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13. El análisis transcriptómico de embriones somáticos y cigóticos de pino revela diferencias de expresión en diferentes rutas metabólicas

Author

Ávila, Concepción, Llebrés, Maria Teresa, Castro-Rodríguez, Vanessa, Trontin, Jean-François, Harvengt, Luc, and Canovas-Ramos, Francisco Miguel

Subjects
Pinos - Embriogénesis somática, Pino, Embriones, Transcriptómica
Abstract

La embriogénesis es un proceso complejo en las plantas, pero comprenderlo en las coníferas es especialmente crítico no sólo para poder hacer estudios comparativos con angiospermas sino también para producir embriones viables y de calidad con diferentes propósitos. Actualmente falta una visión comparativa global de los genes implicados en la embriogénesis somática y cigótica del pino. En este trabajo presentamos un análisis del transcriptoma en tres etapas del desarrollo de los embriones, identificando procesos biológicos conservados y funciones genéticas activas durante el proceso de embriogénesis somática y cigótica. La mayoria de las diferencias son más significativas a medida que avanza el desarrollo. Cuando comparamos etapas de desasrrollo similares, como es el estadio embrión maduro encontramos 1640 genes sobreexpresados en embriones cigóticos frente a 4814 genes en embriones somáticos. Universidad de Málaga. Campus de Excelencia Internacional Andalucía Tech.

Published
2022

21. Genetic diversity and structure of sweet chestnut (Castanea sativa Mill.) in France: At the intersection between Spain and Italy

Author

Bouffartigue, Cathy, Debille, Sandrine, Fabreguette, Olivier, Cabrer, Ana Ramos, Pereira-Lorenzo, Santiago, Flutre, Timothée, and Harvengt, Luc

Abstract

Context Renewed interest in European chestnut in France is focussed on finding locally adapted populations partially resistant to ink disease and identifying local landraces. Aims We genotyped trees to assess (i) the genetic diversity of wild and cultivated chestnut across most of its range in France, (ii) their genetic structure, notably in relation with the sampled regions, and (iii) relations with its neighbors in Spain and Italy. Methods A total of 1,401 trees in 17 sampling regions in France were genotyped at 13 SSRs, and a subset of 693 trees at 24 SSRs. Results Genetic diversity was high in most sampling regions, with redundancy between them. No significant differentiation was found between wild and cultivated chestnut. A genetic structure analysis with no a priori information found a low, yet significant structure, and identified three clusters. Two clusters of sampling regions, south east France and Corsica, were less admixed than the others. A substructure was detected in the admixed cluster suggesting differentiation in wild chestnut trees in Finistère and Aveyron sampling regions. Conclusion The genetic structure within and between our sampling regions is likely the result of natural events (recolonization after the last glaciation) and human activities (migration and exchanges). Notably, we provide evidence for a common origin of most French and Iberian chestnut trees, except those from, south east France that were associated with the Italian gene pool. This advance in our knowledge of chestnut genetic diversity and structure will benefit conservation and help our local partners’ valorization efforts. Key message This paper presents the results of the first assessment of genetic diversity and structure of wild and cultivated sweet chestnut in France. It reveals high diversity, a low but significant structure, and strongly suggests that the French gene pool is at the intersection between the Italian and Spanish gene pools.

Published
2019
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22. Demographic history of Pinus pinaster at the Northern range of its distribution: what can we learn for ABC models?

Author

Lepoittevin, Camille, Hubert, François, Bedon, Franck, Léger, Valérie, Harvengt, Luc, Plomion, Christophe, Garnier‐géré, Pauline, Biodiversité, Gènes & Communautés (BioGeCo), Institut National de la Recherche Agronomique (INRA)-Université de Bordeaux (UB), Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA), and ProdInra, Migration

Subjects
[SDV] Life Sciences [q-bio], [SDV]Life Sciences [q-bio], ComputingMilieux_MISCELLANEOUS
Abstract

National audience

Published
2018

23. Identificación y regulación transcripcional de genes arogenato deshidratasa implicados en la biosíntesis de kignina en pino marítimo

Author

El-Azaz, Jorge, De la Torre, Fernando, Pascual, María Belen, Debille, Sandrine, Canlet, Francis, Harvengt, Luc, Trontin, Jean-François, Ávila, Concepción, and Canovas-Ramos, Francisco Miguel

Subjects
Pino, ADT, Myb8, Fenilalanina - Metabolismo
Abstract

La fenilalanina es un aminoácido esencial para la síntesis de proteínas pero también un precursor de una gran variedad de compuestos del metabolismo secundario que son esenciales para el crecimiento, desarrollo y defensa de las plantas. La biosíntesis de la pared celular secundaria que tiene lugar durante la formación de madera en árboles implica la biosíntesis masiva de lignina, un polímero que no contiene nitrógeno pero que deriva metabólicamente de la fenilalanina. Por lo tanto, estas plantas requieren una coordinación metabólica precisa entre la biosíntesis de fenilalanina y la biosíntesis de lignina para asegurar su desarrollo y crecimiento anual. En este estudio, hemos encontrado que la enzima arogenato deshidratasa, que cataliza el último paso en la ruta biosintética de la fenilalanina en las plantas, se regula transcripcionalmente a través de la interacción directa con el factor de transcripción PpMYB8. El análisis transcripcional de plantas de pino marítimo silenciadas para PpMyb8 sugiere que este factor de transcripción está directamente involucrado en la biogénesis de la pared celular secundaria y en los procesos de muerte celular. En conjunto, estos resultados indican que un único factor de transcripción coordina la biosíntesis de fenilalanina y la acumulación de lignina durante la formación de madera en las coníferas. Universidad de Málaga. Campus de Excelencia Internacional Andalucía Tech.

Published
2018

24. Conservation and usage of chestnut diversity : a case study of partnership research

Author

Bouffartigue, Cathy, Flutre, Timothée, Couix, Nathalie, Barreneche, Teresa, Harvengt, Luc, Hazard, Laurent, AGroécologie, Innovations, teRritoires (AGIR), Institut National de la Recherche Agronomique (INRA)-Institut National Polytechnique (Toulouse) (Toulouse INP), Université Fédérale Toulouse Midi-Pyrénées-Université Fédérale Toulouse Midi-Pyrénées, Génétique Quantitative et Evolution - Le Moulon (Génétique Végétale) (GQE-Le Moulon), Centre National de la Recherche Scientifique (CNRS)-AgroParisTech-Université Paris-Sud - Paris 11 (UP11)-Institut National de la Recherche Agronomique (INRA), Biologie du fruit et pathologie (BFP), Université Bordeaux Segalen - Bordeaux 2-Institut National de la Recherche Agronomique (INRA)-Université Sciences et Technologies - Bordeaux 1, and Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA)

Subjects
[SDV]Life Sciences [q-bio], [SDE]Environmental Sciences, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, ComputingMilieux_MISCELLANEOUS, [SHS]Humanities and Social Sciences
Abstract

National audience

Published
2018

29. Pollen contamination and mating structure in maritime pine clonal seed orchards

Author

Bouffier, Laurent, Debille, Sandrine, Alazard, Pierre, Pastuszka, Patrick, Raffin, Annie, Harvengt, Luc, Lelu-Walter, Marie-Anne, Musch, brigitte, Trontin, Jean-François, Bouffier, Laurent, Biodiversité, Gènes & Communautés (BioGeCo), Institut National de la Recherche Agronomique (INRA)-Université de Bordeaux (UB), Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA), Unité Expérimentale Forêt Pierroton (UEFP), Institut National de la Recherche Agronomique (INRA), and Office National des Forêts (ONF)

Subjects
[SDV] Life Sciences [q-bio], [SDV]Life Sciences [q-bio], Pinus pinaster Ait, mating structure, pollen contamination, clonal seed orchard, SNP genotyping, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2017

30. Conservation and use of elm genetic resources in France: results and perspectives.

Author

Collin, Eric, Rondouin, Michel, Joyeau, Cécile, Matz, Stéphane, Raimbault, Pierre, Harvengt, Luc, Bilger, Isabelle, and Guibert, Monique

Subjects
GERMPLASM conservation, FOREST conservation, FOREST health, WINDBREAKS, shelterbelts, etc.
Abstract

Launched in 1987, the French National Programme for the Conservation of Native Elm Genetic Resources focused on the ex situ conservation of clones of adult field elms (Ulmus minor Mill.) survivors of the Dutch elm disease (DED) pandemic. It was later expanded to include the in situ dynamic conservation of populations of European white elm (U. laevis Pall.) and wych elm (U. glabra Huds.). The national collection contains 441 clones, partly characterized and evaluated in a European project. The pathological tests and experimental plantations did not reveal clones truly resistant to DED but provided material for the restoration of hedgerows. Two conservation units of white elm and one of wych elm were selected, enriching the pan-European EUFORGEN network for dynamic conservation of forest genetic resources. This programme provides feedback on genetic conservation strategies for forest trees in a health crisis. New partners are invited to make use of the scientific potential of the clone bank and experimental plots. [ABSTRACT FROM AUTHOR]

Published
2020
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32. Long cold exposure induces transcriptional and biochemical remodelling of xylem secondary cell wall in Eucalyptus

Author

Ployet, Raphael, primary, Soler, Marçal, additional, Carocha, Victor, additional, Ladouce, Nathalie, additional, Alves, Ana, additional, Rodrigues, José-Carlos, additional, Harvengt, Luc, additional, Marque, Christiane, additional, Teulières, Chantal, additional, Grima-Pettenati, Jacqueline, additional, and Mounet, Fabien, additional

Published
2017
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35. Towards functional genomics of transcription factor genes associated to growth and wood formation in maritime pine

Author

Trontin, Jean-François, Ávila, Concepcion, Debille, Sandrine, De La Torre, Fernando, El-Azaz, Jorge, Pascual, Belen, Canlet, Francis, Teyssier, Caroline, Boizot, Nathalie, Le Mette, Claire, Lesage Descauses, Marie-Claude, Da Silva Perez, Denilson, Cañas, Rafael A, Le Provost, Grégoire, Plomion, Christophe, Harvengt, Luc, Label, Philippe, Lelu-Walter, Marie-Anne, Cánovas, Francisco M, Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA), Universidad de Málaga [Málaga] = University of Málaga [Málaga], Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), Institut National de la Recherche Agronomique (INRA), Biodiversité, Gènes & Communautés (BioGeCo), Institut National de la Recherche Agronomique (INRA)-Université de Bordeaux (UB), Laboratoire de Physique et Physiologie Intégratives de l'Arbre Fruitier et Forestier (PIAF), and Institut National de la Recherche Agronomique (INRA)-Université Blaise Pascal - Clermont-Ferrand 2 (UBP)

Subjects
formation du bois, pinus pinaster, [SDV.BIO]Life Sciences [q-bio]/Biotechnology, fungi, Biologie du développement, génomique fonctionnelle, Biotechnologies, transformation génétique, Development Biology, facteur de transcription, [SDV.BDD]Life Sciences [q-bio]/Development Biology
Abstract

National audience; Maritime pine is a major forest tree in southern Europe for sustainable delivery of bio-based products through advanced plantation forestry of improved varieties. Early selection is needed to reduce breeding cycle and accelerate variety deployment in the context of climate change. Both gene(s) and genome-wide information should provide opportunities for predictive, marker-assisted selection. Reverse genetics, defined as ectopic expression or silencing of candidate genes can be useful for functional dissection of traits of interest. Functional genomics of 9 transcription factor (TF) genes associated to growth and wood formation (MYB1,8,14,20,23, DOF5, MADBOX4, NACx, NACataf) was initiated in maritime pine through genetic transformation of embryogenic tissue. Twelve TF constructs designed for constitutive overexpression (OE) or silencing (RNAi) were studied: 6 constructs (batch 1) from previous projects (MYB1-RNAi, MYB8-OE/RNAi, MYB14-RNAi, DOF5-OE/RNAi) as well as 3 constructs for putative gene targets of MYB (CAD-RNAi) and DOF5 (GS1a-OE, GS2-OE); and 6 constructs (batch 2) obtained during ProCoGen (MYB23-OE, MYB20-OE, MADBOX4-OE, NACx-OE/RNAi, NACataf-OE). Phosphinothricin-resistant lines could be cryopreserved for all but one (MYB20-OE) constructs. Transformation rate was estimated in the range 9.6-22.0 (OE) or 0.4-18.0 (RNAi) transgenic lines per gram embryogenic tissue (batch 1). Somatic embryos were obtained from 1-3 lines per construct (25 lines in total) and successfully converted to plants (batch 1). Acclimatization rates were similar to controls and transgenic plants were confirmed for most lines. Putative adverse effect of MYB14-RNAi, DOF5-RNAi, and MYB8-OE on transformation rate was observed. DOF5-RNAi apparently stimulated germination rate. Plant growth data and morphology are available for constructs from batch 1 after up to 12 (MYB1-RNAi, MYB8-OE/RNAi, DOF5-OE/RNAi, GS2-OE, GS1a-OE) or 42 months (MYB14-RNAi, CAD-RNAi) growth. Both transgene copy number and targeted gene expression data are available from transgenic plants obtained from MYB14-RNAi and CAD-RNAi lines. Transgenics and controls from batch 1 were sampled at age 16 (MYB1-RNAi, MYB8-OE/RNAi, DOF5-OE/RNAi) or 70 months (MYB14-RNAi, CAD-RNAi). Molecular characterization of MYB1,8,14 and DOF5 plant material has been performed by qPCR and transcriptomic analysis using microarray is underway. Wood analyses have been initiated for MYB14- and CAD-RNAi plants (in progress).

Published
2015

36. Genome discovery of deep frost-tolerant eucalyptus for breeding and molecular ecology

Author

Harvengt, Luc, San Clemente, Hélène, Gion, Jean-Marc, Klopp, Christophe, Berges, Helene, Potts, Brad M., Vaillancourt, Rene E., Marque, Christiane, Teulières, Chantal, Grima-Pettenati, Jacqueline, Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA), Université Fédérale Toulouse Midi-Pyrénées, Biodiversité, Gènes & Communautés (BioGeCo), Institut National de la Recherche Agronomique (INRA)-Université de Bordeaux (UB), Unité de Mathématiques et Informatique Appliquées de Toulouse (MIAT INRA), Institut National de la Recherche Agronomique (INRA), Centre National de Ressources Génomiques Végétales (CNRGV), and University of Tasmania [Hobart, Australia] (UTAS)

Subjects
[SDV]Life Sciences [q-bio], [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, [INFO]Computer Science [cs], [MATH]Mathematics [math], ComputingMilieux_MISCELLANEOUS
Abstract

National audience

Published
2015

37. Paternity recovery in a maritime pine polycross trial and consequences for breeding

Author

VIDAL, Marjorie, HARVENGT, Luc, BOURY, Christophe, BOUFFIER, Laurent, Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA), Biodiversité, Gènes & Communautés (BioGeCo), Institut National de la Recherche Agronomique (INRA)-Université de Bordeaux (UB), and ProdInra, Migration

Subjects
[SDV] Life Sciences [q-bio], [SDV]Life Sciences [q-bio], ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2015

38. Epigenetic dynamics associated to growth and adaptation

Author

Harvengt, Luc, Díaz-Sala, Carmen, Cervera, Maite, Le Provost, Grégoire, Fossdal, Carl Gunnar, Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA), Universidad de Alcalá - University of Alcalá (UAH), Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria = National Institute for Agricultural and Food Research and Technology (INIA), Biodiversité, Gènes & Communautés (BioGeCo), Institut National de la Recherche Agronomique (INRA)-Université de Bordeaux (UB), and Norwegian Institute of Bioeconomy Research (NIBIO)

Subjects
[SDV]Life Sciences [q-bio], ComputingMilieux_MISCELLANEOUS
Abstract

National audience

Published
2015

39. Are cotyledonary somatic embryos of Pinus pinaster Ait. equivalent to the zygotic counterpart ?

Author

Teyssier, Caroline, Morel, Alexandre, Trontin, Jean-François, Corbineau, Francoise, Lomenech, Anne-Marie, Beaufour, Martine, Reymond, Isabelle, Le Mette, Claire, Ader, Kévin, Harvengt, Luc, Cadène, Martine, Label, Philippe, Lelu-Walter, Marie-Anne, Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), Institut National de la Recherche Agronomique (INRA), Pôle BSA, Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA), UR5-EAC 7180 CNRS, Physiologie Cellulaire et Moléculaire des Plantes, Université Pierre et Marie Curie - Paris 6 (UPMC), Centre Génomique Foncti01melle, Plateforme Protéome, Université de Bordeaux (UB), Centre de biophysique moléculaire (CBM), Université d'Orléans (UO)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Chimie du CNRS (INC), Laboratoire de Physique et Physiologie Intégratives de l'Arbre Fruitier et Forestier (PIAF), Institut National de la Recherche Agronomique (INRA)-Université Blaise Pascal - Clermont-Ferrand 2 (UBP), Université d'Orléans (UO)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS), Unité de recherche Amélioration, Génétique et Physiologie Forestières (UAGPF), Institut Technologique Forêt Cellulose Bois-Construction Ameublement (FCBA), Université d'Orléans (UO)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS), and ProdInra, Archive Ouverte

Subjects
pinus pinaster, [SDV.BIO]Life Sciences [q-bio]/Biotechnology, qualité, maturation, maturation de l'embryon, carbohydrates, Biotechnologies, cellule cotyledonaire, somatic embryogenesis, embryogénèse somatique, [SDV.BIO] Life Sciences [q-bio]/Biotechnology, carbohydrate, embryon zygotique, embryo quality, zygotic embryogenesis, protéomique, proteomic
Abstract

In maritime pine, improved protocols are now available for the whole somatic embryogenesis process i.e. from initiation of embryogenic tissue to somatic plant regeneration. However, field trials established in France from somatic plant material have consistently revealed that somatic embryos (SEs) developed at a lower initial growth rate compared to control seedlings. A better understanding of SEs maturation is therefore required in order to produce high-quality, vigorous somatic plants. SEs are currently matured for 12 weeks to reach the cotyledonary stage before being germinated and converted to plantlets. Although regeneration success is highly dependent on SEs quality, the harvesting date is still determined from morphological features. This empirical method does not provide any accurate information about embryo quality with respect to storage compounds (proteins, carbohydrates). We first analyzed SEs matured for 10, 12 and 14 weeks by carrying out biological (dry weight, water content) and biochemical measurements (total protein and carbohydrate contents). No significant difference could be found between collection dates, suggesting that SE harvesting after 12 weeks maturation is appropriate. Cotyledonary SEs were then compared to various stages, from fresh to fully desiccated, in the development of cotyledonary zygotic embryos (ZEs). Using hierarchical ascendant cluster analysis, we demonstrated that cotyledonary SEs matured for 12 weeks are most similar to fresh cotyledonary ZEs sampled from late July to early August (as indicated by dry weight, water content, sucrose, RFOs content, RFO/Sucrose ratio) or at any time up to October (with respect to total protein). Both types of embryo exhibited similar carbohydrate and protein content and signatures. This high level of similarity (94.5%) was further supported by proteome profiling. Highly expressed proteins included storage, stress-related, late embryogenesis abundant (LEA) and energy metabolism proteins. By comparing overexpressed proteins in developing and cotyledonary SEs or ZEs, some (23 proteins) could be identified as candidate biomarkers for the late, cotyledonary stage. Of these, 18 belonged to five large families of proteins including five HSPs, four LEAs and two other stress-related proteins (aldose reductase, 6-phosphogluconate dehydrogenase), five storage proteins and two proteins involved in purine metabolism (adenosine kinase 2, SAM synthase). This is the first report of useful generic protein markers for monitoring embryo development in maritime pine. Our results also suggest that improvements of SEs quality may be achieved if the current maturation conditions are refined.

Published
2014

40. Did cotyledonary somatic embryos of Pinus pinaster Ait. similar to cotyledonary zygotic embryos ?

Author

Teyssier, Caroline, Morel, Alexandre, Trontin, Jean-François, Corbineau, Françoise, Lomenech, Anne-Marie, Beaufour, Martine, Reymond, Isabelle, Le Metté, Claire, Ader, Kévin, Harvengt, Luc, Cadene, Martine, Label, Philippe, Lelu-Walter, Marie-Anne, Biologie intégrée pour la valorisation de la diversité des arbres et de la forêt (BioForA), Institut National de la Recherche Agronomique (INRA)-Office national des forêts (ONF), Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), Institut National de la Recherche Agronomique (INRA), Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA), Laboratoire de Biologie du Développement (LBD), Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut de Biologie Paris Seine (IBPS), Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Biologie des Semences = Seed biology (LBD-E01), Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut de Biologie Paris Seine (IBPS), Centre Génomique Fonctionnelle, Plateforme Protéome, Université Sciences et Technologies - Bordeaux 1 (UB), Synthèse, interactions et réactivité en chimie organique et bioorganique (SIRCOB), Université de Versailles Saint-Quentin-en-Yvelines (UVSQ)-Centre National de la Recherche Scientifique (CNRS), Pôle BSA, Centre de biophysique moléculaire (CBM), and Université d'Orléans (UO)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Institut de Chimie du CNRS (INC)-Centre National de la Recherche Scientifique (CNRS)

Subjects
[SDV]Life Sciences [q-bio]
Abstract

International audience

Published
2014

41. Molecular phenotyping of Maritime pine somatic plants transformed with an RNAi construct targeting cinnamyl alcohol dehydrogenase

Author

Trontin, Jean-François, Teyssier, Caroline, Avila, Concepcion, Debille, Sandrine, Le Mette, Claire, Lesage Descauses, Marie-Claude, Boizot, Nathalie, Canlet, Francis, Le Provost, Grégoire, Harvengt, Luc, Plomion, Christophe, Label, Philippe, Cánovas, Francisco, Lelu-Walter, Marie-Anne, Pôle BSA, Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA), Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), Institut National de la Recherche Agronomique (INRA), Universidad de Málaga [Málaga] = University of Málaga [Málaga], Biodiversité, Gènes & Communautés (BioGeCo), Institut National de la Recherche Agronomique (INRA)-Université de Bordeaux (UB), Laboratoire de Physique et Physiologie Intégratives de l'Arbre Fruitier et Forestier (PIAF), and Institut National de la Recherche Agronomique (INRA)-Université Blaise Pascal - Clermont-Ferrand 2 (UBP)

Subjects
Vegetal Biology, conifère, pinus pinaster, transcriptomique, génome, off target effect, génomique fonctionnelle, CAD gene, effet pléiotropique, transcriptomics, profil protéomique, proteomics, régulation, Transgenic plant, silencing, plante transgénique, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, protéomique, transcriptome, Biologie végétale, ComputingMilieux_MISCELLANEOUS
Abstract

International audience

Published
2014

43. Diversification of Fungal Specific Class A Glutathione Transferases in Saprotrophic Fungi

Author

Mathieu, Yann, Prosper, Pascalita, Favier, Frederique, Harvengt, Luc, Didierjean, Claude, Jacquot, Jean-Pierre, MOREL-ROUHIER, Melanie, Gelhaye, Éric, Interactions Arbres-Microorganismes (IAM), Institut National de la Recherche Agronomique (INRA)-Université de Lorraine (UL), Cristallographie, Résonance Magnétique et Modélisations (CRM2), Université de Lorraine (UL)-Centre National de la Recherche Scientifique (CNRS), Biotechnol Lab, Pole Biotechnol & Sylviculture Avancee, Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA), Convention industrielle de formation par la recherche (CIFRE), French National Research Agency [ANR-09-BLAN-0012], Laboratory of Excellence ARBRE [ANR-12-LABXARBRE-01], Ministere de l'Enseignement Superieur, de la Recherche et de la Technologie, Institut National de la Recherche Agronomique (INRA), Centre National de la Recherche Scientifique (CNRS), Centre National de la Recherche Scientifique (CNRS)-Université de Lorraine (UL), Université de Lorraine (UL)-Institut National de la Recherche Agronomique (INRA), and Institut Technologique Forêt Cellulose Bois-Construction Ameublement (FCBA)

Subjects
Models, Molecular, Base Sequence, Sequence Homology, Amino Acid, lcsh:R, Molecular Sequence Data, lcsh:Medicine, Phanerochaete, Coprinus, Spectrometry, Fluorescence, [CHIM.CRIS]Chemical Sciences/Cristallography, lcsh:Q, Amino Acid Sequence, Cloning, Molecular, lcsh:Science, Crystallization, Research Article, DNA Primers, Glutathione Transferase
Abstract

International audience; Glutathione transferases (GSTs) form a superfamily of multifunctional proteins with essential roles in cellular detoxification processes and endogenous metabolism. The distribution of fungal-specific class A GSTs was investigated in saprotrophic fungi revealing a recent diversification within this class. Biochemical characterization of eight GSTFuA isoforms from Phanerochaete chrysosporium and Coprinus cinereus demonstrated functional diversity in saprotrophic fungi. The three-dimensional structures of three P. chrysosporium isoforms feature structural differences explaining the functional diversity of these enzymes. Competition experiments between fluorescent probes, and various molecules, showed that these GSTs function as ligandins with various small aromatic compounds, derived from lignin degradation or not, at a L-site overlapping the glutathione binding pocket. By combining genomic data with structural and biochemical determinations, we propose that this class of GST has evolved in response to environmental constraints induced by wood chemistry.

Published
2013
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44. High-throughput sequencing highlighted contrasted pioneer fungal communities associated to coniferous and deciduous wood preservation assays

Author

Mathieu, Yann, Dassé, A, Le Bayon, I, Kutnik, M., Harvengt, Luc, Gelhaye, Eric, Buee, Marc, Interactions Arbres-Microorganismes (IAM), Institut National de la Recherche Agronomique (INRA)-Université de Lorraine (UL), Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA), Biotechnol Lab, Pole Biotechnol & Sylviculture Avancee, INRA - Mathématiques et Informatique Appliquées (Unité MIAJ), Institut National de la Recherche Agronomique (INRA), Université de Lorraine (UL)-Institut National de la Recherche Agronomique (INRA), Institut technologique FCBA (FCBA), Ministère de l'Enseignement Supérieur et de la Recherche Scientifique, and Institut Technologique Forêt Cellulose Bois-Construction Ameublement (FCBA)

Subjects
standardization, [SDV]Life Sciences [q-bio], saprophytic fungi, high-throughput sequencing, fungal communities
Abstract

International audience; Studying the fungal communities in the wood, in particular during the first events of the colonization, and the factors that underlie the dynamics of fungal species assemblages remain a challenge in ecology, because of the absence of fructification during the pioneer steps of wood degradation. The use of Next-generation DNA sequencing methods, which produce massive volumes of data, provided new perspectives in fungal molecular ecology. In this paper we used high throughput sequencing to identify factors influencing fungal colonisation during the early stages of wood decay. For this purpose wood pickets, from different wood species, were buried in an experimental site, located on the island of Oléron, and removed after six and nine months of incubation. Then, total DNA was extracted and a library of the fungal internal transcribed spacer (ITS-1) region was prepared for 454 pyrosequencing. Our results revealed a strong host effect on the fungal communities associated to different wood species together with a spatial effect on fungal diversity. The source of inoculum was also investigated with the same approach from soil samples, and results demonstrated that the major source of fungal inoculum was not located, or very weakly represented, in the close environment of our pickets. Finally, the application of high throughput sequencing approaches was investigated to improve standards in order to be more representative of natural conditions.

Published
2013

45. Xenomic networks variability and adaptation traits in wood decaying fungi

Author

Morel, Melanie, Meux, Edgar, Mathieu, Yann, Thuillier, Anne, Chibani, Kamel, Harvengt, Luc, Jacquot, Jean-Pierre, Gelhaye, Éric, Interactions Arbres-Microorganismes (IAM), Université de Lorraine (UL)-Institut National de la Recherche Agronomique (INRA), Biotechnol Lab, Pole Biotechnol & Sylviculture Avancee, Institut Technologique Forêt Cellulose Bois-Construction Ameublement (FCBA), Agence Nationale de la Recherche (ANR) [ANR-09-BLAN-0012], Institut National de la Recherche Agronomique (INRA)-Université de Lorraine (UL), and Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA)

Subjects
GLUTATHIONE S-TRANSFERASES, COMPARATIVE GENOMICS, BETA-ARYL ETHER, BASIDIOMYCETE PHANEROCHAETE-CHRYSOSPORIUM, WHITE-ROT FUNGI, SACCHAROMYCES-CEREVISIAE, S-GLUTATHIONYL-(CHLORO)HYDROQUINONE REDUCTASES, PHYTOCHELATIN SYNTHASE, LITTER DECOMPOSITION, FUNCTIONAL DIVERSITY, Basidiomycota, [SDV]Life Sciences [q-bio], Adaptation, Physiological, Wood, Xenobiotics, Fungal Proteins, Biodegradation, Environmental, Cytochrome P-450 Enzyme System, Genome, Fungal, Research Articles, Metabolic Networks and Pathways, Glutathione Transferase
Abstract

Fungal degradation of wood is mainly restricted to basidiomycetes, these organisms having developed complex oxidative and hydrolytic enzymatic systems. Besides these systems, wood-decaying fungi possess intracellular networks allowing them to deal with the myriad of potential toxic compounds resulting at least in part from wood degradation but also more generally from recalcitrant organic matter degradation. The members of the detoxification pathways constitute the xenome. Generally, they belong to multigenic families such as the cytochrome P450 monooxygenases and the glutathione transferases. Taking advantage of the recent release of numerous genomes of basidiomycetes, we show here that these multigenic families are extended and functionally related in wood-decaying fungi. Furthermore, we postulate that these rapidly evolving multigenic families could reflect the adaptation of these fungi to the diversity of their substrate and provide keys to understand their ecology. This is of particular importance for white biotechnology, this xenome being a putative target for improving degradation properties of these fungi in biomass valorization purposes.

Published
2013
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46. 'PLANT-KBBE SUSTAINPINE' Genomic tools in maritime Pine for enhanced biomass production and sustainable forest management

Author

Andrea Rupps, Zoglauer, Kurt, Barbara, Vornam, Finkeldey, Reiner, Cervera, María-Teresa, Guevara, Antonio, Aranda, Ismael, Díaz-Sala, Carmen, Arillaga, Isabel, Miguel, Célia, Vega-Bartol, José, Santos, Raissa, Plomion, Christophe, Bouffier, Laurent, Lepoittevin, Camille, Chancerel, Emilie, Lesur, Isabelle, Lamy, Jean-Baptiste, Lagane, Frédéric, Lelu-Walter, Marie-Anne, Label, Philippe, Teyssier, Caroline, Debille, Sandrine, Canlet, Francis, Harvengt, Luc, Trontin, Jean-François, Lario, Francisco J., Gonzalo, C. D. M., Avila, Concepción, Cánovas, Francisco M., Humboldt University of Berlin, Georg-August-University [Göttingen], Instituto Nacional de Investigación y Tecnología Agraria y Alimentaria = National Institute for Agricultural and Food Research and Technology (INIA), Universidad de Alcalá - University of Alcalá (UAH), Universitat de València (UV), Instituto de Biologia Experimental e Tecnológica (IBET), Biodiversité, Gènes & Communautés (BioGeCo), Institut National de la Recherche Agronomique (INRA)-Université de Bordeaux (UB), Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), Institut National de la Recherche Agronomique (INRA), Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA), Grupo Tragsa, and Universidad de Málaga [Málaga] = University of Málaga [Málaga]

Subjects
[SDV.BIO]Life Sciences [q-bio]/Biotechnology, Vegetal Biology, pinus pinaster, carte génétique, analyse fonctionnelle de promoteur, génomique fonctionnelle, Biotechnologies, diversité nucléotidique, identification de gènes, production de biomasse, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, gène candidat, ComputingMilieux_MISCELLANEOUS, Biologie végétale, expression des gènes
Abstract

International audience

Published
2013

47. Somatic embryogenesis as an effective regeneration support for reverse genetics in maritime pine: the Sustainpine collaborative project as an illustration

Author

Trontin, Jean-François, Debille, Sandrine, Canlet, Francis, Harvengt, Luc, Lelu-Walter, Marie-Anne, Label, Philippe, Teyssier, Caroline, Miguel, Célia, Vega-Bartol, José, Tonelli, Mariagrazia, Santos, Raissa, Andrea Rupps, Hassani, Seyedeh Batool, Zoglauer, Kurt, Carneros, Elena, Díaz-Sala, Carmen, Abarca, Dolores, Arrillaga, Isabel, Mendoza-Poudereux, Isabel, Segura, Juan, Avila, Concepción, Rueda, Marina, Canales, Javier, Cánovas, Francisco M., Biotechnology and advanced Forestry Department, Genetics & Biotechnology group, Institut Technologique Forêt Cellulose Bois-Construction Ameublement (FCBA), Unité de recherche Amélioration, Génétique et Physiologie Forestières (UAGPF), Institut National de la Recherche Agronomique (INRA), Forest Biotechnology Laboratory, Instituto de Biologia Experimental e Tecnológica, Instituto de Technologia Quimica e Biologica, Instituto de Technologia Quimica e Biologica, Forest Biotechnology Laboratory, Institute of Biology, Humboldt Universität zu Berlin, Department of Plant Biology, Universidad de Alcalá - University of Alcalá (UAH), Dpto. Biología Vegetal, Facultad de Farmacia, University of Valencia, Molecular Biology Laboratory, Universidad de Málaga [Málaga], Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA), Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), Instituto de Biologia Experimental e Tecnológica (IBET), Humboldt-Universität zu Berlin, Universidad de Málaga [Málaga] = University of Málaga [Málaga], and International Union of Forest Research Organisations (IUFRO). Vienne, AUT.

Subjects
Vegetal Biology, pinus pinaster, [SDV.BIO]Life Sciences [q-bio]/Biotechnology, functional gene validation, Biotechnologies, maritime pine, somatic embryogenesis, embryogénèse somatique, transgenesis, reverse genetics, génétique inverse, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, transformation génétique, regénération, Biologie végétale, transgénèse
Abstract

absent

Published
2012

48. Conservation ex situ : collections statiques et valorisation dynamique

Author

Collin, Eric, Le Bouler, Hervé, Forestier, Olivier, Huvelin, Jean-Pierre, Rondouin, Michel, Brahic, Patrice, Bariteau, Michel, Fady, Bruno, Oddou-Muratorio, Sylvie, Thevenet, Jean, Villar, Marc, Girard, Sabine, Harvengt, Luc, Ecosystèmes forestiers (UR EFNO), Institut national de recherche en sciences et technologies pour l'environnement et l'agriculture (IRSTEA), Ingénierie Procédés Aliments (GENIAL), Institut National de la Recherche Agronomique (INRA)-Institut national de recherche en sciences et technologies pour l'environnement et l'agriculture (IRSTEA)-AgroParisTech-Conservatoire National des Arts et Métiers [CNAM] (CNAM), Pépinière forestière d'Etat, Direction Régionale de l'Alimentation,de l'Agriculture et de la Forêt de la région Provence Alpes Côte d'Azur, Unité de Recherches Forestières Méditerranéennes (URFM), Institut National de la Recherche Agronomique (INRA), Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), Auteur indépendant, Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA), UR Ecosystèmes Forestiers, Unité de recherche Amélioration, Génétique et Physiologie Forestières (UAGPF), Pôle Biotechnologie et Sylviculture Avancée, Institut Technologique FCBA: Forêt, Cellulose, Bois-construction, Ameublement, and Institut National de la Recherche Agronomique (INRA)-AgroParisTech-Conservatoire National des Arts et Métiers [CNAM] (CNAM)-Institut national de recherche en sciences et technologies pour l'environnement et l'agriculture (IRSTEA)

Subjects
Biodiversity and Ecology, ressource forestière, Vegetal Biology, Biodiversité et Ecologie, [SDE.MCG]Environmental Sciences/Global Changes, [SDV.BV]Life Sciences [q-bio]/Vegetal Biology, valorisation des ressources génétiques, conservation des ressources génétiques, [SDE.BE]Environmental Sciences/Biodiversity and Ecology, Milieux et Changements globaux, conservation ex situ, Biologie végétale
Abstract

absent

Published
2012

49. Somatic embryogenesis of forest trees in Europe: what’s going on? An overview

Author

Lelu-Walter, Marie-Anne, Pâques, Luc, Thompson, David, Harvengt, Luc, Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), Institut National de la Recherche Agronomique (INRA), Coillte, Partenaires INRAE, Laboratoire de Biotechnologie, and Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA)

Subjects
arbre forestier, SOMATIC EMBRYOGENESIS, FOREST TREE, [SDV]Life Sciences [q-bio], USE, embryogénèse somatique, utilisation, application
Published
2011

50. Somatic embryogenesis of forest trees in Europe: what's going on? An overview

Author

Lelu-Walter, Marie-Anne, Pâques, Luc, Thompson, David, Harvengt, Luc, Unité de recherche Amélioration, Génétique et Physiologie Forestières (AGPF), Institut National de la Recherche Agronomique (INRA), Coillte Teoranta, and Institut Technologique Forêt Cellulose Bois-construction Ameublement (FCBA)

Subjects
SOMATIC EMBRYOGENESIS, FOREST TREE, arbre forestier, [SDV]Life Sciences [q-bio], fungi, embryogénèse somatique
Abstract

Development of clonal propagation methods, such as somatic embryogenesis, has potentially numerous applications and advantages over conventional rooted cuttings (Klimaszewska et al. 2007). The speed at which a new material can be produced, the high potential of amplification make somatic embryogenesis a powerful and flexible tool for the release of improved varieties. Indeed, this efficient method of plant regeneration constitutes a tool for research (study of gene function) and for species improvement (production of a large number of genetically improved plants). Somatic embryogenesis can contribute to increase selection efficiency and facilitate deployment of improved varieties. Somatic embryogenesis has in many instances become the method of choice for clonal propagation of conifers (Sutton 2002). Its deployment is now achieved in Canada (CellFor, JD Irving), United States (Arborgen, Weyerhaeuser) where millions of emblings are routinely produced (Picea sp., Pinus sp., Pseudotsuga menziesii). By comparison, it was interesting to make the point of advances made in Europe. Therefore, in the frame of the European project Treebreedex (http://treebreedex.eu), a review has been made on somatic embryogenesis in both Angiosperm and Gymnosperms forest tree species, results that will be presented today.

Published
2010

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