Intranet

Génomique évolutive et gestion des populations (GE²pop)

Publications clés

Date de mise à jour : 4 avril 2018

Publications clés de l'équipe (2016-2017).

2016

Abu Awad D, Billiard S, Tran VC (2016) Perenniality induces high inbreeding depression in self-fertilising species. Theoretical Population Biology 112:43-51. doi:10.1016/j.tpb.2016.08.002

Bataillon T, Galtier N, Bernard A, Cryer N, Faivre N, Santoni S, Severac D, Mikkelsen TN, Larsen KS, Beier C, Sorensen JG, Holmstrup M, Ehlers BK (2016) A replicated climate change field experiment reveals rapid evolutionary response in an ecologically important soil invertebrate. Global Change Biology 22 (7):2370-2379. doi:10.1111/gcb.13293

Burgarella C, Chantret N, Gay L, Prosperi JM, Bonhomme M, Tiffin P, Young ND, Ronfort J (2016) Adaptation to climate through flowering phenology: a case study in Medicago truncatula. Molecular Ecology 25 (14):3397-3415. doi:10.1111/mec.13683

David J, Glemin S, Sarah G, Nabholz B, Sabot F, Holtz Y, Homa F, Pointet S, Contreras S, Saune L, Ardisson M, Bacilieri R, Khadari B, Lanaud C, Pot D, Sauvage C, Scarcelli N, Tregear J, Vigouroux Y, Yahiaoui N, Ruiz M, Santoni S, Labouisse JP (2016) La diversité génétique des plantes cultivées à l'heure de l'informatique génétique à haut débit : génomique comparative de la domestication. Sélectionneur Français 67:3-13

Fiorini N, Harispe S, Ranwez S, Montmain J, Ranwez V (2016) Fast and reliable inference of semantic clusters. Knowledge-Based Systems 111:133-143. doi:10.1016/j.knosys.2016.08.008

Fischer I, Dievart A, Droc G, Dufayard JF, Chantret N (2016) Evolutionary Dynamics of the Leucine-Rich Repeat Receptor-Like Kinase (LRR-RLK) Subfamily in Angiosperms. Plant Physiology 170 (3):1595-1610. doi:10.1104/pp.15.01470

Gauzere J, Oddou-Muratorio S, Gay L, Klein EK (2016) Partial genotyping at polymorphic markers can improve heritability estimates in sibling groups. Molecular Ecology Resources 16 (6):1340-1352. doi:10.1111/1755-0998.12536

Gouesnard B, Zanetto A, Welcker C (2016) Identification of adaptation traits to drought in collections of maize landraces from southern Europe and temperate regions. Euphytica 209 (3):565-584. doi:10.1007/s10681-015-1624-8

Holtz Y, Ardisson M, Ranwez V, Besnard A, Leroy P, Poux G, Roumet P, Viader V, Santoni S, David J (2016) Genotyping by Sequencing Using Specific Allelic Capture to Build a High-Density Genetic Map of Durum Wheat. Plos One 11 (5). doi:10.1371/journal.pone.0154609

Karaki L, Da Silva P, Rizk F, Chouabe C, Chantret N, Eyraud V, Gressent F, Sivignon C, Rahioui I, Kahn D, Brochier-Armanet C, Rahbe Y, Royer C (2016) Genome-wide analysis identifies gain and loss/change of function within the small multigenic insecticidal Albumin 1 family of Medicago truncatula. Bmc Plant Biology 16. doi:10.1186/s12870-016-0745-0

Mariac C, Ousseini IS, Alio AK, Jugde H, Pham JL, Bezancon G, Ronfort J, Descroix L, Vigouroux Y (2016) Spatial and Temporal Variation in Selection of Genes Associated with Pearl Millet Varietal Quantitative Traits In situ. Frontiers in genetics 7:130. doi:10.3389/fgene.2016.00130

Mariette S, Tavaud M, Horvath A (2016) Domestication et histoire évolutive des espèces fruitières : que pouvons nous apprendre des études de génétique? Exemple chez les Rosacées. In: Ruas MP (ed) Des fruits d'ici et d'ailleurs : regards sur l'histoire de quelques fruits consommés en Europe. Histoire des savoirs, Montreuil France, pp 117-138

Montazeaud G, Karatogma H, Ozturk I, Roumet P, Ecarnot M, Crossa J, Ozer E, Ozdemir F, Lopes MS (2016) Predicting wheat maturity and stay-green parameters by modeling spectral reflectance measurements and their contribution to grain yield under rainfed conditions. Field Crops Research 196:191-198. doi:10.1016/j.fcr.2016.06.021

Ostrowski MF, Prosperi JM, David J (2016) Potential Implications of Climate Change on Aegilops Species Distribution: Sympatry of These Crop Wild Relatives with the Major European Crop Triticum aestivum and Conservation Issues. Plos One 11 (4). doi:10.1371/journal.pone.0153974

Petitot AS, Dereeper A, Agbessi M, Da Silva C, Guy J, Ardisson M, Fernandez D (2016) Dual RNA-seq reveals Meloidogyne graminicola transcriptome and candidate effectors during the interaction with rice plants. Molecular Plant Pathology 17 (6):860-874. doi:10.1111/mpp.12334

Ranwez V (2016) Two Simple and Efficient Algorithms to Compute the SP-Score Objective Function of a Multiple Sequence Alignment. Plos One 11 (8). doi:10.1371/journal.pone.0160043

Ranwez V, Scornavacca C, Doyon JP, Berry V (2016) Inferring gene duplications, transfers and losses can be done in a discrete framework. Journal of Mathematical Biology 72 (7):1811-1844. doi:10.1007/s00285-015-0930-z

Rienth M, Torregrosa L, Sarah G, Ardisson M, Brillouet JM, Romieu C (2016) Temperature desynchronizes sugar and organic acid metabolism in ripening grapevine fruits and remodels their transcriptome. Bmc Plant Biology 16. doi:10.1186/s12870-016-0850-0

Sarah G, Homa F, Pointet S, Contreras S, Sabot F, Nabholz B, Santoni S, Saune L, Ardisson M, Chantret N, Sauvage C, Tregear J, Jourda C, Pot D, Vigouroux Y, Chair H, Scarcelli N, Billot C, Yahiaoui N, Bacilieri R, Khadari B, Boccara M, Barnaud A, Peros JP, Labouisse JP, Pham JL, David J, Glemin S, Ruiz M (2016) A large set of 26 new reference transcriptomes dedicated to comparative population genomics in crops and wild relatives. Mol Ecol Resour. doi:10.1111/1755-0998.12587

Vacheron J, Combes-Meynet E, Walker V, Gouesnard B, Muller D, Moenne-Loccoz Y, Prigent-Combaret C (2016) Expression on roots and contribution to maize phytostimulation of 1-aminocyclopropane-1-decarboxylate deaminase gene acdS in Pseudomonas fluorescens F113. Plant and Soil 407 (1-2):187-202. doi:10.1007/s11104-016-2907-0

Youssef C, Aubry C, Montrichard F, Beucher D, Juchaux M, Ben C, Prosperi JM, Teulat B (2016) Cell length instead of cell number becomes the predominant factor contributing to hypocotyl length genotypic differences under abiotic stress in Medicago truncatula. Physiologia Plantarum 156 (1):108-124. doi:10.1111/ppl.12379

Zehdi-Azouzi S, Cherif E, Guenni K, Ben Abdelkrim A, Bermil A, Rhouma S, Ben Salah M, Santoni S, Pintaud JC, Aberlenc-Bertossi F, Hannachi AS (2016) Endemic insular and coastal Tunisian date palm genetic diversity. Genetica 144 (2):181-190. doi:10.1007/s10709-016-9888-z

2017

Abu Awad D, Billiard S (2017) The double edged sword: The demographic consequences of the evolution of self-fertilization. Evolution 71 (5):1178-1190. doi:10.1111/evo.13222

Adeoti K, Djedatin G, Ewedje E, Beulé T, Santoni S, Rival A, Jaligot E (2017) Assessment of genetic diversity among cultivated Pearl millet (Pennisetum glaucum, Poaceae) accessions from Benin, West Africa. African Journal of Biotechnology 16 (15):782-790

Al Makdessi N, Jean PA, Ecarnot M, Gorretta N, Rabatel G, Roumet P (2017) How plant structure impacts the biochemical leaf traits assessment from in-field hyperspectral images: A simulation study based on light propagation modeling in 3D virtual wheat scenes. Field Crops Research 205:95-105. doi:10.1016/j.fcr.2017.02.001

Andrieu E, Besnard A, Freville H, Vaudey V, Gauthier P, Thompson JD, Debussche M (2017) Population dynamics of Paeonia officinalis in relation to forest closure: From model predictions to practical conservation management. Biological Conservation 215:51-60. doi:10.1016/j.biocon.2017.08.010

Bouchet S, Bertin P, Presterl T, Jamin P, Coubriche D, Gouesnard B, Laborde J, Charcosset A (2017) Association mapping for phenology and plant architecture in maize shows higher power for developmental traits compared with growth influenced traits. Heredity 118 (3):249-259. doi:10.1038/hdy.2016.88

Chan YB, Ranwez V, Scornavaccac C (2017) Inferring incomplete lineage sorting, duplications, transfers and losses with reconciliations. Journal of Theoretical Biology 432:1-13. doi:10.1016/j.jtbi.2017.08.008

Clement Y, Sarah G, Holtz Y, Homa F, Pointet S, Contreras S, Nabholz B, Sabot F, Saune L, Ardisson M, Bacilieri R, Besnard G, Berger A, Cardi C, De Bellis F, Fouet O, Jourda C, Khadari B, Lanaud C, Leroy T, Pot D, Sauvage C, Scarcelli N, Tregear J, Vigouroux Y, Yahiaoui N, Ruiz M, Santoni S, Labouisse JP, Pham JL, David J, Glemin S (2017) Evolutionary forces affecting synonymous variations in plant genomes. Plos Genetics 13 (5). doi:10.1371/journal.pgen.1006799

Dufayard JF, Bettembourg M, Fischer I, Droc G, Guiderdoni E, Perin C, Chantret N, Dievart A (2017a) Corrigendum: New Insights on Leucine-Rich Repeats Receptor-Like Kinase Orthologous Relationships in Angiosperms. Frontiers in Plant Science 8. doi:10.3389/fpls.2017.00916

Dufayard JF, Bettembourg M, Fischer I, Droc G, Guiderdoni E, Perin C, Chantret N, Dievart A (2017b) New Insights on Leucine-Rich Repeats Receptor-Like Kinase Orthologous Relationships in Angiosperms. Frontiers in Plant Science 8. doi:10.3389/fpls.2017.00381

Frachon L, Libourel C, Villoutreix R, Carrere S, Glorieux C, Huard-Chauveau C, Navascues M, Gay L, Vitalis R, Baron E, Amsellem L, Bouchez O, Vidal M, Le Corre V, Roby D, Bergelson J, Roux F (2017) Intermediate degrees of synergistic pleiotropy drive adaptive evolution in ecological time. Nature ecology & evolution 1 (10):1551-1561. doi:10.1038/s41559-017-0297-1

Gouesnard B, Negro S, Laffray A, Glaubitz J, Melchinger A, Revilla P, Moreno-Gonzalez J, Madur D, Combes V, Tollon-Cordet C, Laborde J, Kermarrec D, Bauland C, Moreau L, Charcosset A, Nicolas S (2017) Genotyping-by-sequencing highlights original diversity patterns within a European collection of 1191 maize flint lines, as compared to the maize USDA genebank. Theoretical and Applied Genetics 130 (10):2165-2189. doi:10.1007/s00122-017-2949-6

Gros-Balthazard M, Galimberti M, Kousathanas A, Newton C, Ivorra S, Paradis L, Vigouroux Y, Carter R, Tengberg M, Battesti V, Santoni S, Falquet L, Pintaud JC, Terral JF, Wegmann D (2017) The Discovery of Wild Date Palms in Oman Reveals a Complex Domestication History Involving Centers in the Middle East and Africa. Current biology : CB 27 (14):2211-2218.e2218. doi:10.1016/j.cub.2017.06.045

Holtz Y, Bonnefoy M, Viader V, Ardisson M, Rode NO, Poux G, Roumet P, Marie-Jeanne V, Ranwez V, Santoni S, Gouache D, David J (2017a) Epistatic determinism of durum wheat resistance to the wheat spindle streak mosaic virus. Theoretical and Applied Genetics 130 (7):1491-1505. doi:10.1007/s00122-017-2904-6

Holtz Y, David JL, Ranwez V (2017b) The genetic map comparator: a user-friendly application to display and compare genetic maps. Bioinformatics 33 (9):1387-1388. doi:10.1093/bioinformatics/btw816

Le Signor C, Aime D, Bordat A, Belghazi M, Labas V, Gouzy J, Young ND, Prosperi JM, Leprince O, Thompson RD, Buitink J, Burstin J, Gallardo K (2017) Genome-wide association studies with proteomics data reveal genes important for synthesis, transport and packaging of globulins in legume seeds. New Phytologist 214 (4):1597-1613. doi:10.1111/nph.14500

Manna F, Pradel R, Choquet R, Freville H, Cheptou PO (2017) Disentangling the role of seed bank and dispersal in plant metapopulation dynamics using patch occupancy surveys. Ecology 98 (10):2662-2672. doi:10.1002/ecy.1960

Mollion M, Ehlers BK, Figuet E, Santoni S, Lenormand T, Maurice S, Galtier N, Bataillon T (2017) Patterns of genome-wide nucleotide diversity in the gynodioecious plant Thymus vulgaris are compatible with recent sweeps of cytoplasmic genes. Genome biology and evolution. doi:10.1093/gbe/evx272

Philippe H, de Vienne DM, Ranwez V, Roure B, Baurain D, Delsuc F (2017) Pitfalls in supermatrix phylogenomics. European Journal of Taxonomy 283:1-25. doi:10.5852/ejt.2017.283

Rakotoson T, Dusserre J, Letourmy P, Ramonta IR, Cao TV, Ramanantsoanirina A, Roumet P, Ahmadi N, Raboin LM (2017) Genetic variability of nitrogen use efficiency in rainfed upland rice. Field Crops Research 213:194-203. doi:10.1016/j.fcr.2017.07.023

Ranwez V, Serra A, Pot D, Chantret N (2017) Domestication reduces alternative splicing expression variations in sorghum. Plos One 12 (9). doi:10.1371/journal.pone.0183454

Rode NO, Holtz Y, Loridon K, Santoni S, Ronfort J, Gay L (2017a) How to optimize the precision of allele and haplotype frequency estimates using pooled-sequencing data. Mol Ecol Resour. doi:10.1111/1755-0998.12723

Rode NO, Soroye P, Kassen R, Rundle HD (2017b) Air-borne genotype by genotype indirect genetic effects are substantial in the filamentous fungus Aspergillus nidulans. Heredity 119 (1):1-7. doi:10.1038/hdy.2017.9

Sarah G, Homa F, Pointet S, Contreras S, Sabot F, Nabholz B, Santoni S, Saune L, Ardisson M, Chantret N, Sauvage C, Tregear J, Jourda C, Pot D, Vigouroux Y, Chair H, Scarcelli N, Billot C, Yahiaoui N, Bacilieri R, Khadari B, Boccara M, Barnaud A, Peros JP, Labouisse JP, Pham JL, David J, Glemin S, Ruiz M (2017) A large set of 26 new reference transcriptomes dedicated to comparative population genomics in crops and wild relatives. Molecular Ecology Resources 17 (3):565-580. doi:10.1111/1755-0998.12587

Sauvage C, Rau A, Aichholz C, Chadoeuf J, Sarah G, Ruiz M, Santoni S, Causse M, David J, Glemin S (2017) Domestication rewired gene expression and nucleotide diversity patterns in tomato. Plant Journal 91 (4):631-645. doi:10.1111/tpj.13592

Date de mise à jour : 4 avril 2018

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