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294 Research products

  • SDSN - Greece
  • 2014-2023
  • Publications
  • Research software
  • English
  • Mémoires en Sciences de l'Information et de la Communication
  • Hal-Diderot
  • Hyper Article en Ligne - Sciences de l'Homme et de la Société

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  • Authors: Milesi, Pascal; Kastally, Chedly; Dauphin, Benjamin; Cervantes, Sandra; +23 Authors

    Past environmental changes have shaped the demographic history and genetic diversity of natural populations, yet the timescale and strength of these effects have not been investigated systematically and simultaneously for multiple phylogenetically distant species. We performed comparative population genomic analyses and demographic inference for seven ecologically contrasting European tree species sampled across their ranges. While patterns of genetic diversity and differentiation were species-specific and best explained jointly by each species’ geographic range and dispersal ability, ancient population expansion events were shared and synchronous across species. Effective population sizes increased or remained stable over time, indicating that despite major changes in their geographic ranges, major forest tree species have been remarkably genetically resilient to the environmental challenges of repeated glacial cycles. One-Sentence Summary Population genomic analyses reveal demographic events across millions of years for seven forest tree species across Europe.

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  • Authors: Vandeputte, Marc;

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  • Authors: Vandeputte, Marc;

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  • Authors: Campos, Pierre-Eric; Herbette, Gaëtan; Fougère, Laetitia; Clerc, Patricia; +5 Authors

    International audience; A chemical study of the CH2Cl2−MeOH (1:1) extract from the sponge Ernsta naturalis collected in Rodrigues (Mauritius) based on a molecular networking dereplication strategy highlighted one novel aminopyrimidone alkaloid compound, ernstine A (1), seven new aminoimidazole alkaloid compounds, phorbatopsins D–E (2, 3), calcaridine C (4), naamines H–I (5, 7), naamidines J–K (6, 8), along with the known thymidine (9). Their structures were established by spectroscopic analysis (1D and 2D NMR spectra and HRESIMS data). To improve the investigation of this unstudied calcareous marine sponge, a metabolomic study by molecular networking was conducted. The isolated molecules are distributed in two clusters of interest. Naamine and naamidine derivatives are grouped together with ernstine in the first cluster of twenty-three molecules. Phorbatopsin derivatives and calcaridine C are grouped together in a cluster of twenty-one molecules. Interpretation of the MS/MS spectra of other compounds of these clusters with structural features close to the isolated ones allowed us to propose a structural hypothesis for 16 compounds, 5 known and 11 potentially new.

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  • Authors: Gaki, Dimitra; Felekis, Serafim; Vlahos, George; Herzon, Irina; +11 Authors

    International audience; This paper aims to present the results of the Erasmus + RUR'UP project that developed educational tools for scientists, public managers, practitioners, and agricultural advisors living and working in peripheral rural areas. Based on the assessment of the educational needs and gaps for the sustainable development of the EU peripheral rural areas of Greece.

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  • Authors: Farigoule, Pauline; Chartois, Marguerite; Mesmin, Xavier; Lambert, Maxime; +3 Authors

    International audience; Simple SummaryAlthough global change is expected to modify the threat posed by plant pathogens, not much is known about how a changing climate will affect the epidemiology of generalist vector-borne diseases. In the present study, we developed a high-throughput screening method to test for the presence of a deadly plant pathogen, Xylella fastidiosa, in its insect vectors. Based on a four-year survey in climatically distinct areas of the island of Corsica (France), we found a significant positive correlation between the frequency of insect vectors positive for X. fastidiosa and temperature. We observed that a higher prevalence in insects corresponded with milder winters. We used future climate projections up to the year 2100, and found that the risk for X. fastidiosa outbreak will increase in the future. While the proportion of vectors that carry the pathogen should increase, the climate conditions will remain suitable for the bacterium and its main vector, with possible shifts towards higher elevations. Besides calling for research efforts to limit the incidence of plant diseases in temperate zones, this works reveals that recent molecular technologies could and should be used for massive screening of pathogens in vectors in order to scale-up surveillance and management efforts.AbstractGlobal change is expected to modify the threat posed by pathogens to plants. However, little is known regarding how a changing climate will influence the epidemiology of generalist vector-borne diseases. We developed a high-throughput screening method to test for the presence of a deadly plant pathogen, Xylella fastidiosa, in its insect vectors. Then, using data from a four-year survey in climatically distinct areas of Corsica (France), we demonstrated a positive correlation between the proportion of vectors positive to X. fastidiosa and temperature. Notably, a higher prevalence corresponded with milder winters. Our projections up to 2100 indicate an increased risk of outbreaks. While the proportion of vectors that carry the pathogen should increase, the climate conditions will remain suitable for the bacterium and its main vector, with possible range shifts towards a higher elevation. Besides calling for research efforts to limit the incidence of plant diseases in the temperate zone, this work reveals that recent molecular technologies could and should be used for massive screening of pathogens in vectors to scale-up surveillance and management efforts.

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  • Authors: Guillemoto, Quentin; Devau, Nicolas; Picot-Colbeaux, Géraldine; Valdes, Danièle; +5 Authors

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  • Authors: Picot-Colbeaux, Géraldine; Guillemoto, Quentin; Thierion, Charlotte; Wissocq, Aubéry; +5 Authors

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  • Authors: Astruc, Jean Michel; Buisson, Diane; Clément, Virginie; Lagriffoul, Gilles; +5 Authors

    International audience; In France, dairy sheep and goats have developed efficient breeding schemes, whose annual genetic gain ranges from 0.10 to 0.27 genetic standard deviation of the total merit index, according to the breeds. From 2015 to 2020, the 5 dairy sheep breeds and 2 main dairy goat breeds have shifted to full genomic programs, based on reference population constituted of AI progeny-tested males. Currently, the breeding goals are similar for almost all the selected breeds and may be per se qualified as balanced, since they include efficiency criteria (milk yield and content), resilience criteria (udder health, resistance to scrapie), and adaptation to mechanic milking in order to mitigate the workload of the farmer in the milking parlour (udder morphology). There are increasing expectations for improving sustainability, robustness and resilience while still increasing efficiency. These new objectives are emphasized by the different stakeholders: the farmers, the industry, but also the consumers, the citizens. Opportunities occur to cope with these requests: a larger efficiency of selection offered by genomic programs allowing to consider new traits to select, new technologies and methods to limit the phenotyping costs (eg. use of MIR spectra), awareness and consent of all stakeholders to bring new challenges at the agenda (climate change, growing resistance to antibiotics or anthelmintics). Various recent or on-going projects (eg. iSAGE, RUSTIC, ARDI, SMARTER) are addressing the topics of adaptation, sustainability, resilience in small ruminants. Through the French dairy sheep and goat illustration, we propose to explore the following ways, that are the core objectives of the on-going SMARTER project: breeding for new efficiency and resilience traits in a context of more agro-ecological systems and pursuit of self-sufficiency in the feeding systems; benefiting from international harmonization and cooperation; tackling the genotype x environment interactions; sharing the ideas and solutions across the wider range of stakeholders.; En France, les brebis et chèvres laitières bénéficient de schémas de sélection efficaces, dont le pro-grès génétique annuel varie, selon la race, entre 0.10 et 0.27 écart-type génétique. De 2015 à 2020, les 5 racesovines laitières et les 2 races caprines en sélection ont basculé vers des schémas de sélection génomiques,basés sur des populations de référence constituées de mâles d’IA testés sur descendance. Actuellement, lesobjectifs de sélection, assez similaires d’une race à l’autre, peuvent être qualifiés d’équilibrés, car ils incluentdes critères de production et d’efficience (quantité et richesse du lait), des critères de résilience (santé de lamamelle, résistance à la tremblante) et d’adaptation à la traite mécanique (morphologie de la mamelle). Desattentes, soutenues par l’ensemble des acteurs des filières, sont fortes pour améliorer la durabilité, la robus-tesse, la résilience tout en améliorant l’efficience des animaux. Des opportunités existent pour traiter ces de-mandes : plus grande efficacité de la sélection offerte par la génomique, nouvelles technologies ou méthodes,prise de conscience et consentement des acteurs pour mettre en avant ces nouveaux challenges (changementclimatique, résistance aux antibiotiques et aux anthelminthiques). Plusieurs projets, récents ou en cours (ex.iSAGE, RUSTIC, ARDI, SMARTER), abordent les questions d’adaptation, de durabilité et de résilience en pe-tits ruminants. Au travers de l’exemple des chèvres et brebis laitières françaises, nous proposons de balise les thèmes suivants, qui sont au cœur du projet SMARTER: la sélection de nouveaux caractères d’efficienceet de résilience dans une contexte d’intérêt croissant pour des systèmes plus agro-écologiques, recherchantplus d’autonomie alimentaire; l’intérêt de l’harmonisation et de la coopération internationale; les interactionsgénotypes x milieu ; la partage des idées et des solutions par un large réseau d’acteurs et d’utilisateurs de lagénétique et de la production de petits ruminant

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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Munch, Mélanie; Buche, Patrice; Dervaux, Stéphane; Breysse, Amélie; +6 Authors

    International audience; Due to the rising amount of plastic waste generated each year, multiple questions are emerging about their harmful long-term effects on the environment, the ecosystems and human health. One possible strategy to mitigate these issues is to substitute conventional plastics by materials fully biodegradable in natural conditions, such as poly(3-hydroxybutyrate-co-3-hydroxyvalerate) (PHBV). In order to decrease the overall cost and environmental impact of PHBV-based materials while modulating their technical performance, PHBV can be combined with lignocellulosic fillers. In this article, a total of 88 formulations of PHBV-based biocomposites has been collected, distributed over 5 interdisciplinary projects involving computer scientists, data scientists and biomass processing experts for food and bio-based material production. Available data concern the technical process descriptions, including the description of each step and the different observations measured. These data are stored in a knowledge base that can be queried on the Web.

    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ Agritroparrow_drop_down
    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Agritrop
    Article . 2022
    Data sources: Agritrop
    image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    https://doi.org/10.1016/j.dib....
    Article
    License: Elsevier TDM
    Data sources: Sygma
    HAL Descartes
    Article . 2022
    License: CC BY
    Data sources: HAL Descartes
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      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/ Agritroparrow_drop_down
      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
      Agritrop
      Article . 2022
      Data sources: Agritrop
      image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
      https://doi.org/10.1016/j.dib....
      Article
      License: Elsevier TDM
      Data sources: Sygma
      HAL Descartes
      Article . 2022
      License: CC BY
      Data sources: HAL Descartes
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294 Research products
  • Authors: Milesi, Pascal; Kastally, Chedly; Dauphin, Benjamin; Cervantes, Sandra; +23 Authors

    Past environmental changes have shaped the demographic history and genetic diversity of natural populations, yet the timescale and strength of these effects have not been investigated systematically and simultaneously for multiple phylogenetically distant species. We performed comparative population genomic analyses and demographic inference for seven ecologically contrasting European tree species sampled across their ranges. While patterns of genetic diversity and differentiation were species-specific and best explained jointly by each species’ geographic range and dispersal ability, ancient population expansion events were shared and synchronous across species. Effective population sizes increased or remained stable over time, indicating that despite major changes in their geographic ranges, major forest tree species have been remarkably genetically resilient to the environmental challenges of repeated glacial cycles. One-Sentence Summary Population genomic analyses reveal demographic events across millions of years for seven forest tree species across Europe.

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  • Authors: Vandeputte, Marc;

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  • Authors: Vandeputte, Marc;

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  • Authors: Campos, Pierre-Eric; Herbette, Gaëtan; Fougère, Laetitia; Clerc, Patricia; +5 Authors

    International audience; A chemical study of the CH2Cl2−MeOH (1:1) extract from the sponge Ernsta naturalis collected in Rodrigues (Mauritius) based on a molecular networking dereplication strategy highlighted one novel aminopyrimidone alkaloid compound, ernstine A (1), seven new aminoimidazole alkaloid compounds, phorbatopsins D–E (2, 3), calcaridine C (4), naamines H–I (5, 7), naamidines J–K (6, 8), along with the known thymidine (9). Their structures were established by spectroscopic analysis (1D and 2D NMR spectra and HRESIMS data). To improve the investigation of this unstudied calcareous marine sponge, a metabolomic study by molecular networking was conducted. The isolated molecules are distributed in two clusters of interest. Naamine and naamidine derivatives are grouped together with ernstine in the first cluster of twenty-three molecules. Phorbatopsin derivatives and calcaridine C are grouped together in a cluster of twenty-one molecules. Interpretation of the MS/MS spectra of other compounds of these clusters with structural features close to the isolated ones allowed us to propose a structural hypothesis for 16 compounds, 5 known and 11 potentially new.

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  • Authors: Gaki, Dimitra; Felekis, Serafim; Vlahos, George; Herzon, Irina; +11 Authors

    International audience; This paper aims to present the results of the Erasmus + RUR'UP project that developed educational tools for scientists, public managers, practitioners, and agricultural advisors living and working in peripheral rural areas. Based on the assessment of the educational needs and gaps for the sustainable development of the EU peripheral rural areas of Greece.

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  • Authors: Farigoule, Pauline; Chartois, Marguerite; Mesmin, Xavier; Lambert, Maxime; +3 Authors

    International audience; Simple SummaryAlthough global change is expected to modify the threat posed by plant pathogens, not much is known about how a changing climate will affect the epidemiology of generalist vector-borne diseases. In the present study, we developed a high-throughput screening method to test for the presence of a deadly plant pathogen, Xylella fastidiosa, in its insect vectors. Based on a four-year survey in climatically distinct areas of the island of Corsica (France), we found a significant positive correlation between the frequency of insect vectors positive for X. fastidiosa and temperature. We observed that a higher prevalence in insects corresponded with milder winters. We used future climate projections up to the year 2100, and found that the risk for X. fastidiosa outbreak will increase in the future. While the proportion of vectors that carry the pathogen should increase, the climate conditions will remain suitable for the bacterium and its main vector, with possible shifts towards higher elevations. Besides calling for research efforts to limit the incidence of plant diseases in temperate zones, this works reveals that recent molecular technologies could and should be used for massive screening of pathogens in vectors in order to scale-up surveillance and management efforts.AbstractGlobal change is expected to modify the threat posed by pathogens to plants. However, little is known regarding how a changing climate will influence the epidemiology of generalist vector-borne diseases. We developed a high-throughput screening method to test for the presence of a deadly plant pathogen, Xylella fastidiosa, in its insect vectors. Then, using data from a four-year survey in climatically distinct areas of Corsica (France), we demonstrated a positive correlation between the proportion of vectors positive to X. fastidiosa and temperature. Notably, a higher prevalence corresponded with milder winters. Our projections up to 2100 indicate an increased risk of outbreaks. While the proportion of vectors that carry the pathogen should increase, the climate conditions will remain suitable for the bacterium and its main vector, with possible range shifts towards a higher elevation. Besides calling for research efforts to limit the incidence of plant diseases in the temperate zone, this work reveals that recent molecular technologies could and should be used for massive screening of pathogens in vectors to scale-up surveillance and management efforts.

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  • Authors: Guillemoto, Quentin; Devau, Nicolas; Picot-Colbeaux, Géraldine; Valdes, Danièle; +5 Authors

    International audience

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  • Authors: Picot-Colbeaux, Géraldine; Guillemoto, Quentin; Thierion, Charlotte; Wissocq, Aubéry; +5 Authors

    International audience

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  • Authors: Astruc, Jean Michel; Buisson, Diane; Clément, Virginie; Lagriffoul, Gilles; +5 Authors

    International audience; In France, dairy sheep and goats have developed efficient breeding schemes, whose annual genetic gain ranges from 0.10 to 0.27 genetic standard deviation of the total merit index, according to the breeds. From 2015 to 2020, the 5 dairy sheep breeds and 2 main dairy goat breeds have shifted to full genomic programs, based on reference population constituted of AI progeny-tested males. Currently, the breeding goals are similar for almost all the selected breeds and may be per se qualified as balanced, since they include efficiency criteria (milk yield and content), resilience criteria (udder health, resistance to scrapie), and adaptation to mechanic milking in order to mitigate the workload of the farmer in the milking parlour (udder morphology). There are increasing expectations for improving sustainability, robustness and resilience while still increasing efficiency. These new objectives are emphasized by the different stakeholders: the farmers, the industry, but also the consumers, the citizens. Opportunities occur to cope with these requests: a larger efficiency of selection offered by genomic programs allowing to consider new traits to select, new technologies and methods to limit the phenotyping costs (eg. use of MIR spectra), awareness and consent of all stakeholders to bring new challenges at the agenda (climate change, growing resistance to antibiotics or anthelmintics). Various recent or on-going projects (eg. iSAGE, RUSTIC, ARDI, SMARTER) are addressing the topics of adaptation, sustainability, resilience in small ruminants. Through the French dairy sheep and goat illustration, we propose to explore the following ways, that are the core objectives of the on-going SMARTER project: breeding for new efficiency and resilience traits in a context of more agro-ecological systems and pursuit of self-sufficiency in the feeding systems; benefiting from international harmonization and cooperation; tackling the genotype x environment interactions; sharing the ideas and solutions across the wider range of stakeholders.; En France, les brebis et chèvres laitières bénéficient de schémas de sélection efficaces, dont le pro-grès génétique annuel varie, selon la race, entre 0.10 et 0.27 écart-type génétique. De 2015 à 2020, les 5 racesovines laitières et les 2 races caprines en sélection ont basculé vers des schémas de sélection génomiques,basés sur des populations de référence constituées de mâles d’IA testés sur descendance. Actuellement, lesobjectifs de sélection, assez similaires d’une race à l’autre, peuvent être qualifiés d’équilibrés, car ils incluentdes critères de production et d’efficience (quantité et richesse du lait), des critères de résilience (santé de lamamelle, résistance à la tremblante) et d’adaptation à la traite mécanique (morphologie de la mamelle). Desattentes, soutenues par l’ensemble des acteurs des filières, sont fortes pour améliorer la durabilité, la robus-tesse, la résilience tout en améliorant l’efficience des animaux. Des opportunités existent pour traiter ces de-mandes : plus grande efficacité de la sélection offerte par la génomique, nouvelles technologies ou méthodes,prise de conscience et consentement des acteurs pour mettre en avant ces nouveaux challenges (changementclimatique, résistance aux antibiotiques et aux anthelminthiques). Plusieurs projets, récents ou en cours (ex.iSAGE, RUSTIC, ARDI, SMARTER), abordent les questions d’adaptation, de durabilité et de résilience en pe-tits ruminants. Au travers de l’exemple des chèvres et brebis laitières françaises, nous proposons de balise les thèmes suivants, qui sont au cœur du projet SMARTER: la sélection de nouveaux caractères d’efficienceet de résilience dans une contexte d’intérêt croissant pour des systèmes plus agro-écologiques, recherchantplus d’autonomie alimentaire; l’intérêt de l’harmonisation et de la coopération internationale; les interactionsgénotypes x milieu ; la partage des idées et des solutions par un large réseau d’acteurs et d’utilisateurs de lagénétique et de la production de petits ruminant

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  • image/svg+xml art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos Open Access logo, converted into svg, designed by PLoS. This version with transparent background. http://commons.wikimedia.org/wiki/File:Open_Access_logo_PLoS_white.svg art designer at PLoS, modified by Wikipedia users Nina, Beao, JakobVoss, and AnonMoos http://www.plos.org/
    Authors: Munch, Mélanie; Buche, Patrice; Dervaux, Stéphane; Breysse, Amélie; +6 Authors

    International audience; Due to the rising amount of plastic waste generated each year, multiple questions are emerging about their harmful long-term effects on the environment, the ecosystems and human health. One possible strategy to mitigate these issues is to substitute conventional plastics by materials fully biodegradable in natural conditions, such as poly(3-hydroxybutyrate-co-3-hydroxyvalerate) (PHBV). In order to decrease the overall cost and environmental impact of PHBV-based materials while modulating their technical performance, PHBV can be combined with lignocellulosic fillers. In this article, a total of 88 formulations of PHBV-based biocomposites has been collected, distributed over 5 interdisc