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Papin M, Philippot L, Breuil MC, Bru D, Dreux-Zigha A, Mounier A, Le Roux X, Rouard N, Spor A. Survival of a microbial inoculant in soil after recurrent inoculations. Sci Rep 2024; 14:4177. [PMID: 38378706 PMCID: PMC10879113 DOI: 10.1038/s41598-024-54069-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/31/2023] [Accepted: 02/08/2024] [Indexed: 02/22/2024] Open
Abstract
Microbial inoculants are attracting growing interest in agriculture, but their efficacy remains unreliable in relation to their poor survival, partly due to the competition with the soil resident community. We hypothesised that recurrent inoculation could gradually alleviate this competition and improve the survival of the inoculant while increasing its impact on the resident bacterial community. We tested the effectiveness of such strategy with four inoculation sequences of Pseudomonas fluorescens strain B177 in soil microcosms with increasing number and frequency of inoculation, compared to a non-inoculated control. Each sequence was carried out at two inoculation densities (106 and 108 cfu.g soil-1). The four-inoculation sequence induced a higher abundance of P. fluorescens, 2 weeks after the last inoculation. No impact of inoculation sequences was observed on the resident community diversity and composition. Differential abundance analysis identified only 28 out of 576 dominants OTUs affected by the high-density inoculum, whatever the inoculation sequence. Recurrent inoculations induced a strong accumulation of nitrate, not explained by the abundance of nitrifying or nitrate-reducing microorganisms. In summary, inoculant density rather than inoculation pattern matters for inoculation effect on the resident bacterial communities, while recurrent inoculation allowed to slightly enhance the survival of the inoculant and strongly increased soil nitrate content.
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Affiliation(s)
- M Papin
- Univ Bourgogne Franche Comte, INRAE, Institut Agro Dijon, Agroecologie, 17 Rue Sully, 21000, Dijon, France
| | - L Philippot
- Univ Bourgogne Franche Comte, INRAE, Institut Agro Dijon, Agroecologie, 17 Rue Sully, 21000, Dijon, France.
| | - M C Breuil
- Univ Bourgogne Franche Comte, INRAE, Institut Agro Dijon, Agroecologie, 17 Rue Sully, 21000, Dijon, France
| | - D Bru
- Univ Bourgogne Franche Comte, INRAE, Institut Agro Dijon, Agroecologie, 17 Rue Sully, 21000, Dijon, France
| | - A Dreux-Zigha
- GreenCell Biopole Clermont Limagne, 63360, St Beauzire, France
| | - A Mounier
- Univ Bourgogne Franche Comte, INRAE, Institut Agro Dijon, Agroecologie, 17 Rue Sully, 21000, Dijon, France
| | - X Le Roux
- Universite Claude Bernard Lyon 1, Microbial Ecology Centre LEM, INRAE, CNRS, VetAgroSup, UMR INRAE 1418, 43 Blvd 11 Novembre 1918, 69622, Villeurbanne, France
| | - N Rouard
- Univ Bourgogne Franche Comte, INRAE, Institut Agro Dijon, Agroecologie, 17 Rue Sully, 21000, Dijon, France
| | - A Spor
- Univ Bourgogne Franche Comte, INRAE, Institut Agro Dijon, Agroecologie, 17 Rue Sully, 21000, Dijon, France
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Sportes A, Hériché M, Mounier A, Durney C, van Tuinen D, Trouvelot S, Wipf D, Courty PE. Comparative RNA sequencing-based transcriptome profiling of ten grapevine rootstocks: shared and specific sets of genes respond to mycorrhizal symbiosis. Mycorrhiza 2023; 33:369-385. [PMID: 37561219 DOI: 10.1007/s00572-023-01119-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/30/2023] [Accepted: 06/23/2023] [Indexed: 08/11/2023]
Abstract
Arbuscular mycorrhizal symbiosis improves water and nutrient uptake by plants and provides them other ecosystem services. Grapevine is one of the major crops in the world. Vitis vinifera scions generally are grafted onto a variety of rootstocks that confer different levels of resistance against different pests, tolerance to environmental stress, and influence the physiology of the scions. Arbuscular mycorrhizal fungi are involved in the root architecture and in the immune response to soil-borne pathogens. However, the fine-tuned regulation and the transcriptomic plasticity of rootstocks in response to mycorrhization are still unknown. We compared the responses of 10 different grapevine rootstocks to arbuscular mycorrhizal symbiosis (AMS) formed with Rhizophagus irregularis DAOM197198 using RNA sequencing-based transcriptome profiling. We have highlighted a few shared regulation mechanisms, but also specific rootstock responses to R. irregularis colonization. A set of 353 genes was regulated by AMS in all ten rootstocks. We also compared the expression level of this set of genes to more than 2000 transcriptome profiles from various grapevine varieties and tissues to identify a class of transcripts related to mycorrhizal associations in these 10 rootstocks. Then, we compared the response of the 351 genes upregulated by mycorrhiza in grapevine to their Medicago truncatula homologs in response to mycorrhizal colonization based on available transcriptomic studies. More than 97% of the 351 M. truncatula-homologous grapevine genes were expressed in at least one mycorrhizal transcriptomic study, and 64% in every single RNAseq dataset. At the intra-specific level, we described, for the first time, shared and specific grapevine rootstock genes in response to R. irregularis symbiosis. At the inter-specific level, we defined a shared subset of mycorrhiza-responsive genes.
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Affiliation(s)
- Antoine Sportes
- Agroécologie, INRAE, Institut Agro, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, Dijon, France
| | - Mathilde Hériché
- Agroécologie, INRAE, Institut Agro, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, Dijon, France
| | - Arnaud Mounier
- Agroécologie, INRAE, Institut Agro, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, Dijon, France
| | - Célien Durney
- Agroécologie, INRAE, Institut Agro, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, Dijon, France
| | - Diederik van Tuinen
- Agroécologie, INRAE, Institut Agro, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, Dijon, France
| | - Sophie Trouvelot
- Agroécologie, INRAE, Institut Agro, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, Dijon, France
| | - Daniel Wipf
- Agroécologie, INRAE, Institut Agro, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, Dijon, France
| | - Pierre Emmanuel Courty
- Agroécologie, INRAE, Institut Agro, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, Dijon, France.
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Mortier E, Mounier A, Kreplak J, Martin-Laurent F, Recorbet G, Lamotte O. Evidence that a common arbuscular mycorrhizal network alleviates phosphate shortage in interconnected walnut sapling and maize plants. Front Plant Sci 2023; 14:1206047. [PMID: 37636112 PMCID: PMC10448772 DOI: 10.3389/fpls.2023.1206047] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 04/14/2023] [Accepted: 07/24/2023] [Indexed: 08/29/2023]
Abstract
Under agroforestry practices, inter-specific facilitation between tree rows and cultivated alleys occurs when plants increase the growth of their neighbors especially under nutrient limitation. Owing to a coarse root architecture limiting soil inorganic phosphate (Pi) uptake, walnut trees (Juglans spp.) exhibit dependency on soil-borne symbiotic arbuscular mycorrhizal fungi that extend extra-radical hyphae beyond the root Pi depletion zone. To investigate the benefits of mycorrhizal walnuts in alley cropping, we experimentally simulated an agroforestry system in which walnut rootstocks RX1 (J. regia x J. microcarpa) were connected or not by a common mycelial network (CMN) to maize plants grown under two contrasting Pi levels. Mycorrhizal colonization parameters showed that the inoculum reservoir formed by inoculated walnut donor saplings allowed the mycorrhization of maize recipient roots. Relative to non-mycorrhizal plants and whatever the Pi supply, CMN enabled walnut saplings to access maize Pi fertilization residues according to significant increases in biomass, stem diameter, and expression of JrPHT1;1 and JrPHT1;2, two mycorrhiza-inducible phosphate transporter candidates here identified by phylogenic inference of orthologs. In the lowest Pi supply, stem height, leaf Pi concentration, and biomass of RX1 were significantly higher than in non-mycorrhizal controls, showing that mycorrhizal connections between walnut and maize roots alleviated Pi deficiency in the mycorrhizal RX1 donor plant. Under Pi limitation, maize recipient plants also benefited from mycorrhization relative to controls, as inferred from larger stem diameter and height, biomass, leaf number, N content, and Pi concentration. Mycorrhization-induced Pi uptake generated a higher carbon cost for donor walnut plants than for maize plants by increasing walnut plant photosynthesis to provide the AM fungus with carbon assimilate. Here, we show that CMN alleviates Pi deficiency in co-cultivated walnut and maize plants, and may therefore contribute to limit the use of chemical P fertilizers in agroforestry systems.
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Huet S, Romdhane S, Breuil MC, Bru D, Mounier A, Spor A, Philippot L. Experimental community coalescence sheds light on microbial interactions in soil and restores impaired functions. Microbiome 2023; 11:42. [PMID: 36871037 PMCID: PMC9985222 DOI: 10.1186/s40168-023-01480-7] [Citation(s) in RCA: 4] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 07/04/2022] [Accepted: 01/30/2023] [Indexed: 06/18/2023]
Abstract
BACKGROUND Microbes typically live in communities where individuals can interact with each other in numerous ways. However, knowledge on the importance of these interactions is limited and derives mainly from studies using a limited number of species grown in coculture. Here, we manipulated soil microbial communities to assess the contribution of interactions between microorganisms for assembly of the soil microbiome. RESULTS By combining experimental removal (taxa depletion in the community) and coalescence (mixing of manipulated and control communities) approaches, we demonstrated that interactions between microorganisms can play a key role in determining their fitness during soil recolonization. The coalescence approach not only revealed the importance of density-dependent interactions in microbial community assembly but also allowed to restore partly or fully community diversity and soil functions. Microbial community manipulation resulted in shifts in both inorganic nitrogen pools and soil pH, which were related to the proportion of ammonia-oxidizing bacteria. CONCLUSIONS Our work provides new insights into the understanding of the importance of microbial interactions in soil. Our top-down approach combining removal and coalescence manipulation also allowed linking community structure and ecosystem functions. Furthermore, these results highlight the potential of manipulating microbial communities for the restoration of soil ecosystems. Video Abstract.
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Affiliation(s)
- Sarah Huet
- University Bourgogne Franche-Comte, INRAE, Institut Agro Dijon, Agroecologie Department, 17 rue de Sully, Dijon, 21000 France
| | - Sana Romdhane
- University Bourgogne Franche-Comte, INRAE, Institut Agro Dijon, Agroecologie Department, 17 rue de Sully, Dijon, 21000 France
| | - Marie-Christine Breuil
- University Bourgogne Franche-Comte, INRAE, Institut Agro Dijon, Agroecologie Department, 17 rue de Sully, Dijon, 21000 France
| | - David Bru
- University Bourgogne Franche-Comte, INRAE, Institut Agro Dijon, Agroecologie Department, 17 rue de Sully, Dijon, 21000 France
| | - Arnaud Mounier
- University Bourgogne Franche-Comte, INRAE, Institut Agro Dijon, Agroecologie Department, 17 rue de Sully, Dijon, 21000 France
| | - Ayme Spor
- University Bourgogne Franche-Comte, INRAE, Institut Agro Dijon, Agroecologie Department, 17 rue de Sully, Dijon, 21000 France
| | - Laurent Philippot
- University Bourgogne Franche-Comte, INRAE, Institut Agro Dijon, Agroecologie Department, 17 rue de Sully, Dijon, 21000 France
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Romdhane S, Spor A, Aubert J, Bru D, Breuil MC, Hallin S, Mounier A, Ouadah S, Tsiknia M, Philippot L. Unraveling negative biotic interactions determining soil microbial community assembly and functioning. ISME J 2022; 16:296-306. [PMID: 34321619 PMCID: PMC8692615 DOI: 10.1038/s41396-021-01076-9] [Citation(s) in RCA: 36] [Impact Index Per Article: 18.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 08/06/2020] [Revised: 07/13/2021] [Accepted: 07/20/2021] [Indexed: 02/07/2023]
Abstract
Microbial communities play important roles in all ecosystems and yet a comprehensive understanding of the ecological processes governing the assembly of these communities is missing. To address the role of biotic interactions between microorganisms in assembly and for functioning of the soil microbiota, we used a top-down manipulation approach based on the removal of various populations in a natural soil microbial community. We hypothesized that removal of certain microbial groups will strongly affect the relative fitness of many others, therefore unraveling the contribution of biotic interactions in shaping the soil microbiome. Here we show that 39% of the dominant bacterial taxa across treatments were subjected to competitive interactions during soil recolonization, highlighting the importance of biotic interactions in the assembly of microbial communities in soil. Moreover, our approach allowed the identification of microbial community assembly rule as exemplified by the competitive exclusion between members of Bacillales and Proteobacteriales. Modified biotic interactions resulted in greater changes in activities related to N- than to C-cycling. Our approach can provide a new and promising avenue to study microbial interactions in complex ecosystems as well as the links between microbial community composition and ecosystem function.
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Affiliation(s)
- Sana Romdhane
- grid.462299.20000 0004 0445 7139Université Bourgogne Franche-Comté, INRAE, AgroSup Dijon, Agroécologie, Dijon, France
| | - Aymé Spor
- grid.462299.20000 0004 0445 7139Université Bourgogne Franche-Comté, INRAE, AgroSup Dijon, Agroécologie, Dijon, France
| | - Julie Aubert
- Université Paris-Saclay, AgroParisTech, INRAE, UMR MIA-Paris, Paris, France
| | - David Bru
- grid.462299.20000 0004 0445 7139Université Bourgogne Franche-Comté, INRAE, AgroSup Dijon, Agroécologie, Dijon, France
| | - Marie-Christine Breuil
- grid.462299.20000 0004 0445 7139Université Bourgogne Franche-Comté, INRAE, AgroSup Dijon, Agroécologie, Dijon, France
| | - Sara Hallin
- grid.6341.00000 0000 8578 2742Department of Forest Mycology and Plant Pathology, Swedish University of Agricultural Sciences, Uppsala, Sweden
| | - Arnaud Mounier
- grid.462299.20000 0004 0445 7139Université Bourgogne Franche-Comté, INRAE, AgroSup Dijon, Agroécologie, Dijon, France
| | - Sarah Ouadah
- Université Paris-Saclay, AgroParisTech, INRAE, UMR MIA-Paris, Paris, France
| | - Myrto Tsiknia
- grid.462299.20000 0004 0445 7139Université Bourgogne Franche-Comté, INRAE, AgroSup Dijon, Agroécologie, Dijon, France ,grid.10985.350000 0001 0794 1186Soil Science and Agricultural Chemistry Lab, Department of Natural Resources and Agricultural Engineering, Agricultural University of Athens, Athens, Greece
| | - Laurent Philippot
- grid.462299.20000 0004 0445 7139Université Bourgogne Franche-Comté, INRAE, AgroSup Dijon, Agroécologie, Dijon, France
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Billet L, Pesce S, Rouard N, Spor A, Paris L, Leremboure M, Mounier A, Besse-Hoggan P, Martin-Laurent F, Devers-Lamrani M. Antibiotrophy: Key Function for Antibiotic-Resistant Bacteria to Colonize Soils-Case of Sulfamethazine-Degrading Microbacterium sp. C448. Front Microbiol 2021; 12:643087. [PMID: 33841365 PMCID: PMC8032547 DOI: 10.3389/fmicb.2021.643087] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2020] [Accepted: 02/22/2021] [Indexed: 11/13/2022] Open
Abstract
Chronic and repeated exposure of environmental bacterial communities to anthropogenic antibiotics have recently driven some antibiotic-resistant bacteria to acquire catabolic functions, enabling them to use antibiotics as nutritive sources (antibiotrophy). Antibiotrophy might confer a selective advantage facilitating the implantation and dispersion of antibiotrophs in contaminated environments. A microcosm experiment was conducted to test this hypothesis in an agroecosystem context. The sulfonamide-degrading and resistant bacterium Microbacterium sp. C448 was inoculated in four different soil types with and without added sulfamethazine and/or swine manure. After 1 month of incubation, Microbacterium sp. (and its antibiotrophic gene sadA) was detected only in the sulfamethazine-treated soils, suggesting a low competitiveness of the strain without antibiotic selection pressure. In the absence of manure and despite the presence of Microbacterium sp. C448, only one of the four sulfamethazine-treated soils exhibited mineralization capacities, which were low (inferior to 5.5 ± 0.3%). By contrast, manure addition significantly enhanced sulfamethazine mineralization in all the soil types (at least double, comprised between 5.6 ± 0.7% and 19.5 ± 1.2%). These results, which confirm that the presence of functional genes does not necessarily ensure functionality, suggest that sulfamethazine does not necessarily confer a selective advantage on the degrading strain as a nutritional source. 16S rDNA sequencing analyses strongly suggest that sulfamethazine released trophic niches by biocidal action. Accordingly, manure-originating bacteria and/or Microbacterium sp. C448 could gain access to low-competition or competition-free ecological niches. However, simultaneous inputs of manure and of the strain could induce competition detrimental for Microbacterium sp. C448, forcing it to use sulfamethazine as a nutritional source. Altogether, these results suggest that the antibiotrophic strain studied can modulate its sulfamethazine-degrading function depending on microbial competition and resource accessibility, to become established in an agricultural soil. Most importantly, this work highlights an increased dispersal potential of antibiotrophs in antibiotic-polluted environments, as antibiotics can not only release existing trophic niches but also form new ones.
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Affiliation(s)
- Loren Billet
- AgroSup Dijon, INRAE, Université de Bourgogne Franche-Comté, Agroécologie, Dijon, France
- INRAE, UR RiverLy, Villeurbanne, France
| | | | - Nadine Rouard
- AgroSup Dijon, INRAE, Université de Bourgogne Franche-Comté, Agroécologie, Dijon, France
| | - Aymé Spor
- AgroSup Dijon, INRAE, Université de Bourgogne Franche-Comté, Agroécologie, Dijon, France
| | - Laurianne Paris
- Université Clermont Auvergne, CNRS, Sigma Clermont, Institut de Chimie de Clermont-Ferrand, Clermont-Ferrand, France
| | - Martin Leremboure
- Université Clermont Auvergne, CNRS, Sigma Clermont, Institut de Chimie de Clermont-Ferrand, Clermont-Ferrand, France
| | - Arnaud Mounier
- AgroSup Dijon, INRAE, Université de Bourgogne Franche-Comté, Agroécologie, Dijon, France
| | - Pascale Besse-Hoggan
- Université Clermont Auvergne, CNRS, Sigma Clermont, Institut de Chimie de Clermont-Ferrand, Clermont-Ferrand, France
| | - Fabrice Martin-Laurent
- AgroSup Dijon, INRAE, Université de Bourgogne Franche-Comté, Agroécologie, Dijon, France
| | - Marion Devers-Lamrani
- AgroSup Dijon, INRAE, Université de Bourgogne Franche-Comté, Agroécologie, Dijon, France
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Thiour-Mauprivez C, Devers-Lamrani M, Bru D, Béguet J, Spor A, Mounier A, Alletto L, Calvayrac C, Barthelmebs L, Martin-Laurent F. Assessing the Effects of β-Triketone Herbicides on the Soil Bacterial and hppd Communities: A Lab-to-Field Experiment. Front Microbiol 2021; 11:610298. [PMID: 33505377 PMCID: PMC7829504 DOI: 10.3389/fmicb.2020.610298] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/25/2020] [Accepted: 12/07/2020] [Indexed: 11/17/2022] Open
Abstract
Maize cultivators often use β-triketone herbicides to prevent the growth of weeds in their fields. These herbicides target the 4-HPPD enzyme of dicotyledons. This enzyme, encoded by the hppd gene, is widespread among all living organisms including soil bacteria, which are considered as “non-target organisms” by the legislation. Within the framework of the pesticide registration process, the ecotoxicological impact of herbicides on soil microorganisms is solely based on carbon and nitrogen mineralization tests. In this study, we used more extensive approaches to assess with a lab-to-field experiment the risk of β-triketone on the abundance and the diversity of both total and hppd soil bacterial communities. Soil microcosms were exposed, under lab conditions, to 1× or 10× the recommended dose of sulcotrione or its commercial product, Decano®. Whatever the treatment applied, sulcotrione was fully dissipated from soil after 42 days post-treatment. The abundance and the diversity of both the total and the hppd bacterial communities were not affected by the herbicide treatments all along the experiment. Same measurements were led in real agronomical conditions, on three different fields located in the same area cropped with maize: one not exposed to any plant protection products, another one exposed to a series of plant protection products (PPPs) comprising mesotrione, and a last one exposed to different PPPs including mesotrione and tembotrione, two β-triketones. In this latter, the abundance of the hppd community varied over time. The diversity of the total and the hppd communities evolved over time independently from the treatment received. Only slight but significant transient effects on the abundance of the hppd community in one of the tested soil were observed. Our results showed that tested β-triketones have no visible impact toward both total and hppd soil bacteria communities.
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Affiliation(s)
- Clémence Thiour-Mauprivez
- Biocapteurs-Analyses-Environnement, Universite de Perpignan Via Domitia, Perpignan, France.,Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR 3579 Sorbonne Universités (UPMC) Paris 6 et CNRS Observatoire Océanologique, Banyuls-sur-Mer, France.,Agroécologie, AgroSup Dijon, INRAE, Université Bourgogne Franche-Comté, Dijon, France
| | - Marion Devers-Lamrani
- Agroécologie, AgroSup Dijon, INRAE, Université Bourgogne Franche-Comté, Dijon, France
| | - David Bru
- Agroécologie, AgroSup Dijon, INRAE, Université Bourgogne Franche-Comté, Dijon, France
| | - Jérémie Béguet
- Agroécologie, AgroSup Dijon, INRAE, Université Bourgogne Franche-Comté, Dijon, France
| | - Aymé Spor
- Agroécologie, AgroSup Dijon, INRAE, Université Bourgogne Franche-Comté, Dijon, France
| | - Arnaud Mounier
- Agroécologie, AgroSup Dijon, INRAE, Université Bourgogne Franche-Comté, Dijon, France
| | - Lionel Alletto
- Université de Toulouse, INRAE, UMR AGIR, Castanet-Tolosan, France
| | - Christophe Calvayrac
- Biocapteurs-Analyses-Environnement, Universite de Perpignan Via Domitia, Perpignan, France.,Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR 3579 Sorbonne Universités (UPMC) Paris 6 et CNRS Observatoire Océanologique, Banyuls-sur-Mer, France
| | - Lise Barthelmebs
- Biocapteurs-Analyses-Environnement, Universite de Perpignan Via Domitia, Perpignan, France.,Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR 3579 Sorbonne Universités (UPMC) Paris 6 et CNRS Observatoire Océanologique, Banyuls-sur-Mer, France
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Wipf D, Pfister C, Mounier A, Leborgne-Castel N, Frommer WB, Courty PE. Identification of Putative Interactors of Arabidopsis Sugar Transporters. Trends Plant Sci 2021; 26:13-22. [PMID: 33071187 DOI: 10.1016/j.tplants.2020.09.009] [Citation(s) in RCA: 6] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/01/2020] [Revised: 07/24/2020] [Accepted: 09/08/2020] [Indexed: 06/11/2023]
Abstract
Hexoses and disaccharides are the key carbon sources for essentially all physiological processes across kingdoms. In plants, sucrose, and in some cases raffinose and stachyose, are transported from the site of synthesis in leaves, the sources, to all other organs that depend on import, the sinks. Sugars also play key roles in interactions with beneficial and pathogenic microbes. Sugar transport is mediated by transport proteins that fall into super-families. Sugar transporter (ST) activity is tuned at different levels, including transcriptional and posttranslational levels. Understanding the ST interactome has a great potential to uncover important players in biologically and physiologically relevant processes, including, but not limited to Arabidopsis thaliana. Here, we combined ST interactions and coexpression studies to identify potentially relevant interaction networks.
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Affiliation(s)
- Daniel Wipf
- Agroécologie, AgroSup Dijon, CNRS, Université de Bourgogne, INRAE, Université de Bourgogne Franche-Comté, 21000 Dijon, France
| | - Carole Pfister
- Agroécologie, AgroSup Dijon, CNRS, Université de Bourgogne, INRAE, Université de Bourgogne Franche-Comté, 21000 Dijon, France
| | - Arnaud Mounier
- Agroécologie, AgroSup Dijon, CNRS, Université de Bourgogne, INRAE, Université de Bourgogne Franche-Comté, 21000 Dijon, France
| | - Nathalie Leborgne-Castel
- Agroécologie, AgroSup Dijon, CNRS, Université de Bourgogne, INRAE, Université de Bourgogne Franche-Comté, 21000 Dijon, France
| | - Wolf B Frommer
- Institute for Molecular Physiology, Heinrich Heine University Düsseldorf, Düsseldorf 40225, Germany; Institute of Transformative Bio-Molecules (WPI-ITbM), Nagoya University, Chikusa, Nagoya 464-8601, Japan
| | - Pierre-Emmanuel Courty
- Agroécologie, AgroSup Dijon, CNRS, Université de Bourgogne, INRAE, Université de Bourgogne Franche-Comté, 21000 Dijon, France.
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Thiour-Mauprivez C, Devers-Lamrani M, Mounier A, Beguet J, Spor A, Calvayrac C, Barthelmebs L, Martin-Laurent F. Design of a degenerate primer pair to target a bacterial functional community: The hppd bacterial gene coding for the enzyme targeted by herbicides, a study case. J Microbiol Methods 2020; 170:105839. [PMID: 31926848 DOI: 10.1016/j.mimet.2020.105839] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/18/2019] [Revised: 01/08/2020] [Accepted: 01/08/2020] [Indexed: 10/25/2022]
Abstract
The present work aimed to design a degenerate primer pair to target a large part of the hppd soil bacterial community, possibly affected by herbicides. We validated these primers by qPCR and high-throughput sequencing analysis of soil samples.
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Affiliation(s)
- C Thiour-Mauprivez
- Univ. Perpignan Via Domitia, Biocapteurs-Analyses-Environnement, 66860 Perpignan, France; AgroSup Dijon, INRAe, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, Agroécologie, F-21065 Dijon, France; Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR 3579 Sorbonne Universités (UPMC) Paris 6 et CNRS Observatoire Océanologique, 66650 Banyuls-sur-Mer, France
| | - M Devers-Lamrani
- AgroSup Dijon, INRAe, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, Agroécologie, F-21065 Dijon, France
| | - A Mounier
- AgroSup Dijon, INRAe, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, Agroécologie, F-21065 Dijon, France
| | - J Beguet
- AgroSup Dijon, INRAe, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, Agroécologie, F-21065 Dijon, France
| | - A Spor
- AgroSup Dijon, INRAe, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, Agroécologie, F-21065 Dijon, France
| | - C Calvayrac
- Univ. Perpignan Via Domitia, Biocapteurs-Analyses-Environnement, 66860 Perpignan, France; Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR 3579 Sorbonne Universités (UPMC) Paris 6 et CNRS Observatoire Océanologique, 66650 Banyuls-sur-Mer, France
| | - L Barthelmebs
- Univ. Perpignan Via Domitia, Biocapteurs-Analyses-Environnement, 66860 Perpignan, France; Laboratoire de Biodiversité et Biotechnologies Microbiennes, USR 3579 Sorbonne Universités (UPMC) Paris 6 et CNRS Observatoire Océanologique, 66650 Banyuls-sur-Mer, France
| | - F Martin-Laurent
- AgroSup Dijon, INRAe, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, Agroécologie, F-21065 Dijon, France.
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10
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Astier J, Mounier A, Santolini J, Jeandroz S, Wendehenne D. The evolution of nitric oxide signalling diverges between animal and green lineages. J Exp Bot 2019; 70:4355-4364. [PMID: 30820534 DOI: 10.1093/jxb/erz088] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/30/2018] [Accepted: 02/07/2019] [Indexed: 05/17/2023]
Abstract
Nitric oxide (NO) is a ubiquitous signalling molecule with widespread distribution in prokaryotes and eukaryotes where it is involved in countless physiological processes. While the mechanisms governing nitric oxide (NO) synthesis and signalling are well established in animals, the situation is less clear in the green lineage. Recent investigations have shown that NO synthase, the major enzymatic source for NO in animals, is absent in land plants but present in a limited number of algae. The first detailed analysis highlighted that these new NO synthases are functional but display specific structural features and probably original catalytic activities. Completing this picture, analyses were undertaken in order to investigate whether major components of the prototypic NO/cyclic GMP signalling cascades mediating many physiological effects of NO in animals were also present in plants. Only a few homologues of soluble guanylate cyclases, cGMP-dependent protein kinases, cyclic nucleotide-gated channels, and cGMP-regulated phosphodiesterases were identified in some algal species and their presence did not correlate with that of NO synthases. In contrast, S-nitrosoglutathione reductase, a critical regulator of S-nitrosothiols, was recurrently found. Overall, these findings highlight that plants do not mediate NO signalling through the classical NO/cGMP signalling module and support the concept that S-nitrosation is a ubiquitous NO-dependent signalling mechanism.
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Affiliation(s)
- Jeremy Astier
- Agroécologie, AgroSup Dijon, CNRS, INRA, Université de Bourgogne, Université Bourgogne Franche-Comté, Dijon, France
| | - Arnaud Mounier
- Agroécologie, AgroSup Dijon, CNRS, INRA, Université de Bourgogne, Université Bourgogne Franche-Comté, Dijon, France
| | - Jérôme Santolini
- Institute for Integrative Biology of the Cell (I2BC), CEA, CNRS, Université Paris-Sud, Université Paris-Saclay, Gif-sur-Yvette cedex, France
| | - Sylvain Jeandroz
- Agroécologie, AgroSup Dijon, CNRS, INRA, Université de Bourgogne, Université Bourgogne Franche-Comté, Dijon, France
| | - David Wendehenne
- Agroécologie, AgroSup Dijon, CNRS, INRA, Université de Bourgogne, Université Bourgogne Franche-Comté, Dijon, France
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11
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Bègue H, Mounier A, Rosnoblet C, Wendehenne D. Toward the understanding of the role of CDC48, a major component of the protein quality control, in plant immunity. Plant Sci 2019; 279:34-44. [PMID: 30709491 DOI: 10.1016/j.plantsci.2018.10.029] [Citation(s) in RCA: 16] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/27/2018] [Revised: 10/29/2018] [Accepted: 10/31/2018] [Indexed: 06/09/2023]
Abstract
The evolutionally conserved chaperone-like protein CDC48 (cell division cycle 48) is a major component of ubiquitin-dependent protein degradation pathways in animal and yeast and, more generally, of the protein quality control machinery. In plants, CDC48 plays essential regulatory functions in development and the possibly that it contributes to protein degradation through the ubiquitin-proteasome system (UPS) and the endoplasmic reticulum-associated protein degradation (ERAD) system has been reported. In this review we described recent findings highlighting a role for CDC48 in plant immunity. First data indicated that CDC48 is S-nitrosylated in plant cells undergoing an immune response, regulates the turnover of immune receptors and mediates the degradation of viral proteins. Furthermore its overexpression was associated to an exacerbated hypersensitive-like cell death. We also designed and reported here the first CDC48 interactome. The corresponding data confirm the closed interaction of CDC48 with components of the UPS and shed light on its putative regulatory function of S-adenosyl-methionine synthesis and metabolism. More generally, these investigations further support the concept that plant cells facing pathogen attack finely regulate the protein quality control machinery.
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Affiliation(s)
- Hervé Bègue
- Agroécologie, AgroSup Dijon, CNRS, INRA, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, F-21000, Dijon, France.
| | - Arnaud Mounier
- Agroécologie, AgroSup Dijon, CNRS, INRA, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, F-21000, Dijon, France
| | - Claire Rosnoblet
- Agroécologie, AgroSup Dijon, CNRS, INRA, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, F-21000, Dijon, France
| | - David Wendehenne
- Agroécologie, AgroSup Dijon, CNRS, INRA, Univ. Bourgogne, Univ. Bourgogne Franche-Comté, F-21000, Dijon, France.
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12
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Mounier A, Le Bourdon G, Aupetit C, Lazare S, Biron C, Pérez-Arantegui J, Almazán D, Aramendia J, Prieto-Taboada N, Fdez-Ortiz de Vallejuelo S, Daniel F. Red and blue colours on 18th–19th century Japanese woodblock prints: In situ analyses by spectrofluorimetry and complementary non-invasive spectroscopic methods. Microchem J 2018. [DOI: 10.1016/j.microc.2018.04.023] [Citation(s) in RCA: 20] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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13
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Pailhé R, Mounier A, Boisson B, Rouchy RC, Voros S, Chipon E, Boudry I, Medici M, Hughes C, Moreau-Gaudry A. Qualitative and quantitative assessment of cartilage degeneration using full-field optical coherence tomography ex vivo. Osteoarthritis Cartilage 2018; 26:285-292. [PMID: 29162490 DOI: 10.1016/j.joca.2017.11.008] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 05/17/2017] [Revised: 10/17/2017] [Accepted: 11/11/2017] [Indexed: 02/02/2023]
Abstract
OBJECTIVE The purpose of this study was to investigate the ability of full-field optical coherence tomography (FFOCT) to qualitatively and quantitatively evaluate cartilage degeneration using the qualitative evaluation of histology sections as the reference. DESIGN Thirty-three human knee cartilage samples of variable degeneration were included in the study. A closely matching histology and FFOCT image was acquired for each sample. The cartilage degeneration was qualitatively evaluated by assigning a grade to each histology and FFOCT image. The relevance of the performed grading was assessed by calculating the intra- and inter-observer reproducibility and calculating the concordance between the histology and FFOCT grades. A near-automatic algorithm was developed to quantitatively characterize the cartilage surface in each image. The correlation between the quantitative results and the reference qualitative histology was calculated. RESULTS An almost perfect agreement was achieved for both the intra- and inter-reproducibility of the histology and FFOCT qualitative grading (κ ≥ 0.91). A high and statistically significant level of agreement was measured between the histology and FFOCT grades (W = 0.95, P < 0.05). Strong and statistically significant correlations were measured between the quantitative results and the reference qualitative histology grades (ρ ≥ 0.75, P < 0.05). CONCLUSIONS We have demonstrated that FFOCT is an alternative approach to conventional optical coherence tomography (OCT) that is as well adapted for the qualitative and quantitative assessment of human cartilage as the reference gold standard - histology. This study constitutes the first promising results towards developing a new diagnostic tool in the field of osteoarthritis.
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Affiliation(s)
- R Pailhé
- Université Grenoble-Alpes, CNRS, Grenoble INP, TIMC-IMAG, F-38000 Grenoble, France; CHU Grenoble-Alpes, South Teaching Hospital, Department of Orthopaedic Surgery and Sport Traumatology, F-38130 Echirolles, France; INSERM, CIC 1406, F-38000 Grenoble, France.
| | - A Mounier
- INSERM, CIC 1406, F-38000 Grenoble, France; CHU Grenoble-Alpes, Clinique Universitaire de Radiologie et Imagerie Médicale, F-38000 Grenoble, France; Université Grenoble-Alpes, CIC 1406, F-38000 Grenoble, France.
| | - B Boisson
- CHU Grenoble-Alpes, Département d'Anatomie et de Cytologie Pathologiques, F-38000 Grenoble, France.
| | - R C Rouchy
- INSERM, CIC 1406, F-38000 Grenoble, France; CHU Grenoble-Alpes, Clinique Universitaire de Radiologie et Imagerie Médicale, F-38000 Grenoble, France; Université Grenoble-Alpes, CIC 1406, F-38000 Grenoble, France.
| | - S Voros
- Université Grenoble-Alpes, CNRS, Grenoble INP, TIMC-IMAG, F-38000 Grenoble, France; INSERM, TIMC-IMAG, F-38000 Grenoble, France.
| | - E Chipon
- INSERM, CIC 1406, F-38000 Grenoble, France; Université Grenoble-Alpes, CIC 1406, F-38000 Grenoble, France; CHU Grenoble-Alpes, Pôle Recherche, F-38000 Grenoble, France.
| | - I Boudry
- INSERM, CIC 1406, F-38000 Grenoble, France; Université Grenoble-Alpes, CIC 1406, F-38000 Grenoble, France; CHU Grenoble-Alpes, Pôle Recherche, F-38000 Grenoble, France.
| | - M Medici
- INSERM, CIC 1406, F-38000 Grenoble, France; Université Grenoble-Alpes, CIC 1406, F-38000 Grenoble, France; CHU Grenoble-Alpes, Pôle Recherche, F-38000 Grenoble, France.
| | - C Hughes
- Université Grenoble-Alpes, CNRS, Grenoble INP, TIMC-IMAG, F-38000 Grenoble, France; INSERM, CIC 1406, F-38000 Grenoble, France; CHU Grenoble-Alpes, Pôle Recherche, F-38000 Grenoble, France.
| | - A Moreau-Gaudry
- Université Grenoble-Alpes, CNRS, Grenoble INP, TIMC-IMAG, F-38000 Grenoble, France; INSERM, CIC 1406, F-38000 Grenoble, France; CHU Grenoble-Alpes, Pôle Recherche, F-38000 Grenoble, France; CHU Grenoble-Alpes, Pôle Santé Publique, F-38000 Grenoble, France.
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14
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Aloui A, Recorbet G, Lemaître-Guillier C, Mounier A, Balliau T, Zivy M, Wipf D, Dumas-Gaudot E. The plasma membrane proteome of Medicago truncatula roots as modified by arbuscular mycorrhizal symbiosis. Mycorrhiza 2018; 28:1-16. [PMID: 28725961 DOI: 10.1007/s00572-017-0789-5] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/14/2017] [Accepted: 07/06/2017] [Indexed: 06/07/2023]
Abstract
In arbuscular mycorrhizal (AM) roots, the plasma membrane (PM) of the host plant is involved in all developmental stages of the symbiotic interaction, from initial recognition to intracellular accommodation of intra-radical hyphae and arbuscules. Although the role of the PM as the agent for cellular morphogenesis and nutrient exchange is especially accentuated in endosymbiosis, very little is known regarding the PM protein composition of mycorrhizal roots. To obtain a global overview at the proteome level of the host PM proteins as modified by symbiosis, we performed a comparative protein profiling of PM fractions from Medicago truncatula roots either inoculated or not with the AM fungus Rhizophagus irregularis. PM proteins were isolated from root microsomes using an optimized discontinuous sucrose gradient; their subsequent analysis by liquid chromatography followed by mass spectrometry (MS) identified 674 proteins. Cross-species sequence homology searches combined with MS-based quantification clearly confirmed enrichment in PM-associated proteins and depletion of major microsomal contaminants. Changes in protein amounts between the PM proteomes of mycorrhizal and non-mycorrhizal roots were monitored further by spectral counting. This workflow identified a set of 82 mycorrhiza-responsive proteins that provided insights into the plant PM response to mycorrhizal symbiosis. Among them, the association of one third of the mycorrhiza-responsive proteins with detergent-resistant membranes pointed at partitioning to PM microdomains. The PM-associated proteins responsive to mycorrhization also supported host plant control of sugar uptake to limit fungal colonization, and lipid turnover events in the PM fraction of symbiotic roots. Because of the depletion upon symbiosis of proteins mediating the replacement of phospholipids by phosphorus-free lipids in the plasmalemma, we propose a role of phosphate nutrition in the PM composition of mycorrhizal roots.
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Affiliation(s)
- Achref Aloui
- UMR Agroécologie, INRA/AgroSup/University Bourgogne Franche-Comté, Pôle Interactions Plantes Microrganismes, ERL 6003 CNRS, BP 86510, 21065, Dijon Cedex, France
- Laboratoire des Plantes Extrêmophiles, Centre de Biotechnologie de Borj-Cédria, BP 901, 2050, Hammam-lif, Tunisia
| | - Ghislaine Recorbet
- UMR Agroécologie, INRA/AgroSup/University Bourgogne Franche-Comté, Pôle Interactions Plantes Microrganismes, ERL 6003 CNRS, BP 86510, 21065, Dijon Cedex, France.
| | - Christelle Lemaître-Guillier
- UMR Agroécologie, INRA/AgroSup/University Bourgogne Franche-Comté, Pôle Interactions Plantes Microrganismes, ERL 6003 CNRS, BP 86510, 21065, Dijon Cedex, France
| | - Arnaud Mounier
- UMR Agroécologie, INRA/AgroSup/University Bourgogne Franche-Comté, Pôle Interactions Plantes Microrganismes, ERL 6003 CNRS, BP 86510, 21065, Dijon Cedex, France
| | - Thierry Balliau
- UMR de Génétique végétale, PAPPSO, Ferme du Moulon, 91190, Gif sur Yvette, France
| | - Michel Zivy
- UMR de Génétique végétale, PAPPSO, Ferme du Moulon, 91190, Gif sur Yvette, France
| | - Daniel Wipf
- UMR Agroécologie, INRA/AgroSup/University Bourgogne Franche-Comté, Pôle Interactions Plantes Microrganismes, ERL 6003 CNRS, BP 86510, 21065, Dijon Cedex, France
| | - Eliane Dumas-Gaudot
- UMR Agroécologie, INRA/AgroSup/University Bourgogne Franche-Comté, Pôle Interactions Plantes Microrganismes, ERL 6003 CNRS, BP 86510, 21065, Dijon Cedex, France
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15
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Perolat R, Stephanov O, Mounier A, Thiebaut A, Pirvu A, Hamidfar R, Ferretti G. Signe du halo inversé chez un patient neutropénique fébrile. Rev Mal Respir 2017; 34:778-781. [DOI: 10.1016/j.rmr.2016.08.007] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/02/2016] [Accepted: 08/29/2016] [Indexed: 10/20/2022]
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16
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Rouchy RC, Moreau-Gaudry A, Chipon E, Aubry S, Pazart L, Lapuyade B, Durand M, Hajjam M, Pottier S, Renard B, Logier R, Orry X, Cherifi A, Quehen E, Kervio G, Favelle O, Patat F, De Kerviler E, Hughes C, Medici M, Ghelfi J, Mounier A, Bricault I. Evaluation of the clinical benefit of an electromagnetic navigation system for CT-guided interventional radiology procedures in the thoraco-abdominal region compared with conventional CT guidance (CTNAV II): study protocol for a randomised controlled trial. Trials 2017; 18:306. [PMID: 28683837 PMCID: PMC5501074 DOI: 10.1186/s13063-017-2049-6] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/21/2016] [Accepted: 06/14/2017] [Indexed: 12/17/2022] Open
Abstract
BACKGROUND Interventional radiology includes a range of minimally invasive image-guided diagnostic and therapeutic procedures that have become routine clinical practice. Each procedure involves a percutaneous needle insertion, often guided using computed tomography (CT) because of its availability and usability. However, procedures remain complicated, in particular when an obstacle must be avoided, meaning that an oblique trajectory is required. Navigation systems track the operator's instruments, meaning the position and progression of the instruments are visualised in real time on the patient's images. A novel electromagnetic navigation system for CT-guided interventional procedures (IMACTIS-CT®) has been developed, and a previous clinical trial demonstrated improved needle placement accuracy in navigation-assisted procedures. In the present trial, we are evaluating the clinical benefit of the navigation system during the needle insertion step of CT-guided procedures in the thoraco-abdominal region. METHODS/DESIGN This study is designed as an open, multicentre, prospective, randomised, controlled interventional clinical trial and is structured as a standard two-arm, parallel-design, individually randomised trial. A maximum of 500 patients will be enrolled. In the experimental arm (navigation system), the procedures are carried out using navigation assistance, and in the active comparator arm (CT), the procedures are carried out with conventional CT guidance. The randomisation is stratified by centre and by the expected difficulty of the procedure. The primary outcome of the trial is a combined criterion to assess the safety (number of serious adverse events), efficacy (number of targets reached) and performance (number of control scans acquired) of navigation-assisted, CT-guided procedures as evaluated by a blinded radiologist and confirmed by an expert committee in case of discordance. The secondary outcomes are (1) the duration of the procedure, (2) the satisfaction of the operator and (3) the irradiation dose delivered, with (4) subgroup analysis according to the expected difficulty of the procedure, as well as an evaluation of (5) the usability of the device. DISCUSSION This trial addresses the lack of published high-level evidence studies in which navigation-assisted CT-guided interventional procedures are evaluated. This trial is important because it addresses the problems associated with conventional CT guidance and is particularly relevant because the number of interventional radiology procedures carried out in routine clinical practice is increasing. TRIAL REGISTRATION ClinicalTrials.gov identifier: NCT01896219 . Registered on 5 July 2013.
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Affiliation(s)
- R C Rouchy
- Clinique Universitaire de Radiologie et Imagerie Médicale, Centre Hospitalier Universitaire (CHU) de Grenoble-Alpes, F-38000, Grenoble, France. .,Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1406, University Grenoble-Alpes, F-38000, Grenoble, France. .,Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1406, F-38000, Grenoble, France. .,Pole Recherche, Centre Hospitalier Universitaire (CHU) de Grenoble-Alpes, F-38000, Grenoble, France.
| | - A Moreau-Gaudry
- Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1406, F-38000, Grenoble, France.,Techniques de l'Ingénierie Médicale et de la Complexité - Informatique, Mathématiques et Applications, Grenoble (TIMC-IMAG), University Grenoble-Alpes, F-38000, Grenoble, France.,Techniques de l'Ingénierie Médicale et de la Complexité - Informatique, Mathématiques et Applications, Grenoble (TIMC-IMAG), Centre national de la recherche scientifique (CNRS), F-38000, Grenoble, France.,Pole Sante Publique, Centre Hospitalier Universitaire (CHU) de Grenoble-Alpes, F-38000, Grenoble, France
| | - E Chipon
- Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1406, University Grenoble-Alpes, F-38000, Grenoble, France.,Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1406, F-38000, Grenoble, France.,Pole Recherche, Centre Hospitalier Universitaire (CHU) de Grenoble-Alpes, F-38000, Grenoble, France
| | - S Aubry
- Service de Radiologie Ostéo-Articulaire, Centre Hospitalier Universitaire (CHU) Besançon, F-25000, Besançon, France.,Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1431, F-25000, Besançon, France
| | - L Pazart
- Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1431, F-25000, Besançon, France
| | - B Lapuyade
- Service d'Imagerie Diagnostique et Therapeutique, Centre Hospitalier Universitaire (CHU) Bordeaux, F-33000, Bordeaux, France
| | - M Durand
- Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1401, F-33000, Bordeaux, France.,Centre d'Investigation Clinique (CIC) 1401, University Bordeaux, F-33000, Bordeaux, France.,Centre Hospitalier Universitaire (CHU) Bordeaux, F-33000, Bordeaux, France
| | - M Hajjam
- Service de Radiologie, Hôpital Ambroise-Paré, Assistance Publique-Hôpitaux de Paris (AP-HP), F-92100, Boulogne-Billancourt, France
| | - S Pottier
- Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1429, Hôpital Raymond-Poincaré, Assistance Publique-Hôpitaux de Paris (AP-HP), F-92380, Garches, France
| | - B Renard
- Service de Radiologie, Centre Hospitalier Universitaire (CHU) Lille, F-59000, Lille, France
| | - R Logier
- Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1403, Centre Hospitalier Universitaire (CHU) Lille, University Lille, F-59000, Lille, France
| | - X Orry
- Service de Radiologie, Centre Hospitalier Régional Universitaire (CHRU) de Nancy, F-54000, Nancy, France
| | - A Cherifi
- Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique - Centre de technologie innovante (CIC-IT) 1433, Centre Hospitalier Régional Universitaire (CHRU) de Nancy, F-54000, Nancy, France
| | - E Quehen
- Service Imagerie Abdominale et Générale, Centre Hospitalier Universitaire (CHU) Rennes, F-35000, Rennes, France
| | - G Kervio
- Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1414, Centre Hospitalier Universitaire (CHU) Rennes, F-35000, Rennes, France
| | - O Favelle
- Département Imagerie Médicale, Centre Hospitalier Universitaire (CHU) Tours, F-37000, Tours, France
| | - F Patat
- Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1415, Centre Hospitalier Universitaire (CHU) Tours, F-37000, Tours, France
| | - E De Kerviler
- Service de Radiologie, Hôpital Saint Louis, Assistance Publique-Hôpitaux de Paris (AP-HP), F-75475, Paris, France
| | - C Hughes
- Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1406, University Grenoble-Alpes, F-38000, Grenoble, France.,Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1406, F-38000, Grenoble, France.,Pole Recherche, Centre Hospitalier Universitaire (CHU) de Grenoble-Alpes, F-38000, Grenoble, France
| | - M Medici
- Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1406, University Grenoble-Alpes, F-38000, Grenoble, France.,Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1406, F-38000, Grenoble, France.,Pole Recherche, Centre Hospitalier Universitaire (CHU) de Grenoble-Alpes, F-38000, Grenoble, France
| | - J Ghelfi
- Clinique Universitaire de Radiologie et Imagerie Médicale, Centre Hospitalier Universitaire (CHU) de Grenoble-Alpes, F-38000, Grenoble, France.,Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1406, University Grenoble-Alpes, F-38000, Grenoble, France.,Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1406, F-38000, Grenoble, France.,Pole Recherche, Centre Hospitalier Universitaire (CHU) de Grenoble-Alpes, F-38000, Grenoble, France
| | - A Mounier
- Clinique Universitaire de Radiologie et Imagerie Médicale, Centre Hospitalier Universitaire (CHU) de Grenoble-Alpes, F-38000, Grenoble, France.,Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1406, University Grenoble-Alpes, F-38000, Grenoble, France.,Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1406, F-38000, Grenoble, France.,Pole Recherche, Centre Hospitalier Universitaire (CHU) de Grenoble-Alpes, F-38000, Grenoble, France
| | - I Bricault
- Clinique Universitaire de Radiologie et Imagerie Médicale, Centre Hospitalier Universitaire (CHU) de Grenoble-Alpes, F-38000, Grenoble, France.,Institut national de la santé et de la recherche médicale (Inserm) Centre d'Investigation Clinique (CIC) 1406, F-38000, Grenoble, France.,Techniques de l'Ingénierie Médicale et de la Complexité - Informatique, Mathématiques et Applications, Grenoble (TIMC-IMAG), University Grenoble-Alpes, F-38000, Grenoble, France.,Techniques de l'Ingénierie Médicale et de la Complexité - Informatique, Mathématiques et Applications, Grenoble (TIMC-IMAG), Centre national de la recherche scientifique (CNRS), F-38000, Grenoble, France.,Pole Sante Publique, Centre Hospitalier Universitaire (CHU) de Grenoble-Alpes, F-38000, Grenoble, France
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17
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Daher Z, Recorbet G, Solymosi K, Wienkoop S, Mounier A, Morandi D, Lherminier J, Wipf D, Dumas-Gaudot E, Schoefs B. Changes in plastid proteome and structure in arbuscular mycorrhizal roots display a nutrient starvation signature. Physiol Plant 2017; 159:13-29. [PMID: 27558913 DOI: 10.1111/ppl.12505] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/13/2016] [Revised: 06/17/2016] [Accepted: 07/18/2016] [Indexed: 05/21/2023]
Abstract
During arbuscular mycorrhizal symbiosis, arbuscule-containing root cortex cells display a proliferation of plastids, a feature usually ascribed to an increased plant anabolism despite the lack of studies focusing on purified root plastids. In this study, we investigated mycorrhiza-induced changes in plastidic pathways by performing a label-free comparative subcellular quantitative proteomic analysis targeted on plastid-enriched fractions isolated from Medicago truncatula roots, coupled to a cytological analysis of plastid structure. We identified 490 root plastid protein candidates, among which 79 changed in abundance upon mycorrhization, as inferred from spectral counting. According to cross-species sequence homology searches, the mycorrhiza-responsive proteome was enriched in proteins experimentally localized in thylakoids, whereas it was depleted of proteins ascribed predominantly to amyloplasts. Consistently, the analysis of plastid morphology using transmission electron microscopy indicated that starch depletion associated with the proliferation of membrane-free and tubular membrane-containing plastids was a feature specific to arbusculated cells. The loss of enzymes involved in carbon/nitrogen assimilation and provision of reducing power, coupled to macromolecule degradation events in the plastid-enriched fraction of mycorrhizal roots that paralleled lack of starch accumulation in arbusculated cells, lead us to propose that arbuscule functioning elicits a nutrient starvation and an oxidative stress signature that may prime arbuscule breakdown.
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Affiliation(s)
- Zeina Daher
- Agroécologie, AgroSup Dijon, CNRS, INRA, Univ. Bourgogne Franche-Comté, Pôle Interactions Plantes Microrganismes, Dijon cedex 21065, France
| | - Ghislaine Recorbet
- Agroécologie, AgroSup Dijon, CNRS, INRA, Univ. Bourgogne Franche-Comté, Pôle Interactions Plantes Microrganismes, Dijon cedex 21065, France
| | - Katalin Solymosi
- Department of Plant Anatomy, Eötvös Loránd University, Budapest H-1117, Hungary
| | - Stefanie Wienkoop
- Department of Molecular System Biology, University of Vienna, Vienna 1090, Austria
| | - Arnaud Mounier
- Agroécologie, AgroSup Dijon, CNRS, INRA, Univ. Bourgogne Franche-Comté, Pôle Interactions Plantes Microrganismes, Dijon cedex 21065, France
| | - Dominique Morandi
- Agroécologie, AgroSup Dijon, CNRS, INRA, Univ. Bourgogne Franche-Comté, Pôle Interactions Plantes Microrganismes, Dijon cedex 21065, France
| | - Jeannine Lherminier
- Agroécologie, AgroSup Dijon, CNRS, INRA, Univ. Bourgogne Franche-Comté, Pôle Interactions Plantes Microrganismes, Dijon cedex 21065, France
| | - Daniel Wipf
- Agroécologie, AgroSup Dijon, CNRS, INRA, Univ. Bourgogne Franche-Comté, Pôle Interactions Plantes Microrganismes, Dijon cedex 21065, France
| | - Eliane Dumas-Gaudot
- Agroécologie, AgroSup Dijon, CNRS, INRA, Univ. Bourgogne Franche-Comté, Pôle Interactions Plantes Microrganismes, Dijon cedex 21065, France
| | - Benoît Schoefs
- MicroMar, Mer, Molécules, Santé, UBL, Université du Maine, Le Mans Cedex 9 72085, France
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18
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Mirazón Lahr M, Rivera F, Power RK, Mounier A, Copsey B, Crivellaro F, Edung JE, Maillo Fernandez JM, Kiarie C, Lawrence J, Leakey A, Mbua E, Miller H, Muigai A, Mukhongo DM, Van Baelen A, Wood R, Schwenninger JL, Grün R, Achyuthan H, Wilshaw A, Foley RA. Inter-group violence among early Holocene hunter-gatherers of West Turkana, Kenya. Nature 2016; 529:394-8. [PMID: 26791728 DOI: 10.1038/nature16477] [Citation(s) in RCA: 139] [Impact Index Per Article: 17.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/31/2015] [Accepted: 11/23/2015] [Indexed: 11/09/2022]
Abstract
The nature of inter-group relations among prehistoric hunter-gatherers remains disputed, with arguments in favour and against the existence of warfare before the development of sedentary societies. Here we report on a case of inter-group violence towards a group of hunter-gatherers from Nataruk, west of Lake Turkana, which during the late Pleistocene/early Holocene period extended about 30 km beyond its present-day shore. Ten of the twelve articulated skeletons found at Nataruk show evidence of having died violently at the edge of a lagoon, into which some of the bodies fell. The remains from Nataruk are unique, preserved by the particular conditions of the lagoon with no evidence of deliberate burial. They offer a rare glimpse into the life and death of past foraging people, and evidence that warfare was part of the repertoire of inter-group relations among prehistoric hunter-gatherers.
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Affiliation(s)
- M Mirazón Lahr
- Leverhulme Centre for Human Evolutionary Studies, Department of Archaeology and Anthropology, University of Cambridge, Fitzwilliam Street, Cambridge CB2 1QH, UK.,Turkana Basin Institute, Nairobi, Kenya
| | - F Rivera
- Leverhulme Centre for Human Evolutionary Studies, Department of Archaeology and Anthropology, University of Cambridge, Fitzwilliam Street, Cambridge CB2 1QH, UK
| | - R K Power
- Leverhulme Centre for Human Evolutionary Studies, Department of Archaeology and Anthropology, University of Cambridge, Fitzwilliam Street, Cambridge CB2 1QH, UK
| | - A Mounier
- Leverhulme Centre for Human Evolutionary Studies, Department of Archaeology and Anthropology, University of Cambridge, Fitzwilliam Street, Cambridge CB2 1QH, UK
| | - B Copsey
- Leverhulme Centre for Human Evolutionary Studies, Department of Archaeology and Anthropology, University of Cambridge, Fitzwilliam Street, Cambridge CB2 1QH, UK
| | - F Crivellaro
- Leverhulme Centre for Human Evolutionary Studies, Department of Archaeology and Anthropology, University of Cambridge, Fitzwilliam Street, Cambridge CB2 1QH, UK
| | - J E Edung
- National Museums of Kenya, Jomo Kenyatta House, PO Box 152-30500, Lodwar, Kenya
| | - J M Maillo Fernandez
- Departamento de Prehistoria y Arqueologia, UNED, c/ Paseo Senda del Rey, 7, 28040 Madrid, Spain
| | - C Kiarie
- Turkana Basin Institute, Nairobi, Kenya
| | - J Lawrence
- Leverhulme Centre for Human Evolutionary Studies, Department of Archaeology and Anthropology, University of Cambridge, Fitzwilliam Street, Cambridge CB2 1QH, UK
| | - A Leakey
- Turkana Basin Institute, Nairobi, Kenya
| | - E Mbua
- National Museums of Kenya, PO Box 40658-00100, Nairobi, Kenya
| | - H Miller
- Leverhulme Centre for Human Evolutionary Studies, Department of Archaeology and Anthropology, University of Cambridge, Fitzwilliam Street, Cambridge CB2 1QH, UK
| | - A Muigai
- Jomo Kenyatta University of Agriculture and Technology, PO Box 62000-00200, Nairobi, Kenya
| | - D M Mukhongo
- Leverhulme Centre for Human Evolutionary Studies, Department of Archaeology and Anthropology, University of Cambridge, Fitzwilliam Street, Cambridge CB2 1QH, UK
| | - A Van Baelen
- Leverhulme Centre for Human Evolutionary Studies, Department of Archaeology and Anthropology, University of Cambridge, Fitzwilliam Street, Cambridge CB2 1QH, UK
| | - R Wood
- Research School of Earth Sciences, The Australian National University, Building 142, Mills Road, Acton, Australian Capital Territory 2601, Australia
| | - J-L Schwenninger
- Research Laboratory for Archaeology and the History of Art, University of Oxford, Dyson Perrins Building, South Parks Road, Oxford OX1 3QY, UK
| | - R Grün
- Research School of Earth Sciences, The Australian National University, Building 142, Mills Road, Acton, Australian Capital Territory 2601, Australia.,Research Centre for Human Evolution, Environmental Futures Research Institute, Griffith University, 170 Kessels Road, Nathan, Queensland 4111, Australia
| | - H Achyuthan
- Department of Geology, Anna University, Chennai, Tamil Nadu 600025, India
| | - A Wilshaw
- Leverhulme Centre for Human Evolutionary Studies, Department of Archaeology and Anthropology, University of Cambridge, Fitzwilliam Street, Cambridge CB2 1QH, UK
| | - R A Foley
- Leverhulme Centre for Human Evolutionary Studies, Department of Archaeology and Anthropology, University of Cambridge, Fitzwilliam Street, Cambridge CB2 1QH, UK.,Turkana Basin Institute, Nairobi, Kenya
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19
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20
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Edel-Hermann V, Gautheron N, Mounier A, Steinberg C. Fusarium diversity in soil using a specific molecular approach and a cultural approach. J Microbiol Methods 2015; 111:64-71. [PMID: 25655778 DOI: 10.1016/j.mimet.2015.01.026] [Citation(s) in RCA: 36] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2014] [Revised: 01/30/2015] [Accepted: 01/30/2015] [Indexed: 12/30/2022]
Abstract
Fusarium species are ubiquitous in soil. They cause plant and human diseases and can produce mycotoxins. Surveys of Fusarium species diversity in environmental samples usually rely on laborious culture-based methods. In the present study, we have developed a molecular method to analyze Fusarium diversity directly from soil DNA. We designed primers targeting the translation elongation factor 1-alpha (EF-1α) gene and demonstrated their specificity toward Fusarium using a large collection of fungi. We used the specific primers to construct a clone library from three contrasting soils. Sequence analysis confirmed the specificity of the assay, with 750 clones identified as Fusarium and distributed among eight species or species complexes. The Fusarium oxysporum species complex (FOSC) was the most abundant one in the three soils, followed by the Fusarium solani species complex (FSSC). We then compared our molecular approach results with those obtained by isolating Fusarium colonies on two culture media and identifying species by sequencing part of the EF-1α gene. The 750 isolates were distributed into eight species or species complexes, with the same dominant species as with the cloning method. Sequence diversity was much higher in the clone library than in the isolate collection. The molecular approach proved to be a valuable tool to assess Fusarium diversity in environmental samples. Combined with high throughput sequencing, it will allow for in-depth analysis of large numbers of samples.
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Affiliation(s)
| | | | - Arnaud Mounier
- INRA, UMR1347 Agroécologie, BP 86510, F-21000 Dijon, France
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21
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Chouraki V, De Bruijn RFAG, Chapuis J, Bis JC, Reitz C, Schraen S, Ibrahim-Verbaas CA, Grenier-Boley B, Delay C, Rogers R, Demiautte F, Mounier A, Fitzpatrick AL, Berr C, Dartigues JF, Uitterlinden AG, Hofman A, Breteler M, Becker JT, Lathrop M, Schupf N, Alpérovitch A, Mayeux R, van Duijn CM, Buée L, Amouyel P, Lopez OL, Ikram MA, Tzourio C, Lambert JC. A genome-wide association meta-analysis of plasma Aβ peptides concentrations in the elderly. Mol Psychiatry 2014; 19:1326-35. [PMID: 24535457 PMCID: PMC4418478 DOI: 10.1038/mp.2013.185] [Citation(s) in RCA: 31] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Received: 03/08/2013] [Revised: 10/08/2013] [Accepted: 10/31/2013] [Indexed: 11/09/2022]
Abstract
Amyloid beta (Aβ) peptides are the major components of senile plaques, one of the main pathological hallmarks of Alzheimer disease (AD). However, Aβ peptides' functions are not fully understood and seem to be highly pleiotropic. We hypothesized that plasma Aβ peptides concentrations could be a suitable endophenotype for a genome-wide association study (GWAS) designed to (i) identify novel genetic factors involved in amyloid precursor protein metabolism and (ii) highlight relevant Aβ-related physiological and pathophysiological processes. Hence, we performed a genome-wide association meta-analysis of four studies totaling 3 528 healthy individuals of European descent and for whom plasma Aβ1-40 and Aβ1-42 peptides levels had been quantified. Although we did not observe any genome-wide significant locus, we identified 18 suggestive loci (P<1 × 10(-)(5)). Enrichment-pathway analyses revealed canonical pathways mainly involved in neuronal functions, for example, axonal guidance signaling. We also assessed the biological impact of the gene most strongly associated with plasma Aβ1-42 levels (cortexin 3, CTXN3) on APP metabolism in vitro and found that the gene protein was able to modulate Aβ1-42 secretion. In conclusion, our study results suggest that plasma Aβ peptides levels are valid endophenotypes in GWASs and can be used to characterize the metabolism and functions of APP and its metabolites.
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Affiliation(s)
- V Chouraki
- INSERM U744, Lille, France,Institut pasteur de Lille, Lille, France,Université Lille-Nord de France, Lille, France
| | - RFAG De Bruijn
- Department of Epidemiology, Erasmus MC University Medical Center,
Rotterdam, The Netherlands,Department of Neurology, Erasmus MC University Medical Center,
Rotterdam, The Netherlands,Netherlands Consortium for Healthy Aging, Leiden, The
Netherlands
| | - J Chapuis
- INSERM U744, Lille, France,Institut pasteur de Lille, Lille, France,Université Lille-Nord de France, Lille, France
| | - JC Bis
- Cardiovascular Health Resarch Unit and Department of Medicine,
University of Washington, Seattle, WA, USA
| | - C Reitz
- The Taub Institute for Research on Alzheimer’s Disease and
the Aging Brain, Columbia University, New York, NY, USA,The Gertrude H. Sergievsky Center, Columbia University, New York,
NY, USA,The Department of Neurology, College of Physicians and Surgeons,
Columbia University, New York, NY, USA
| | - S Schraen
- Université Lille-Nord de France, Lille, France,Inserm U837, Jean-Pierre Aubert Research Centre, Lille,
France,Centre Hospitalier Régional Universitaire de Lille, Lille,
France
| | - CA Ibrahim-Verbaas
- Department of Epidemiology, Erasmus MC University Medical Center,
Rotterdam, The Netherlands,Department of Neurology, Erasmus MC University Medical Center,
Rotterdam, The Netherlands
| | - B Grenier-Boley
- INSERM U744, Lille, France,Institut pasteur de Lille, Lille, France,Université Lille-Nord de France, Lille, France
| | - C Delay
- INSERM U744, Lille, France,Institut pasteur de Lille, Lille, France,Université Lille-Nord de France, Lille, France
| | - R Rogers
- The Taub Institute for Research on Alzheimer’s Disease and
the Aging Brain, Columbia University, New York, NY, USA
| | - F Demiautte
- INSERM U744, Lille, France,Institut pasteur de Lille, Lille, France,Université Lille-Nord de France, Lille, France
| | - A Mounier
- INSERM U744, Lille, France,Institut pasteur de Lille, Lille, France,Université Lille-Nord de France, Lille, France
| | - AL Fitzpatrick
- Cardiovascular Health Resarch Unit and Department of Medicine,
University of Washington, Seattle, WA, USA
| | | | - C Berr
- INSERM U888, Hôpital La Colombière, Montpellier,
France
| | - J-F Dartigues
- INSERM U593, Victor Segalen University, Bordeaux, France
| | - AG Uitterlinden
- Netherlands Consortium for Healthy Aging, Leiden, The
Netherlands,Department of Internal medicine, Leiden, Erasmus MC University
Medical Center, Rotterdam, The Netherlands
| | - A Hofman
- Department of Epidemiology, Erasmus MC University Medical Center,
Rotterdam, The Netherlands,Netherlands Consortium for Healthy Aging, Leiden, The
Netherlands
| | - M Breteler
- Department of Epidemiology, Erasmus MC University Medical Center,
Rotterdam, The Netherlands,DZNE, German Center for Neurodegenerative Diseases, Bonn,
Germany
| | - JT Becker
- Alzheimer’s Disease Research Center, Departments of
Neurology, Psychiatry and Psychology, University of Pittsburgh School of Medicine,
Pittsburgh, PA, USA
| | - M Lathrop
- Fondation Jean Dausset—Centre d’Etude du
Polymorphisme Humain, Paris, France,Centre National de Genotypage, Institut Genomique, Commissariat
à l’énergie Atomique, Evry, France
| | - N Schupf
- The Gertrude H. Sergievsky Center, Columbia University, New York,
NY, USA
| | | | - R Mayeux
- The Taub Institute for Research on Alzheimer’s Disease and
the Aging Brain, Columbia University, New York, NY, USA,The Department of Psychiatry, College of Physicians and Surgeons,
Columbia University, New York, NY, USA
| | - CM van Duijn
- Department of Epidemiology, Erasmus MC University Medical Center,
Rotterdam, The Netherlands,Netherlands Consortium for Healthy Aging, Leiden, The
Netherlands
| | - L Buée
- Université Lille-Nord de France, Lille, France,Inserm U837, Jean-Pierre Aubert Research Centre, Lille,
France,Centre Hospitalier Régional Universitaire de Lille, Lille,
France
| | - P Amouyel
- INSERM U744, Lille, France,Institut pasteur de Lille, Lille, France,Université Lille-Nord de France, Lille, France,Centre Hospitalier Régional Universitaire de Lille, Lille,
France
| | - OL Lopez
- Alzheimer’s Disease Research Center, Departments of
Neurology, Psychiatry and Psychology, University of Pittsburgh School of Medicine,
Pittsburgh, PA, USA
| | - MA Ikram
- Department of Epidemiology, Erasmus MC University Medical Center,
Rotterdam, The Netherlands,Department of Neurology, Erasmus MC University Medical Center,
Rotterdam, The Netherlands,Netherlands Consortium for Healthy Aging, Leiden, The
Netherlands,Department of Radiology, Erasmus MC University Medical Center,
Rotterdam, The Netherlands
| | - C Tzourio
- INSERM U593, Victor Segalen University, Bordeaux, France,INSERM U708, Paris, France
| | - J-C Lambert
- INSERM U744, Lille, France,Institut pasteur de Lille, Lille, France,Université Lille-Nord de France, Lille, France
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22
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Guillier C, Cacas JL, Recorbet G, Deprêtre N, Mounier A, Mongrand S, Simon-Plas F, Wipf D, Dumas-Gaudot E. Direct purification of detergent-insoluble membranes from Medicago truncatula root microsomes: comparison between floatation and sedimentation. BMC Plant Biol 2014; 14:255. [PMID: 25267185 PMCID: PMC4193990 DOI: 10.1186/s12870-014-0255-x] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/27/2014] [Accepted: 09/20/2014] [Indexed: 05/05/2023]
Abstract
BACKGROUND Membrane microdomains are defined as highly dynamic, sterol- and sphingolipid-enriched domains that resist to solubilization by non-ionic detergents. In plants, these so-called Detergent Insoluble Membrane (DIM) fractions have been isolated from plasma membrane by using conventional ultracentrifugation on density gradient (G). In animals, a rapid (R) protocol, based on sedimentation at low speed, which avoids the time-consuming sucrose gradient, has also been developed to recover DIMs from microsomes as starting material. In the current study, we sought to compare the ability of the Rapid protocol versus the Gradient one for isolating DIMs directly from microsomes of M. truncatula roots. For that purpose, Triton X-100 detergent-insoluble fractions recovered with the two methods were analyzed and compared for their sterol/sphingolipid content and proteome profiles. RESULTS Inferred from sterol enrichment, presence of typical sphingolipid long-chain bases from plants and canonical DIM protein markers, the possibility to prepare DIMs from M. truncatula root microsomes was confirmed both for the Rapid and Gradient protocols. Contrary to sphingolipids, the sterol and protein profiles of DIMs were found to depend on the method used. Namely, DIM fractions were differentially enriched in spinasterol and only shared 39% of common proteins as assessed by GeLC-MS/MS profiling. Quantitative analysis of protein indicated that each purification procedure generated a specific subset of DIM-enriched proteins from Medicago root microsomes. Remarkably, these two proteomes were found to display specific cellular localizations and biological functions. In silico analysis of membrane-associative features within R- and G-enriched proteins, relative to microsomes, showed that the most noticeable difference between the two proteomes corresponded to an increase in the proportion of predicted signal peptide-containing proteins after sedimentation (R) compared to its decrease after floatation (G), suggesting that secreted proteins likely contribute to the specificity of the R-DIM proteome. CONCLUSIONS Even though microsomes were used as initial material, we showed that the protein composition of the G-DIM fraction still mostly mirrored that of plasmalemma-originating DIMs conventionally retrieved by floatation. In parallel, the possibility to isolate by low speed sedimentation DIM fractions that seem to target the late secretory pathway supports the existence of plant microdomains in other organelles.
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Affiliation(s)
- Christelle Guillier
- />UMR1347 INRA/Agrosup/Université de Bourgogne Agroécologie, Pôle Interactions Plantes-Microorganismes - ERL 6300 CNRS, 17 Rue Sully, BP 86510, F-21065 Dijon Cedex, France
| | - Jean-Luc Cacas
- />UMR1347 INRA/Agrosup/Université de Bourgogne Agroécologie, Pôle Interactions Plantes-Microorganismes - ERL 6300 CNRS, 17 Rue Sully, BP 86510, F-21065 Dijon Cedex, France
- />CNRS, Laboratoire de Biogenèse Membranaire (LBM), Université Bordeaux UMR 5200, F-33000 Villenave d’Ornon, France
| | - Ghislaine Recorbet
- />UMR1347 INRA/Agrosup/Université de Bourgogne Agroécologie, Pôle Interactions Plantes-Microorganismes - ERL 6300 CNRS, 17 Rue Sully, BP 86510, F-21065 Dijon Cedex, France
| | - Nicolas Deprêtre
- />UMR CSGA: Centre des Sciences du Goût et de l’alimentation, UMR 6265 CNRS, 1324 INRA-uB, Dijon, France
| | - Arnaud Mounier
- />UMR1347 INRA/Agrosup/Université de Bourgogne Agroécologie, Pôle Interactions Plantes-Microorganismes - ERL 6300 CNRS, 17 Rue Sully, BP 86510, F-21065 Dijon Cedex, France
| | - Sébastien Mongrand
- />CNRS, Laboratoire de Biogenèse Membranaire (LBM), Université Bordeaux UMR 5200, F-33000 Villenave d’Ornon, France
| | - Françoise Simon-Plas
- />UMR1347 INRA/Agrosup/Université de Bourgogne Agroécologie, Pôle Interactions Plantes-Microorganismes - ERL 6300 CNRS, 17 Rue Sully, BP 86510, F-21065 Dijon Cedex, France
| | - Daniel Wipf
- />UMR1347 INRA/Agrosup/Université de Bourgogne Agroécologie, Pôle Interactions Plantes-Microorganismes - ERL 6300 CNRS, 17 Rue Sully, BP 86510, F-21065 Dijon Cedex, France
| | - Eliane Dumas-Gaudot
- />UMR1347 INRA/Agrosup/Université de Bourgogne Agroécologie, Pôle Interactions Plantes-Microorganismes - ERL 6300 CNRS, 17 Rue Sully, BP 86510, F-21065 Dijon Cedex, France
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23
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Abdallah C, Valot B, Guillier C, Mounier A, Balliau T, Zivy M, van Tuinen D, Renaut J, Wipf D, Dumas-Gaudot E, Recorbet G. The membrane proteome of Medicago truncatula roots displays qualitative and quantitative changes in response to arbuscular mycorrhizal symbiosis. J Proteomics 2014; 108:354-68. [PMID: 24925269 DOI: 10.1016/j.jprot.2014.05.028] [Citation(s) in RCA: 33] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2013] [Revised: 04/07/2014] [Accepted: 05/12/2014] [Indexed: 11/25/2022]
Abstract
UNLABELLED Arbuscular mycorrhizal (AM) symbiosis that associates roots of most land plants with soil-borne fungi (Glomeromycota), is characterized by reciprocal nutritional benefits. Fungal colonization of plant roots induces massive changes in cortical cells where the fungus differentiates an arbuscule, which drives proliferation of the plasma membrane. Despite the recognized importance of membrane proteins in sustaining AM symbiosis, the root microsomal proteome elicited upon mycorrhiza still remains to be explored. In this study, we first examined the qualitative composition of the root membrane proteome of Medicago truncatula after microsome enrichment and subsequent in depth analysis by GeLC-MS/MS. The results obtained highlighted the identification of 1226 root membrane protein candidates whose cellular and functional classifications predispose plastids and protein synthesis as prevalent organelle and function, respectively. Changes at the protein abundance level between the membrane proteomes of mycorrhizal and nonmycorrhizal roots were further monitored by spectral counting, which retrieved a total of 96 proteins that displayed a differential accumulation upon AM symbiosis. Besides the canonical markers of the periarbuscular membrane, new candidates supporting the importance of membrane trafficking events during mycorrhiza establishment/functioning were identified, including flotillin-like proteins. The data have been deposited to the ProteomeXchange with identifier PXD000875. BIOLOGICAL SIGNIFICANCE During arbuscular mycorrhizal symbiosis, one of the most widespread mutualistic associations in nature, the endomembrane system of plant roots is believed to undergo qualitative and quantitative changes in order to sustain both the accommodation process of the AM fungus within cortical cells and the exchange of nutrients between symbionts. Large-scale GeLC-MS/MS proteomic analysis of the membrane fractions from mycorrhizal and nonmycorrhizal roots of M. truncatula coupled to spectral counting retrieved around one hundred proteins that displayed changes in abundance upon mycorrhizal establishment. The symbiosis-related membrane proteins that were identified mostly function in signaling/membrane trafficking and nutrient uptake regulation. Besides extending the coverage of the root membrane proteome of M. truncatula, new candidates involved in the symbiotic program emerged from the current study, which pointed out a dynamic reorganization of microsomal proteins during the accommodation of AM fungi within cortical cells.
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Affiliation(s)
- Cosette Abdallah
- UMR Agroécologie INRA 1347/Agrosup/Université de Bourgogne, Pôle Interactions Plantes Microorganismes ERL 6300 CNRS, BP 86510, 21065 Dijon Cedex, France; Environmental and Agro-Biotechnologies Department, Centre de Recherche Public-Gabriel Lippmann, 41, rue du Brill, Belvaux L-4422, Luxembourg.
| | - Benoit Valot
- UMR de Génétique Végétale, PAPPSO, Ferme du Moulon, 91190 Gif sur Yvette, France.
| | - Christelle Guillier
- UMR Agroécologie INRA 1347/Agrosup/Université de Bourgogne, Pôle Interactions Plantes Microorganismes ERL 6300 CNRS, BP 86510, 21065 Dijon Cedex, France.
| | - Arnaud Mounier
- UMR Agroécologie INRA 1347/Agrosup/Université de Bourgogne, Pôle Interactions Plantes Microorganismes ERL 6300 CNRS, BP 86510, 21065 Dijon Cedex, France.
| | - Thierry Balliau
- UMR de Génétique Végétale, PAPPSO, Ferme du Moulon, 91190 Gif sur Yvette, France.
| | - Michel Zivy
- UMR de Génétique Végétale, PAPPSO, Ferme du Moulon, 91190 Gif sur Yvette, France.
| | - Diederik van Tuinen
- UMR Agroécologie INRA 1347/Agrosup/Université de Bourgogne, Pôle Interactions Plantes Microorganismes ERL 6300 CNRS, BP 86510, 21065 Dijon Cedex, France.
| | - Jenny Renaut
- Environmental and Agro-Biotechnologies Department, Centre de Recherche Public-Gabriel Lippmann, 41, rue du Brill, Belvaux L-4422, Luxembourg.
| | - Daniel Wipf
- UMR Agroécologie INRA 1347/Agrosup/Université de Bourgogne, Pôle Interactions Plantes Microorganismes ERL 6300 CNRS, BP 86510, 21065 Dijon Cedex, France.
| | - Eliane Dumas-Gaudot
- UMR Agroécologie INRA 1347/Agrosup/Université de Bourgogne, Pôle Interactions Plantes Microorganismes ERL 6300 CNRS, BP 86510, 21065 Dijon Cedex, France.
| | - Ghislaine Recorbet
- Environmental and Agro-Biotechnologies Department, Centre de Recherche Public-Gabriel Lippmann, 41, rue du Brill, Belvaux L-4422, Luxembourg.
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Mounier A. Définition du taxon Homo heidelbergensis Schoetensack, 1908 : analyse phénétique du massif facial supérieur des fossiles du genre Homo du Pléistocène moyen. ACTA ACUST UNITED AC 2011. [DOI: 10.1007/s13219-011-0038-y] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
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Lehingue Y, Locard E, Vivant JF, Mounier A, Serban A, Remontet L, Porquet D, Joly MO, Mamelle N. Evolution of GH secretion in urine during an in-patient slimming course in obese children. Int J Obes (Lond) 2000; 24:363-8. [PMID: 10757632 DOI: 10.1038/sj.ijo.0801158] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Submit a Manuscript] [Subscribe] [Scholar Register] [Indexed: 11/09/2022]
Abstract
OBJECTIVE To estimate the change in GH excretion in urine (GH-U) during a slimming course, and if increased, to assess the components of the course related to the increase in obese children. DESIGN Observational follow-up study of patients admitted for primary obesity to an in-patient slimming course lasting at least 10 weeks. SUBJECTS 48 complete observations out of 54 consecutive pre-pubertal patients admitted to a paediatric centre for treatment of primary obesity (BMI greater than the 90th percentile of the national reference curves). MEASUREMENTS GH excretion in urine by immunoradiometric assay, at entry and after 10 weeks, various anthropometric measurements, nutritional intake and departure from the prescribed diet, time spent in physical activity, sleep duration. RESULTS A mean decrease of 0.90 standard deviations for BMI was accompanied by a 34% increase of GH-U. Time spent in physical activity was the only component of the course found to be related to the magnitude of GH-U increase. CONCLUSION The results of this observational study confirm that GH-U is increased after a slimming course in children, and suggest that physical activity is a major contributor to the restoration of normal GH-U levels.
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Affiliation(s)
- Y Lehingue
- INSERM U265, 151 cours A. Tlhomas, Lyon, France.
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Abstract
The effects of dietary levels of tryptophan (TRP) and protein on voluntary feed intake, growth performance, muscle pH, and brain indoleamine and catecholamine concentrations were studied in an experiment involving 48 crossbred Piétrain x Large White pigs (38 kg initial weight). Equal numbers of females, intact males, and barrows were used and they were given ad libitum access to feed during the 28-d experiment. Four dietary treatments were compared in a 2 x 2 factorial arrangement, with the following levels of analyzed TRP and CP: 1) .12 and .16% TRP, suboptimum and optimum for growth, respectively, 2) 12.7% CP of a diet based on corn-soybean meal and adequately balanced for limiting essential amino acids other than TRP; and 16.7% CP diet with additional protein from corn gluten meal. Dietary CP interacted with TRP on feed intake and growth, with a greater depressive effect at .12% TRP than at .16% TRP in the three genders. Norepinephrine concentration, which was the highest in the preoptic area, was higher in females than in intact or castrated males. Serotonin concentration was increased by TRP supplementation in the different brain regions. Additional CP depressed serotonin concentration more at .12% TRP than at .16% TRP. The greater sensitivity of feed intake and growth of pigs, especially females, to TRP deficiency in the presence of additional CP may have been related to a more critical serotonergic activity, when hypothalamic serotonin concentration fell below a threshold level. Supplemental TRP increased muscle pH, both at 45 min and 24 h after death, in ham (adductor femoris and semimembranosus) and loin (longissimus), suggesting a sedative effect of TRP for reducing stress response.
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Affiliation(s)
- Y Henry
- Institut National de la Recherche Agronomique, Station de Recherches Porcines, Saint-Gilles, France
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Mourot J, Peiniau P, Mounier A. Effets de l'acide linoléique alimentaire sur l'activité des enzymes de la lipogenèse dans les tissus adipeux chez le porc. ACTA ACUST UNITED AC 1994. [DOI: 10.1051/rnd:19940304] [Citation(s) in RCA: 16] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
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Février C, Mourot J, Jaguelin Y, Mounier A, Lebreton Y. Utilisations digestives comparées des laits UHT de chèvre et de vache. Effets nutritionnels de la gélification. Utilisation du modèle porcin. ACTA ACUST UNITED AC 1993. [DOI: 10.1051/lait:19935-656] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022]
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