrasted management led to two distinct plant communities being different in leaf area index (LAI), soil bulk density and soil water holding capacity. Differences in annual NEEs could thus be assigned to interactions between in carbon and water fluxes during dry and wet growth periods. Dry growth periods led to a reduction in weekly gross primary productivity (GPP) in the extensively managed paddock, whereas the GPP was maintained in the intensive paddock. In turn, during wet growth periods, GPP was similar in both paddocks, whereas N amendment and frequent defoliation significantly increased ecosystem respiration in the intensive paddock, presumably through a higher heterotrophic respiration following on a better C substrate quality and availability (rhizodeposition and senescent fine roots). In the extensive paddock, where plant cover was denser (reducing soil temperature) and less decomposable, C losses through heterotrophic respiration were comparatively smaller under wet conditions. Our results demonstrate that grassland subjected to a moderately intensive management could be more resilient in terms of carbon storage during drought and heat waves, presumably because of a trade-off between heterotrophic and autotrophic respiration.
Auteurs, date et publication :
Auteurs Katja Klumpp , Tiphaine Tallec , Noëlle Guix , Jean-François Soussana
Publication : Global Change Biology
Date : 2025
Volume : 17
Issue : 12
Pages : 3534-3545
Catégorie(s)
#ACBB #ACBB Theix #INRAERésumé
As a result of the limited knowledge on eluviation/illuviation and bioturbation rates, these two processes of soil particles translocation are qualitatively described either as synergic or competing processes. Here we take the opportunity of the recent development of an image analysis procedure to quantify illuvial clay and earthworm’s porosity to quantify the intensity of illuviation and bioturbation cumulated over soil formation in a temperate cultivated Luvisol. The key objectives of the study are i) to quantify the total intensity of illuviation and bioturbation and their depth distributions and ii) to assess the possibility for bioturbation to limit or compensate the depletion of the clay-sized fraction in topsoil horizons due to eluviation. The total quantity of illuvial clay is 1,100 t.ha−1 while the estimated annual amount of clay-sized fraction translocated by eluviation is between 0.08 and 1 t ha−1 yr−1. This is comparable to the annual loss of land by water erosion (between 1 and 5 t ha−1 yr−1) or by arable erosion (3.3 t ha−1 yr−1). Eluviation/illuviation is thus a discrete and active form of soil loss. With approximately 1,900 t.ha−1 of clay-sized fraction, the amount of fine particles displaced at least once by bioturbation is higher than the one related to eluviation/illuviation. At first sight, it therefore seems possible for biological activity to compensate for vertical transfers of the clay-sized fraction by eluviation/illuviation. However, our study shows that a considerable amount of the clay-sized fraction will never be brought up by the bioturbation and will remain definitively lost for the surface horizons as bioturbation decreases non-linearly with depth. Consequently, a preventive management of the depletion of the clay-sized fraction in topsoil horizons by eluviation/illuviation should be preferred to the curative management of its consequences by bioturbation.
Auteurs, date et publication :
Auteurs Ophélie Sauzet , Cécilia Cammas , Jean-Marc Gilliot , David Montagne
Publication : Geoderma
Date : 2023
Volume : 429
Pages : 116251
Catégorie(s)
#INRAE #PRO #PRO QualiAgroRésumé
Liming is a known forest management procedure used to amend nutrient-poor soils such as soils of acidic forests to rectify cation deficiencies and to restore soil pH. However, although this procedure is well known for its beneficial effect on the forest trees, its relative impact on the functional and taxonomic diversity of the soil bacterial communities has been poorly investigated. In this study, we characterized the ability of the soil bacteria to weather soil minerals and to hydrolyze chitin. A collection of 80 bacterial strains was isolated from the Scleroderma citrinum ectomycorrhizosphere and the adjacent bulk soil in two stands of mature beeches (Fagus sylvatica) developed on very acidic soil and presenting two levels of calcium (Ca) availability: a control plot as well as a plot amended with Ca in 1973. All the bacterial isolates were identified by partial 16S rRNA gene sequence analysis as members of the genera Burkholderia, Bacillus, Dyella, Kitasatospora, Micrococcus, Paenibacillus, Pseudomonas, and Rhodanobacter. Using a microplate assay for quantifying the production of protons and the quantity of iron released from biotite, we demonstrated that the bacterial strains from the amended plot harbored a significant higher mineral weathering potential that the ones isolated from the control plot. Notably, the weathering efficacy of the ectomycorrhizosphere bacterial isolates was significantly greater than that of the bulk soil isolates in the control treatment but not in the amended plot. These data reveal that forest management, here mineral amendment, can strongly affect the structure of bacterial communities even over the long term. (C) 2011 Elsevier Ltd. All rights reserved.
Auteurs, date et publication :
Auteurs S. Uroz , M. -P. Turpault , L. Van Scholl , B. Palin , P. Frey-Klett
Publication : Soil Biology and Biochemistry
Date : 2011
Volume : 43
Issue : 11
Pages : 2275-2282
Catégorie(s)
#FORET Breuil #INRAEAuteurs, date et publication :
Auteurs Hilary A. Dugan , Jamie C. Summers , Nicholas K. Skaff , Flora E. Krivak-Tetley , Jonathan P. Doubek , Samantha M. Burke , Sarah L. Bartlett , Lauri Arvola , Hamdi Jarjanazi , János Korponai , Andreas Kleeberg , Ghislaine Monet , Don Monteith , Karen Moore , Michela Rogora , Paul C. Hanson , Kathleen C. Weathers
Publication : Scientific Data
Date : 2017
Volume : 4
Pages : 170101
Catégorie(s)
#Ecoinfo #INRAE #OLARésumé
Assessing the extent to which changes in lacustrine biodiversity are affected by anthropogenic or climatic forces requires extensive palaeolimnological data. We used high-throughput sequencing to generate time-series data encompassing over 2200 years of microbial eukaryotes (protists and Fungi) diversity changes from the sedimentary DNA record of two lakes (Lake Bourget in French Alps and Lake Igaliku in Greenland). From 176 samples, we sequenced a large diversity of microbial eukaryotes, with a total 16 386 operational taxonomic units distributed within 50 phylogenetic groups. Thus, microbial groups, such as Chlorophyta, Dinophyceae, Haptophyceae and Ciliophora, that were not previously considered in lacustrine sediment record analyses appeared to be potential biological markers of trophic status changes. Our data suggest that shifts in relative abundance of extant species, including shifts between rare and abundant taxa, drive ecosystem responses to local and global environmental changes. Community structure shift events were concomitant with major climate variations (more particularly in Lake Igaliku). However, this study shows that the impacts of climatic fluctuations may be overpassed by the high-magnitude eutrophication impacts, as observed in the eutrophicated Lake Bourget. Overall, our data show that DNA preserved in sediment constitutes a precious archive of information on past biodiversity changes.
Auteurs, date et publication :
Auteurs Eric Capo , Didier Debroas , Fabien Arnaud , Typhaine Guillemot , Vincent Bichet , Laurent Millet , Emilie Gauthier , Charly Massa , Anne-Lise Develle , Cécile Pignol , Franck Lejzerowicz , Isabelle Domaizon
Publication : Molecular Ecology
Date : 2025
Volume : 25
Issue : 23
Pages : 5925-5943
Catégorie(s)
#INRAE #OLARésumé
Most forest ecosystems grow on acid and nutrient poor soils. In many cases, a slow degradation of forest soil chemical fertility due to increasing external pressures (decreasing atmospheric inputs, intensification of biomass harvesting and silvicultural practices) has been observed and is a growing concern in the international forest community. When the pressure endured by low fertility forest ecosystems is too intense, nutrient losses and ecosystem function losses may occur, forest decline being the ultimate stage of this process. In such cases, forest liming with a carbonate product is a solution to restore soil fertility and reduce soil acidity, globally improve the ecosystem functioning and compensate for nutrient losses caused by biomass harvest and exportation. However, the effects of liming on ecosystem processes and the biogeochemical cycling of nutrients in forest ecosystems are still unclear. We studied the dynamics of magnesium and calcium originating from the dissolution of liming products in the different compartments (organic and mineral soil layers and, aboveground biomass) of five long-term (20 to 40 years) monitoring beech (Fagus sylvatica L.) plots located in Northern France from ecosystem magnesium and calcium budgets. Compared to the control plots, soil exchangeable pools of Mg and Ca in the 0-15 cm mineral soil layer increased during the first decade after liming but these differences rapidly decreased after 20-30 years. The effect of liming on foliar concentrations and tree growth was still observed after 40 years, most probably because the biological cycling of these elements was more dynamic in the limed plots. Liming increased the decomposition rate of the soil organic layer but the pools of Mg and Ca in this layer remained relatively stable over time, probably because Mg and Ca concentrations in foliage and litterfall increased after the liming. Liming effects varied between sites depending on the liming product and amount, and the initial chemical fertility level of the soil. Although liming operations may help improve forest soil fertility, they may also generate nutrient deficiencies and/or imbalances for nutrients that are poorly available in the soil. The planning of liming operations therefore necessitates a thorough soil chemical fertility diagnosis.
Auteurs, date et publication :
Auteurs Melanie Court , Gregory van der Heijden , Serge Didier , Claude Nys , Claudine Richter , Noemie Pousse , Laurent Saint-Andre , Arnaud Legout
Publication : Forest Ecology and Management
Date : 2018
Volume : 409
Pages : 872-889