Intranet

Génomique évolutive et gestion des populations (GE²pop)

Les publications des agents de l'équipe : articles publiés dans les revues à facteur d'impact, autres articles, ouvrages et chapitres d'ouvrage.

URL-WS(debug): http://intranet-umr-agap-applis.cirad.fr/WSagap/biblios.php/(appli)/www/(format)/html/(debutPagination)/0/(taillePagination)/100/(sortBy)/-annee/(tout)/1/(equipe)/ge2pop

Mariac C., Ousseini I.S., Alio A.K., Jugdé H., Pham J.L., Bezançon G., Ronfort J., Descroix L., Vigouroux Y. Early View. (2016/07/26). Spatial and temporal variation in selection of genes associated with pearl millet varietal quantitative traits in situ. Frontiers in Genetics, 7 : (9 p.)
http://dx.doi.org/10.3389/fgene.2016.00130

Sarah G., Homa F., Pointet S., Contreras S., Sabot F., Nabholz B., Santoni S., Sauné 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 J.P., Labouisse J.P., Pham J.L., David J., Glémin S., Ruiz M. Early View. (2016/08/26). A large set of 26 new reference transcriptomes dedicated to comparative population genomics in crops and wild relatives. Molecular Ecology Resources : (16 p.)
http://dx.doi.org/10.1111/1755-0998.12587

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

Bataillon T., Galtier N., Bernard A., Cryer N., Faivre N., Santoni S., Severac D., Mikkelsen T.N., Larsen K.S., Beier C., Sørensen J.G., Holmstrup M., Ehlers B.K. 2016. A replicated climate change field experiment reveals rapid evolutionary response in an ecologically important soil invertebrate. Global Change Biology, 22(7) : 2370–2379
http://dx.doi.org/10.1111/gcb.13293

Breton C.M., Farinelli D., Koubouris G., Berville A. 2016. A model based on S-allele dominance relationships to explain pseudo self-fertility of varieties in the olive tree. Euphytica, 210(1) : 105-117
http://dx.doi.org/10.1007/s10681-016-1708-0

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

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

Fischer I., Dievart A., Droc G., Dufayard J.F., Chantret N. 2016. (2016). Evolutionary dynamics of the Leucine-Rich Repeats Receptor-Like Kinase (LRR-RLK) subfamily in angiosperms. Plant Physiology, 170(3) : 1595-1610
http://dx.doi.org/10.1104/pp.15.01470

Gaüzère J., Oddou Muratorio S., Gay L., Klein E.K. 2016. Partial genotyping at polymorphic markers can improve heritability estimates in sibling groups. Molecular Ecology Resources, 16(6) : 1340-1352
http://dx.doi.org/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
http://dx.doi.org/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) : (20 p.)
http://dx.doi.org/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 : 63 (19 p.)
http://dx.doi.org/10.1186/s12870-016-0745-0

Mariette S., Tavaud M., Horvath A. 2016. Domestication et histoire évolutive des espèces fruitières : que pouvons-nous apprendre des études de génétique ? Exemples chez les Rosacées. In: Ruas M.P. Des fruits d'ici et d'ailleurs : regards sur l'histoire de quelques fruits consommés en Europe. Montreuil, France:Omniscience. Histoire des Savoirs : 117-138
http://prodinra.inra.fr/record/375520

Montazeaud G., Karatoğma H., Özturk I., Roumet P., Ecarnot M., Crossa J., Özer E., Özdemir F., Lopes M.S. 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
http://dx.doi.org/10.1016/j.fcr.2016.06.021

Ostrowski M.F., Prosperi J.M., 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) : 27
http://dx.doi.org/10.1371/journal.pone.0153974

Petitot A.S., 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
http://dx.doi.org/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) : e0160043
http://dx.doi.org/10.1371/journal.pone.0160043

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

Rienth M., Torregrosa L., Sarah G., Ardisson M., Brillouet J.M., Romieu C. 2016. Temperature desynchronizes sugar and organic acid metabolism in ripening grapevine fruits and remodels their transcriptome. Bmc Plant Biology, 16 : 164
http://dx.doi.org/10.1186/s12870-016-0850-0

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
http://dx.doi.org/10.1007/s11104-016-2907-0

Youssef C., Aubry C., Montrichard F., Beucher D., Juchaux M., Ben C., Prosperi J.M., 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
http://dx.doi.org/10.1111/ppl.12379

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

Chalak L., Haouane H., Essalouh L., Santoni S., Besnard G., Khadari B. 2015. Extent of the genetic diversity in Lebanese olive (#Olea europaea L.) trees: A mixture of an ancient germplasm with recently introduced varieties. Genetic Resources and Crop Evolution, 62(4) : 621-633
http://dx.doi.org/10.1007/s10722-014-0187-1

Fiorini N., Ranwez S., Montmain J., Ranwez V. 2015. USI: a fast and accurate approach for conceptual document annotation. Bmc Bioinformatics, 16 : 83
http://dx.doi.org/10.1186/s12859-015-0513-4

Jaillais B., Roumet P., Pinson Gadais L., Bertrand D. 2015. Detection of Fusarium head blight contamination in wheat kernels by multivariate imaging. Food Control, 54 : 250-258
http://dx.doi.org/10.1016/j.foodcont.2015.01.048

Nougué O., Rode N., Zahab R., Ségard A., Chevin L.M., Haag C.R., Lenormand T. 2015. (2015/10/05). Automixis in Artemia: Solving a century-old controversy. Journal of Evolutionary Biology, 28(12) : 2337–2348
http://dx.doi.org/10.1111/jeb.12757

Roumet M., Cayre A., Latreille M., Muller M.H. 2015. Quantifying temporal isolation: a modelling approach assessing the effect of flowering time differences on crop-to-weed pollen flow in sunflower. Evolutionary Applications, 8(1) : 64-74
http://dx.doi.org/10.1111/eva.12222

To T.H., Jacox E., Ranwez V., Scornavacca C. 2015. A fast method for calculating reliable event supports in tree reconciliations via Pareto optimality. Bmc Bioinformatics, 16 : 384
http://dx.doi.org/10.1186/s12859-015-0803-x

Turner K.G., Fréville H., Rieseberg L.H. 2015. Adaptive plasticity and niche expansion in an invasive thistle. Ecology and Evolution, 5(15) : 3183-3197
http://dx.doi.org/10.1002/ece3.1599

Vagne C., David J., Tavaud M., Fontez B. 2015. Reciprocal sign epistasis and truncation selection: When is recombination favorable in a pre-breeding program with a selfing species?. Journal of Theoretical Biology, 386 : 44-54
http://dx.doi.org/10.1016/j.jtbi.2015.08.013

Zehdi Azouzi S., Cherif E., Moussouni S., Gros Balthazard M., Abbas Naqvi S., Ludena B., Castillo K., Chabrillange N., Bouguedoura N., Bennaceur M., Si Dehbi F., Abdoulkader S., Daher A., Terral J.F., Santoni S., Ballardini M., Mercuri A., Ben Salah M., Kadri K., Othmani A., Littardi C., Salhi Hannachi A., Pintaud J.C., Aberlenc Bertossi F. 2015. Genetic structure of the date palm (Phoenix dactylifera) in the Old World reveals a strong differentiation between eastern and western populations. Annals of Botany, 116(1) : 101-112
http://dx.doi.org/10.1093/aob/mcv068

Aberlenc Bertossi F., Castillo K., Tranchant Dubreuil C., Cherif E., Ballardini M., Abdoulkder S., Gros Balthazard M., Chabrillange N., Santoni S., Mercuri A., Pintaud J.C. 2014. In silico mining of microsatellites in coding sequences of the date palm (Arecaceae) genome, characterization, and transferability. Applications in Plant Sciences, 2(1) : 1300058 (6 p.)
http://dx.doi.org/10.3732/apps.1300058

Batet M., Harispe S., Ranwez S., Sanchez D., Ranwez V. 2014. An information theoretic approach to improve semantic similarity assessments across multiple ontologies. Information Sciences, 283 : 197-210
http://dx.doi.org/10.1016/j.ins.2014.06.039

Bonhomme M., Andre O., Badis Y., Ronfort J., Burgarella C., Chantret N., Prosperi J.M., Briskine R., Mudge J., Debelle F., Navier H., Miteul H., Hajri A., Baranger A., Tiffin P., Dumas B., Pilet Nayel M.L., Young N.D., Jacquet C. 2014. High-density genome-wide association mapping implicates an F-box encoding gene in Medicago truncatula resistance to Aphanomyces euteiches. New Phytologist, 201(4) : 1328-1342
http://dx.doi.org/10.1111/nph.12611

Chentoufi L., Sahri A., Arbaoui M., Belqadi L., Birouk A., Roumet P., Muller M.H. 2014. Anchoring durum wheat diversity in the reality of traditional agricultural systems: varieties, seed management, and farmers' perception in two Moroccan regions. Journal of Ethnobiology and Ethnomedicine, 10(1) : 58 (16 p.)
http://dx.doi.org/10.1186/1746-4269-10-58

Chentoufi L., Sahri A., Arbaoui M., Birouk A., Roumet P., Muller M.H., Belqadi L. 2014. Diversité agro-morphologique et gestion variétale par les agriculteurs du blé dur (#Triticum turgidum ssp. durum) dans le Pré-Rif marocain. Revue Marocaine des Sciences Agronomiques et Vétérinaires, 2(2) : 30-38
http://www.agrimaroc.org/index.php/Actes_IAVH2/article/view/356

Clermont D., Santoni S., Saker S., Gomard M., Gardais E., Bizet C. 2014. Assessment of DNA encapsulation, a new room-temperature DNA storage method. Biopreservation and Biobanking, 12(3) : 176-183
http://dx.doi.org/10.1089/bio.2013.0082

David J., Holtz Y., Ranwez V., Santoni S., Sarah G., Ardisson M., Poux G., Choulet F., Genthon C., Roumet P., Tavaud Pirra M. 2014. Genotyping by sequencing transcriptomes in an evolutionary pre-breeding durum wheat population. Molecular Breeding, 34(4) : 1531-1548
http://dx.doi.org/10.1007/s11032-014-0179-z

Douzery E.J.P., Scornavacca C., Romiguier J., Belkhir K., Galtier N., Delsuc F., Ranwez V. 2014. OrthoMaM v8: A database of orthologous exons and coding sequences for comparative genomics in mammals. Molecular Biology and Evolution, 31(7) : 1923-1928
http://dx.doi.org/10.1093/molbev/msu132

Ducatez S., Humeau A., Congretel M., Freville H., Baguette M. 2014. Butterfly species differing in mobility show different structures of dispersal-related syndromes in the same fragmented landscape. Ecography, 37(4) : 378-389
http://dx.doi.org/10.1111/j.1600-0587.2013.00365.x

Fischer I., Dainat J., Ranwez V., Glemin S., Dufayard J.F., Chantret N. 2014. Impact of recurrent gene duplication on adaptation of plant genomes. BMC Plant Biology, 14 : 151 (15 p.)
http://dx.doi.org/10.1186/1471-2229-14-151

Glémin S., Clément Y., David J., Ressayre A. 2014. GC content evolution in coding regions of angiosperm genomes: a unifying hypothesis. Trends in Genetics, 30(7) : 263-270
http://dx.doi.org/10.1016/j.tig.2014.05.002

Julier B., Herrmann D., Flajoulot S., Barre P., Huyghe C., Ronfort J. 2014. Structuration de la diversité génétique chez la luzerne cultivée, conséquence pour l'identification de gènes liés à des caractères agronomiques. Innovations Agronomiques, 35 : 13-18
http://prodinra.inra.fr/record/263213

Koubouris G.C., Breton C.M., Metzidakis I.T., Vasilakakis M.D. 2014. Self-incompatibility and pollination relationships for four Greek olive cultivars. Scientia Horticulturae, 176 : 91-96
http://dx.doi.org/10.1016/j.scienta.2014.06.043

Mariac C., Scarcelli N., Pouzadou J., Barnaud A., Billot C., Faye A., Kougbeadjo A., Maillol V., Martin G., Sabot F., Santoni S., Vigouroux Y., Couvreur T. 2014. Cost-effective enrichment hybridization capture of chloroplast genomes at deep multiplexing levels for population genetics and phylogeography studies. Molecular Ecology Resources, 14(6) : 1103-1113
http://dx.doi.org/10.1111/1755-0998.12258

Nabholz B., Sarah G., Sabot F., Ruiz M., Adam H., Nidelet S., Ghesquiere A., Santoni S., David J., Glemin S. 2014. Transcriptome population genomics reveals severe bottleneck and domestication cost in the African rice (Oryza glaberrima). Molecular Ecology, 23(9) : 2210-2227
http://dx.doi.org/10.1111/mec.12738

Nguyen N.N.T., Ranwez V., Vile D., Soulie M.C., Dellagi A., Expert D., Gosti F. 2014. Evolutionary tinkering of the expression of PDFls suggests their joint effect on zinc tolerance and the response to pathogen attack. Frontiers in Plant Science, 5 : 70
http://dx.doi.org/10.3389/fpls.2014.00070

Picq S., Santoni S., Lacombe T., Latreille M., Weber A., Ardisson M., Ivorra S., Maghradze D., Arroyo Garcia R., Chatelet P., This P., Terral J.F., Bacilieri R. 2014. A small XY chromosomal region explains sex determination in wild dioecious V. vinifera and the reversal to hermaphroditism in domesticated grapevines. BMC Plant Biology , 14 : 229 (17 p.)
http://dx.doi.org/10.1186/s12870-014-0229-z

Prosperi J.M., Jenczewski E., Muller M.H., Fourtier S., Sampoux J.P., Ronfort J. 2014. Alfalfa domestication history, genetic diversity and genetic resources. Legume Perspectives, 4 : 13-14
http://prodinra.inra.fr/record/329112

Rienth M., Torregrosa L., Ardisson M., De Marchi R., Romieu C. 2014. Versatile and efficient RNA extraction protocol for grapevine berry tissue, suited for next generation RNA sequencing. Australian Journal of Grape and Wine Research, 20(2) : 247-254
http://dx.doi.org/10.1111/ajgw.12077

Righetti L., Djennane S., Berthelot P., Cournol R., Wilmot N., Loridon K., Vergne E., Chevreau E. 2014. Elimination of the nptII marker gene in transgenic apple and pear with a chemically inducible R/Rs recombinase. Plant Cell Tissue and Organ Culture, 117(3) : 335-348
http://dx.doi.org/10.1007/s11240-014-0443-2

Sahri A., Chentoufi L., Arbaoui M., Ardisson M., Belqadi L., Birouk A., Roumet P., Muller M.H. 2014. Towards a comprehensive characterization of durum wheat landraces in Moroccan traditional agrosystems: Analysing genetic diversity in the light of geography, farmers' taxonomy and tetraploid wheat domestication history. BMC Evolutionary Biology, 14 : 264 (18 p.)
http://dx.doi.org/10.1186/s12862-014-0264-2

Sahri A., Chentoufi L., Arbaoui M., Muller M.H., Roumet P., Belqadi L., Birouk A. 2014. Impact du relief et des circuits semenciers locaux sur la diversité agro-morphologique du blé dur (#Triticum turgidum ssp. durum) dans la vallée d’Er Rich – Imilchil (Maroc). Revue Marocaine des Sciences Agronomiques et Vétérinaires, 2(2) : 39-49
http://www.agrimaroc.org/index.php/Actes_IAVH2/article/view/357

Tonnabel J., Olivieri I., Mignot A., Rebelo A., Justy F., Santoni S., Caroli S., Saune L., Bouchez O., Douzery E.J.P. 2014. Developing nuclear DNA phylogenetic markers in the angiosperm genus Leucadendron (Proteaceae): A next-generation sequencing transcriptomic approach. Molecular Phylogenetics and Evolution, 70 : 37-46
http://dx.doi.org/10.1016/j.ympev.2013.07.027

Trottet M., Atanosova Penichon V., Ferreyrolle J., Gervais L., Pinson Gadais L., Roumet P. 2014. Characterization of new sources of resistance to Fusarium ear blight in durum wheat. Innovations Agronomiques, 35 : 173-180
http://www6.inra.fr/ciag/content/download/5334/41414/file/Vol35-17-Roumet.pdf

Vilmus I., Ecarnot M., Verzelen N., Roumet P. 2014. Monitoring nitrogen leaf resorption kinetics by near-infrared spectroscopy during grain filling in durum wheat in different nitrogen availability conditions. Crop Science, 54(1) : 284-296
http://dx.doi.org/10.2135/cropsci2013.02.0099

Andrieu E., Freville H., Besnard A., Vaudey V., Gauthier P., Thompson J.D., Debussche M. 2013. Forest-cutting rapidly improves the demographic status of Paeonia officinalis, a species threatened by forest closure. Population Ecology, 55(1) : 147-158
http://dx.doi.org/10.1007/s10144-012-0346-1

Avia K., Pilet Nayel M.L., Bahrman N., Baranger A., Delbreil B., Fontaine V., Hamon C., Hanocq E., Niarquin M., Sellier H., Vuylsteker C., Prosperi J.M., Lejeune Henaut I. 2013. Genetic variability and QTL mapping of freezing tolerance and related traits in Medicago truncatula#. Theoretical and Applied Genetics, 126(9) : 2353-2366
http://dx.doi.org/10.1007/s00122-013-2140-7

Ben C., Toueni M., Montanari S., Tardin M.C., Fervel M., Negahi A., Saint Pierre L., Mathieu G., Gras M.C., Noël D., Prospéri J.M., Pilet Nayel M.L., Baranger A., Huguet T., Julier B., Rickauer M., Gentzbittel L. 2013. Natural diversity in the model legume Medicago truncatula allows identifying distinct genetic mechanisms conferring partial resistance to Verticillium wilt. Journal of Experimental Botany, 64(1) : 317-332
http://dx.doi.org/10.1093/jxb/ers337

Besnard G., Khadari B., Navascués M., Fernández Mazuecos M., El Bakkali A., Arrigo N., Baali Cherif D., Brunini Bronzini de Caraffa V., Santoni S., Vargas P., Savolainen V. 2013. The complex history of the olive tree: From Late Quaternary diversification of Mediterranean lineages to primary domestication in the northern Levant. Proceedings of the Royal Society B: Biological Sciences, 280(1756) : 20122833 (7 p.)
http://dx.doi.org/10.1098/rspb.2012.2833

Chan Y.b., Ranwez V., Scornavacca C. 2013. Reconciliation-based detection of co-evolving gene families. BMC Bioinformatics, 14 : 332 (16 p.)
http://dx.doi.org/10.1186/1471-2105-14-332

Cherif E., Zehdi S., Castillo K., Chabrillange N., Abdoulkader S., Pintaud J.C., Santoni S., Salhi Hannachi A., Glemin S., Aberlenc Bertossi F. 2013. Male-specific DNA markers provide genetic evidence of an XY chromosome system, a recombination arrest and allow the tracing of paternal lineages in date palm. New Phytologist, 197(2) : 409-415
http://dx.doi.org/10.1111/nph.12069

Compan F., Ecarnot M., Roumet P. 2013. Mesure de la qualité du grain de blé dur par spectrométrie proche infrarouge. Cahier des Techniques de l’INRA, 80(3) : (8 p.)
https://www6.inra.fr/cahier_des_techniques/Media/Cahiers/annee-2013/Cahier-80/Compan

Cursach J., Besnard A., Rita J., Freville H. 2013. Demographic variation and conservation of the narrow endemic plant Ranunculus weyleri. Acta Oecologica-International Journal of Ecology, 53 : 102-109
http://dx.doi.org/10.1016/j.actao.2013.09.010

De Mita S., Thuillet A.C., Gay L., Ahmadi N., Manel S., Ronfort J., Vigouroux Y. 2013. Detecting selection along environmental gradients: analysis of eight methods and their effectiveness for outbreeding and selfing populations. Molecular Ecology, 22(5) : 1383-1399
http://dx.doi.org/10.1111/mec.12182

Ducatez S., Baguette M., Trochet A., Chaput Bardy A., Legrand D., Stevens V.M., Freville H. 2013. Flight endurance and heating rate vary with both latitude and habitat connectivity in a butterfly species. Oikos, 122(4) : 601-611
http://dx.doi.org/10.1111/j.1600-0706.2012.20947.x

Ecarnot M., Baczyk P., Tessarotto L., Chervin C. 2013. Rapid phenotyping of the tomato fruit model, Micro-Tom, with a portable VIS-NIR spectrometer. Plant Physiology and Biochemistry, 70 : 159-163
http://dx.doi.org/10.1016/j.plaphy.2013.05.019

Ecarnot M., Compan F., Roumet P. 2013. Assessing leaf nitrogen content and leaf mass per unit area of wheat in the field throughout plant cycle with a portable spectrometer. Field Crops Research, 140 : 44-50
http://dx.doi.org/10.1016/j.fcr.2012.10.013

El Bakkali A., Haouane H., Hadiddou A., Oukabli A., Santoni S., Udupa S.M., Van Damme P., Khadari B. 2013. Genetic diversity of on-farm selected olive trees in Moroccan traditional olive orchards. Plant Genetic Resources Characterization and Utilization, 11(2) : 97-105
http://dx.doi.org/10.1017/S1479262112000445

Freville H., Choquet R., Pradel R., Cheptou P.O. 2013. Inferring seed bank from hidden Markov models: new insights into metapopulation dynamics in plants. Journal of Ecology, 101(6) : 1572-1580
http://dx.doi.org/10.1111/1365-2745.12141

Gay L., Siol M., Ronfort J. 2013. Pedigree-free estimates of heritability in the wild : Promising prospects for selfing populations. PLoS One, 8(6) : e66983
http://dx.doi.org/10.1371/journal.pone.0066983

Glemin S., Ronfort J. 2013. Adaptation and maladaptation in selfing and outcrossing species: New mutations versus standing variation. [with Correction]. Evolution, 67(1 &11) : 225-240 + 3381(1 p.)
http://dx.doi.org/10.1111/j.1558-5646.2012.01778.x

Goldringer I., Bonnin I., David J. 2013. Rôle de la sélection dans la dynamique de la diversité des Blés cultivés : de la domestication à la sélection moderne au 20ème siècle. Innovations Agronomiques, 29 : 1-15
http://www6.inra.fr/ciag/Revue/Volumes-publies-en-2013/Volume-29-Septembre-2013

Landey R.B., Cenci A., Georget F., Bertrand B., Camayo G., Dechamp E., Carlos Herrera J., Santoni S., Lashermes P., Simpson J., Etienne H. 2013. High genetic and epigenetic stability in Coffea arabica plants derived from embryogenic suspensions and secondary embryogenesis as revealed by AFLP, MSAP and the phenotypic variation rate. PLoS ONE, 8(2) : e56372 (15 p.)
http://dx.doi.org/10.1371/journal.pone.0056372

Leray M., Yang J., Meyer C., Mills S., Agudelo N., Ranwez V., Boehm J., Machida R. 2013. A new versatile primer set targeting a short fragment of the mitochondrial COI region for metabarcoding metazoan diversity: application for characterizing coral reef fish gut contents. Frontiers in Zoology, 10 : 34 (14 p.)
http://dx.doi.org/10.1186/1742-9994-10-34

Loridon K., Burgarella C., Chantret N., Martins F., Gouzy J., Prosperi J.M., Ronfort J. 2013. Single-nucleotide polymorphism discovery and diversity in the model legume Medicago truncatula#. Molecular Ecology Resources, 13(1) : 84-95
http://dx.doi.org/10.1111/1755-0998.12021

Negahi A., Sarrafi A., Ebrahimi A., Maury P., Prosperi J.M., Ben C., Rickauer M. 2013. Genetic variability of tolerance to Verticillium albo-atrum and Verticillium dahliae in Medicago truncatula#. European Journal of Plant Pathology, 136(1) : 135-143
http://dx.doi.org/10.1007/s10658-012-0148-5

Némorin A., David J., Maledon E., Nudol E., Dalon J., Arnau G. 2013. Microsatellite and flow cytometry analysis to help understand the origin of Dioscorea alata polyploids. Annals of Botany, 112(5) : 811-819
http://dx.doi.org/10.1093/aob/mct145

Nguyen T.H., Ranwez V., Pointet S., Chifolleau A.M.A., Doyon J.P., Berry V. 2013. (2013/04/10). Reconciliation and local gene tree rearrangement can be of mutual profit. Algorithms for Molecular Biology, 8 : 12 (39 p.)
http://dx.doi.org/10.1186/1748-7188-8-12

Ranwez S., Duthil B., Sy M., Montmain J., Augereau P., Ranwez V. 2013. How ontology based information retrieval systems may benefit from lexical text analysis. In: Oltramari A., Vossen P., Qin L., Hovy E. New trends of research in ontologies and lexical resources. Berlin, Germany:Springer. Theory and Applications of Natural Language Processing : 209-231
http://dx.doi.org/10.1007/978-3-642-31782-8_11

Ranwez V., Holtz Y., Sarah G., Ardisson M., Santoni S., Glemin S., Tavaud Pirra M., David J. 2013. Disentangling homeologous contigs in allo-tetraploid assembly: Application to durum wheat. BMC Bioinformatics, 14(Suppl 15) : S15 (11 p.)
http://dx.doi.org/10.1186/1471-2105-14-S15-S15

Romiguier J., Ranwez V., Delsuc F., Galtier N., Douzery E.J.P. 2013. Less is more in mammalian phylogenomics: AT-rich genes minimize tree conflicts and unravel the root of placental mammals. Molecular Biology and Evolution, 30(9) : 2134-2144
http://dx.doi.org/10.1093/molbev/mst116

Romiguier J., Ranwez V., Douzery E.J.P., Galtier N. 2013. Genomic evidence for large, long-lived ancestors to placental mammals. Molecular Biology and Evolution, 30(1) : 5-13
http://dx.doi.org/10.1093/molbev/mss211

Ronfort J., Glemin S. 2013. Mating system, Haldane's sieve, and the domestication process. Evolution, 67(5) : 1518-1526
http://dx.doi.org/10.1111/evo.12025

Roumet M., Noilhan C., Latreille M., David J., Muller M.H. 2013. How to escape from crop-to-weed gene flow: phenological variation and isolation-by-time within weedy sunflower populations. New Phytologist, 197(2) : 642-654
http://dx.doi.org/10.1111/nph.12045

Scornavacca C., Paprotny W., Berry V., Ranwez V. 2013. Representing a set of reconciliations in a compact way. Journal of Bioinformatics and Computational Biology, 11(02) : 1250025 (19 p.)
http://dx.doi.org/10.1142/S0219720012500254

Shahzad Z., Ranwez V., Fizames C., Marques L., Le Martret B., Alassimone J., Gode C., Lacombe E., Castillo T., Saumitou Laprade P., Berthomieu P., Gosti F. 2013. Plant Defensin type 1 (PDF1): protein promiscuity and expression variation within the Arabidopsis genus shed light on zinc tolerance acquisition in Arabidopsis halleri#. New Phytologist, 200(3) : 820-833
http://dx.doi.org/10.1111/nph.12396

Smith K.L., Hale J.M., Gay L., Kearney M., Austin J.J., Parris K.M., Melville J. 2013. Spatio-temporal changes in the structure of an australian frog hybrid zone: a 40-year perspective. Evolution, 67(12) : 3442-3454
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Tayeh N., Bahrman N., Devaux R., Bluteau A., Prosperi J.M., Delbreil B., Lejeune Henaut I. 2013. A high-density genetic map of the Medicago truncatula major freezing tolerance QTL on chromosome 6 reveals colinearity with a QTL related to freezing damage on Pisum sativum linkage group VI. Molecular Breeding, 32(2) : 279-289
http://dx.doi.org/10.1007/s11032-013-9869-1

Thi Hau N., Ranwez V., Berry V., Scornavacca C. 2013. Support measures to estimate the reliability of evolutionary events predicted by reconciliation methods. PLoS One, 8(10) : e73667 (14 p.)
http://dx.doi.org/10.1371/journal.pone.0073667

Bouffaud M.L., Kyselkova M., Gouesnard B., Grundmann G., Muller D., Moenne Loccoz Y. 2012. Is diversification history of maize influencing selection of soil bacteria by roots?. Molecular Ecology, 21(1) : 195-206
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Bourguiba H., Audergon J.M., Krichen L., Trifi Farah N., Mamouni A., Trabelsi S., D'Onofrio C., Asma B., Santoni S., Khadari B. 2012. Loss of genetic diversity as a signature of apricot domestication and diffusion into the Mediterranean Basin. BMC Plant Biology, 12(1) : 49
http://dx.doi.org/10.1186/1471-2229-12-49

Bozzini A., David J., Natoli V. 2012. Origin and distribution of durum wheat genetic diversity in the World. In: Sissons M.J., Abecassis J., Marchylo B., Carcea M. Durum Wheat: Chemistry and Technology (2nd ed.).AACC International Press : 1-14
http://prodinra.inra.fr/record/305189

Breton C., Gil A., Wargnier J., Serieys H., Berville A. 2012. Transfer of architectural traits from perennial Helianthus mollis Lam. to sunflower (#H-annuus L.) and localisation of introgression. Euphytica, 186(2) : 557-572
http://dx.doi.org/10.1007/s10681-012-0656-6

Breton C., Warnock P., Berville A. 2012. Origin and history of the olive. In: Innocenzo M. Olive Germplasm - the Olive Cultivation, Table Olive and Olive Oil Industry in Italy. Rijeka, Croatie:InTech : 3-22
http://dx.doi.org/10.5772/51933

Breton C.M., Berville A. 2012. New hypothesis elucidates self-incompatibility in the olive tree regarding S-alleles dominance relationships as in the sporophytic model. Comptes Rendus Biologies, 335(9) : 563-572
http://dx.doi.org/10.1016/j.crvi.2012.07.006

Cahais V., Gayral P., Tsagkogeorga G., Melo Ferreira J., Ballenghien M., Weinert L., Chiari Y., Belkhir K., Ranwez V., Galtier N. 2012. Reference-free transcriptome assembly in non-model animals from next-generation sequencing data. Molecular Ecology Resources, 12(5) : 834-845
http://dx.doi.org/10.1111/j.1755-0998.2012.03148.x

Clarke J.M., Deambrogio E., Hare R.A., Roumet P. 2012. Genetics and breeding of durum wheat. In: Sissons M.J., Abecassis J., Marchylo B., Carcea M. Durum wheat: Chemistry and technology (2nd edition). St. Paul, MN, USA:AACC International : 15-36
http://prodinra.inra.fr/record/305190

Cornillot E., Hadj Kaddour K., Dassouli A., Noel B., Ranwez V., Vacherie B., Augagneur Y., Brès V., Duclos A., Randazzo S., Carcy B., Debierre Grockiego F., Delbecq S., Moubri Ménage K., Shams Eldin H., Usmani Brown S., Bringaud F., Wincker P., Vivarès C.P., Schwarz R.T., Schetters T.P., Krause P.J., Gorenflot A., Berry V., Barbe V., Ben Mamoun C. 2012. Sequencing of the smallest Apicomplexan genome from the human pathogen Babesia microti (dagger). Nucleic Acids Research, 40(18) : 9102-9114
http://dx.doi.org/10.1093/nar/gks700

D'Erfurth I., Le Signor C., Aubert G., Sanchez M., Vernoud V., Darchy B., Lherminier J., Bourion V., Bouteiller N., Bendahmane A., Buitink J., Prosperi J.M., Thompson R., Burstin J., Gallardo K. 2012. A Role for an endosperm-localized subtilase in the control of seed size in legumes. New Phytologist, 196(3) : 738-751
http://dx.doi.org/10.1111/j.1469-8137.2012.04296.x

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