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Publications in refereed journals

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2017
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Le  20/11/17

Adam-Blondon A. F., Alaux M., Durand S., Letellier T., Merceron G., Mohellibi N., Pommier C., Steinbach D., Alfama F., Amselem J., Charruaud D., Choisne N., Flores R., Guerche C., Jamilloux V., Kimmel E., Lapalu N., Loaec M., Michotey C., Quesneville H. (2017) Mining Plant Genomic and Genetic Data Using the GnpIS Information System. Methods Mol Biol, 1533 103-117.

Aguirre-Liguori J. A., Tenaillon M. I., Vazquez-Lobo A., Gaut B. S., Jaramillo-Correa J. P., Montes-Hernandez S., Souza V., Eguiarte L. E. (2017) Connecting genomic patterns of local adaptation and niche suitability in teosintes. Mol Ecol, 26 (16) 4226-4240.

Akakpo R., Scarcelli N., Chair H., Dansi A., Djedatin G., Thuillet A. C., Rhone B., Francois O., Alix K., Vigouroux Y. (2017) Molecular basis of African yam domestication: analyses of selection point to root development, starch biosynthesis, and photosynthesis related genes. BMC Genomics, 18 (1) 782.

Alix K., Gérard P. R., Schwarzacher T., Heslop-Harrison J. S. (2017) Polyploidy and interspecific hybridization: partners for adaptation, speciation and evolution in plants. Ann Bot, 120 (2) 183-194. Review.

Aloui A., Recorbet G., Lemaitre-Guillier C., Mounier A., Balliau T., Zivy M., Wipf D., Dumas-Gaudot E. (2017) The plasma membrane proteome of Medicago truncatula roots as modified by arbuscular mycorrhizal symbiosis. Mycorrhiza, Epub ahead of print.

Baldy A., Jacquemot M.-P., Griveau Y., Bauland C., Reymond M., Mechin V. (2017) Energy Values of Registered Corn Forage Hybrids in France over the Last 20 Years Rose in a Context of Maintained Yield Increase. Am J Plant Science, 8 (9) 1449-1461.

Barot S., Allard V., Cantarel A., Enjalbert Q., Gauffreteau A., Goldringer I., Lata J.-C., Le Roux X., Niboyet A., Porcher E. (2017) Designing mixtures of varieties for multifunctional agriculture with the help of ecology. A review. Agro Sustain Dev, 37:13.

Bedoya C. A., Dreisigacker S., Hearne S., Franco J., Mir C., Prasanna B. M., Taba S., Charcosset A., Warburton M. L. (2017) Genetic diversity and population structure of native maize populations in Latin America and the Caribbean. PLoS One, 12 (4) e0173488.

Besnard G., Terral J. F., Cornille A. (2017) On the origins and domestication of the olive: a review and perspectives. Review. Ann Bot, in press

Bolotin-Fukuhara M. (2017) Thirty years of the HAP2/3/4/5 complex. Biochim Biophys Acta, 1860 (5) 543-559.

Bonnot T., Bancel E., Alvarez D., Davanture M., Boudet J., Pailloux M., Zivy M., Ravel C., Martre P. (2017) Grain subproteome responses to nitrogen and sulfur supply in diploid wheat Triticum monococcum ssp. monococcum. Plant J, 91 (5) 894-910.

Borg J., Kiær L. P., Lecarpentier C., Goldringer I., Gauffreteau A., Saint-Jean S., Barot S., Enjalbert A. (2017) Unfolding the potential of wheat cultivar mixtures: A meta-analysis perspective and identification of knowledge gaps. Field Crops Research, Epub ahead of print

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 (Edinb), 118 (3) 249-259.

Brandenburg J. T., Mary-Huard T., Rigaill G., Hearne S. J., Corti H., Joets J., Vitte C., Charcosset A., Nicolas S. D., Tenaillon M. I. (2017) Independent introductions and admixtures have contributed to adaptation of European maize and its American counterparts. PLoS Genet, 13 (3) e1006666.

Brault V., Delattre M., Lebarbier E., Levy-Leduc C., Mary-Huard T. (2017) Estimating the Number of Block Boundaries from Diagonal Blockwise Matrices Without Penalization. Scand J Statistics, 44 (2) 563-580.

Bukreyeva I., Angoulvant A., Bendib I., Gagnard J. C., Bourhis J. H., Dargere S., Bonhomme J., Thellier M., Gachot B., Wyplosz B. (2017) Enterocytozoon bieneusi Microsporidiosis in Stem Cell Transplant Recipients Treated with Fumagillin1. Emerg Infect Dis, 23 (6) 1039-1041.

Canas R. A., Yesbergenova-Cuny Z., Simons M., Chardon F., Armengaud P., Quillere I., Cukier C., Gibon Y., Limami A. M., Nicolas S., Brule L., Lea P. J., Maranas C. D., Hirel B. (2017) Exploiting the Genetic Diversity of Maize Using a Combined Metabolomic, Enzyme Activity Profiling, and Metabolic Modeling Approach to Link Leaf Physiology to Kernel Yield. Plant Cell, 29 (5) 919-943.

Chiquet J., Mary-Huard T., Rogbin S. (2017) Structured regularization for conditional Gaussian graphical models. Stat Comput, 27 (3) 789-804.

Citerne H. L., Reyes E., Le Guilloux M., Delannoy E., Simonnet F., Sauquet H., Weston P. H., Nadot S., Damerval C. (2017) Characterization of CYCLOIDEA-like genes in Proteaceae, a basal eudicot family with multiple shifts in floral symmetry. Ann Bot, 119 (3) 367-378.

Damerval C., Becker A. (2017) Genetics of flower development in Ranunculales - a new, basal eudicot model order for studying flower evolution. New Phytol, Epub ahead of print.

Damerval C., Nadot S. (2017) Letter to the 21st century botanist: "What is a flower?" 6. The evo-devo of floral symmetry. Botany Letters, 164 (3) 193-196.

Delatola E. I., Lebarbier E., Mary-Huard T., Radvanyi F., Robin S., Wong J. (2017) SegCorr a statistical procedure for the detection of genomic regions of correlated expression. BMC Bioinformatics, 18 (1) 333.

Denis E., Kbiri N., Mary V., Claisse G., Conde E Silva N., Kreis M., Deveaux Y. (2017) WOX14 promotes bioactive gibberellin synthesis and vascular cell differentiation in Arabidopsis. Plant J, 90 (3) 560-572.

Durufle H., Clemente H. S., Balliau T., Zivy M., Dunand C., Jamet E. (2017) Cell wall proteome analysis of Arabidopsis thaliana mature stems. Proteomics, 17 (8).

Durufle H., Herve V., Ranocha P., Balliau T., Zivy M., Chourre J., San Clemente H., Burlat V., Albenne C., Dejean S., Jamet E., Dunand C. (2017) Cell wall modifications of two Arabidopsis thaliana ecotypes, Col and Sha, in response to sub-optimal growth conditions: An integrative study. Plant Sci, 263 183-193.

Durufle H., Herve V., Balliau T., Zivy M., Dunand C., Jamet E. (2017) Proline Hydroxylation in Cell Wall Proteins: Is It Yet Possible to Define Rules? Front Plant Sci, 8 1802.

Edel K. H., Marchadier E., Brownlee C., Kudla J., Hetherington A. M. (2017) The Evolution of Calcium-Based Signalling in Plants. Curr Biol, 27 (13) R667-R679. Review.

Fustier M. A., Brandenburg J. T., Boitard S., Lapeyronnie J., Eguiarte L. E., Vigouroux Y., Manicacci D., Tenaillon M. I. (2017) Signatures of local adaptation in lowland and highland teosintes from whole-genome sequencing of pooled samples. Mol Ecol, 26 (10) 2738-2756.

Giraud H., Bauland C., Falque M., Madur D., Combes V., Jamin P., Monteil C., Laborde J., Palaffre C., Gaillard A., Blanchard P., Charcosset A., Moreau L. (2017) Reciprocal Genetics: Identifying QTLs for General and Specific Combining Abilities in Hybrids Between Multiparental Populations from Two Maize (Zea mays L.) Heterotic Groups. Genetics, Epub ahead of print.

Giraud H., Bauland C., Falque M., Madur D., Combes V., Jamin P., Monteil C., Laborde J., Palaffre C., Gaillard A., Blanchard P., Charcosset A., Moreau L. (2017) Linkage Analysis and Association Mapping QTL Detection Models for Hybrids Between Multiparental Populations from Two Heterotic Groups: Application to Biomass Production in Maize (Zea mays L.). G3 (Bethesda), 7 (11) 3649-3657.

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. Theor Appl Genet, 130 (10) 2165-2189.

Jean N., Dumont E., Herzi F., Balliau T., Laabir M., Masseret E., Mounier S. (2017) Modifications of the soluble proteome of a mediterranean strain of the invasive neurotoxic dinoflagellate Alexandrium catenella under metal stress conditions. Aquat Toxicol, 188 80-91.

Langella O., Valot B., Balliau T., Blein-Nicolas M., Bonhomme L., Zivy M. (2017) X!TandemPipeline: A Tool to Manage Sequence Redundancy for Protein Inference and Phosphosite Identification. J Proteome Res, 16 (2) 494-503.

Laporte F., Charcosset A., Mary-Huard T. (2017) Estimation of the relatedness coefficients from biallelic markers, application in plant mating designs. Biometrics, 73 (3) 885-894.

Lariepe A., Moreau L., Laborde J., Bauland C., Mezmouk S., Decousset L., Mary-Huard T., Fievet J. B., Gallais A., Dubreuil P., Charcosset A. (2017) General and specific combining abilities in a maize (Zea mays L.) test-cross hybrid panel: relative importance of population structure and genetic divergence between parents. Theor Appl Genet, 130 (2) 403-417.

Millan-Oropeza A., Henry C., Blein-Nicolas M., Aubert-Frambourg A., Moussa F., Bleton J., Virolle M. J. (2017) Quantitative Proteomics Analysis Confirmed Oxidative Metabolism Predominates in Streptomyces coelicolor versus Glycolytic Metabolism in Streptomyces lividans. J Proteome Res, 16 (7) 2597-2613.

Negroni L., Zivy M., Lemaire C. (2017) Mass Spectrometry of Mitochondrial Membrane Protein Complexes. Methods Mol Biol, 1635 233-246.

Ousseini I. S., Bakasso Y., Kane N. A., Couderc M., Zekraoui L., Mariac C., Manicacci D., Rhone B., Barnaud A., Berthouly-Salazar C., Assoumane A., Moussa D., Moussa T., Vigouroux Y. (2017) Myosin XI is associated with fitness and adaptation to aridity in wild pearl millet. Heredity (Edinb), 119 (2) 88-94.

Pelé A., Falque M., Trotoux G., Eber F., Negre S., Gilet M., Huteau V., Lode M., Jousseaume T., Dechaumet S., Morice J., Poncet C., Coriton O., Martin O. C., Rousseau-Gueutin M., Chevre A. M. (2017) Amplifying recombination genome-wide and reshaping crossover landscapes in Brassicas. PLoS Genet, 13 (5) e1006794.

Perronne R., Makowksi D., Goffaux R., Montalent P., Goldringer I. (2017) Temporal evolution of varietal, spatial and genetic diversity of bread wheat between 1980 and 2006 strongly depends upon agricultural regions in France. Agriculture, Ecosystems & Environment, 236 12-20.

Perronne R., Diguet S., de Vallavieille-Pope C., Leconte M., Enjalbert J. (2017) A framework to characterize the commercial life cycle of crop varieties: Application to the case study of the influence of yellow rust epidemics on French bread wheat varieties. Field Crops Research, 209 159-167.

Regente M., Pinedo M., San Clemente H., Balliau T., Jamet E., de la Canal L. (2017) Plant extracellular vesicles are incorporated by a fungal pathogen and inhibit its growth. J Exp Bot, Epub ahead of print.

Renvoise M., Bonhomme L., Davanture M., Zivy M., Lemaire C. (2017) Phosphoproteomic Analysis of Isolated Mitochondria in Yeast. Methods Mol Biol, 1636 283-299.

Rincent R., Charcosset A., Moreau L. (2017) Predicting genomic selection efficiency to optimize, 130 (11) 2231-2247.

Rouzet A., Reboux G., Dalphin J. C., Gondouin A., De Vuyst P., Balliau T., Millon L., Valot B., Roussel S. (2017) An immunoproteomic approach revealed antigenic proteins enhancing serodiagnosis performance of bird fancier's lung. J Immunol Methods, Epub ahead of print.

Senghor Y., Guitard J., Angoulvant A., Hennequin C. (2017) Cryptococcal antigen detection in broncho-alveolar lavage fluid. Med Mycol, Epub ahead of print.

Villegente M., Marmey P., Job C., Galland M., Cueff G., Godin B., Rajjou L., Balliau T., Zivy M., Fogliani B., Sarramegna-Burtet V., Job D. (2017) A Combination of Histological, Physiological, and Proteomic Approaches Shed Light on Seed Desiccation Tolerance of the Basal Angiosperm Amborella trichopoda. Proteomes, 5 (3)

   

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2016
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Le 09/08/16

  • Ali S., Soubeyrand S., Gladieux P., Giraud T., Leconte M., Gautier A., Mboup M., Chen W., de Vallavieille-Pope C., Enjalbert J. (2016) CloNcaSe: Estimation of sex frequency and effective population size by clonemate re-sampling in partially clonal organisms. Mol Ecol Resour, 16 (4) 845-61.
  • Angoulvant A., Guitard J., Hennequin C. (2016) Old and new pathogenic Nakaseomyces species: epidemiology, biology, identification, pathogenicity and antifungal resistance. FEMS Yeast Res, 16 (2).
  • Blein-Nicolas M., Zivy M. (2016) Thousand and one ways to quantify and compare protein abundances in label-free bottom-up proteomics. Biochim Biophys Acta, 1864 (8) 883-95.
  • Bolotin-Fukuhara M., Fairhead C. (2016) Editorial: Candida glabrata, the other yeast pathogen. FEMS Yeast Res, 16 (2).
  • Bougnoux M. E., Dannaoui E., Accoceberry I., Angoulvant A., Bailly E., Botterel F., Chevrier S., Chouaki T., Cornet M., Dalle F., Datry A., Dupuis A., Fekkar A., Gangneux J. P., Guitard J., Hennequin C., Le Govic Y., Le Pape P., Maubon D., Ranque S., Sautour M., Sendid B., Chandenier J. (2016) Multicenter Comparison of the Etest and EUCAST Methods for Antifungal Susceptibility Testing of Candida Isolates to Micafungin. Antimicrob Agents Chemother, 60 (8) 5088-91.
  • Boutet G., Alves Carvalho S., Falque M., Peterlongo P., Lhuillier E., Bouchez O., Lavaud C., Pilet-Nayel M. L., Riviere N., Baranger A. (2016) SNP discovery and genetic mapping using genotyping by sequencing of whole genome genomic DNA from a pea RIL population. BMC Genomics, 17 (1) 121.
  • Desclee de Maredsous C., Oozeer R., Barbillon P., Mary-Huard T., Delteil C., Blachier F., Tome D., van der Beek E. M., Davila A. M. (2016) High-Protein Exposure during Gestation or Lactation or after Weaning Has a Period-Specific Signature on Rat Pup Weight, Adiposity, Food Intake, and Glucose Homeostasis up to 6 Weeks of Age. J Nutr, 146 (1) 21-9.
  • Durand J. L., Andrieu B., Barillot R., Barre P., Combes D., Enjalbert J., Escobar-Gutierrez A., Faverjon L., Lecarpentier C., Litrico I., Louarn G., Migault V., Sanchez L. (2016) Designing and improving mixed grasslands: advances made in modelling forage variety performance. Fourrages, (225) 21-28.
  • Friggens N. C., Duvaux-Ponter C., Etienne M. P., Mary-Huard T., Schmidely P. (2016) Characterizing individual differences in animal responses to a nutritional challenge: Toward improved robustness measures. J Dairy Sci, 99 (4) 2704-18.
  • Hazard L., Gauffreteau A., Borg J., Charron M. H., Deo M., Enjalbert J., Goutiers V., Gressier E. (2016) Using innovative approaches to meet the challenges of a rapidly changing climate and world: the utility of co-design in plant breeding programmes. Fourrages, (225) 39-47.
  • Henry A., Martin O. C. (2016) Short relaxation times but long transient times in both simple and complex reaction networks. J R Soc Interface, 13 (120).
  • Legrand J., Bolotin-Fukuhara M., Bourgais A., Fairhead C., Sicard D. (2016) Life-history strategies and carbon metabolism gene dosage in the Nakaseomyces yeasts. FEMS Yeast Res, 16 (2).
  • Lhomme E., Urien C., Legrand J., Dousset X., Onno B., Sicard D. (2016) Sourdough microbial community dynamics: An analysis during French organic bread-making processes. Food Microbiol, 53 (Pt A) 41-50.
  • Marchadier E., Oates M. E., Fang H., Donoghue P. C., Hetherington A. M., Gough J. (2016) Evolution of the Calcium-Based Intracellular Signaling System. Genome Biol Evol, 8 (7) 2118-32.
  • Martin O. C., Krzywicki A., Zagorski M. (2016) Drivers of structural features in gene regulatory networks: From biophysical constraints to biological function. Phys Life Rev, 17 124-58.
  • Martinez-Ainsworth N. E., Tenaillon M. I. (2016) Superheroes and masterminds of plant domestication. C R Biol, 339 (7-8) 268-73.
  • Millet E., Welcker C., Kruijer W., Negro S., Coupel-Ledru A., Bauland C., Nicolas S., Praud S., Ranc N., Presterl T., Tuberosa R., Bedo Z., Draye X., Usadel B., Charcosset A., van Eeuwijk F., Tardieu F. (2016) Genome-wide analysis of yield in Europe: allelic effects as functions of drought and heat scenarios. Plant Physiol, Epub ahead of print.
  • Mori M., Hwa T., Martin O. C., De Martino A., Marinari E. (2016) Constrained Allocation Flux Balance Analysis. PLoS Comput Biol, 12 (6) e1004913.
  • Nguyen-Kim H., San Clemente H., Balliau T., Zivy M., Dunand C., Albenne C., Jamet E. (2016) Arabidopsis thaliana root cell wall proteomics: Increasing the proteome coverage using a combinatorial peptide ligand library and description of unexpected Hyp in peroxidase amino acid sequences. Proteomics, 16 (3) 491-503.
  • Nicolas S. D., Péros J.-P., Lacombe T., Launay A., Le Paslier M.-C., Bérard A., Mangin B., Valière S., Martins F., Le Cunff L., Laucou V., Bacilieri R., Dereeper A., Chatelet P., This P., Doligez A. (2016) Genetic diversity, linkage disequilibrium and power of a large grapevine (Vitis vinifera L) diversity panel newly designed for association studies. BMC Plant Biol, 16 (1) 1-19.
  • Revilla P., Rodriguez V. M., Ordas A., Rincent R., Charcosset A., Giauffret C., Melchinger A. E., Schon C. C., Bauer E., Altmann T., Brunel D., Moreno-Gonzalez J., Campo L., Ouzunova M., Alvarez A., Ruiz de Galarreta J. I., Laborde J., Malvar R. A. (2016) Association mapping for cold tolerance in two large maize inbred panels. BMC Plant Biol, 16 (1) 127
  • Roux F., Mary-Huard T., Barillot E., Wenes E., Botran L., Durand S., Villoutreix R., Martin-Magniette M. L., Camilleri C., Budar F. (2016) Cytonuclear interactions affect adaptive traits of the annual plant Arabidopsis thaliana in the field. Proc Natl Acad Sci U S A, 113 (13) 3687-92.
  • Sabarly V., Aubron C., Glodt J., Balliau T., Langella O., Chevret D., Rigal O., Bourgais A., Picard B., de Vienne D., Denamur E., Bouvet O., Dillmann C. (2016) Interactions between genotype and environment drive the metabolic phenotype within Escherichia coli isolates. Environ Microbiol, 18 (1) 100-17.
  • Walter S., Ali S., Kemen E., Nazari K., Bahri B. A., Enjalbert J., Hansen J. G., Brown J. K., Sicheritz-Ponten T., Jones J., de Vallavieille-Pope C., Hovmoller M. S., Justesen A. F. (2016) Molecular markers for tracking the origin and worldwide distribution of invasive strains of Puccinia striiformis. Ecol Evol, 6 (9) 2790-804.
   

2015

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Le  10/02/17


*Heyer E., Brandenburg J. T., Leonardi M., Toupance B., Balaresque P., Hegay T., Aldashev A., Austerlitz F. (2015) Patrilineal populations show more male transmission of reproductive success than cognatic populations in Central Asia, which reduces their genetic diversity. Am J Phys Anthropol, 157 (4) 537-43.

Angoulvant A., Stern J. B., Wittnebel S., Bourhis J. H., Gachot B., Vittecoq D., Wyplosz B. (2015) Photo quiz. Dyspnea and fever in an allogeneic stem cell recipient. Clin Infect Dis, 60 (1) 100, 157-8.

Badouin H., Hood M. E., Gouzy J., Aguileta G., Siguenza S., Perlin M. H., Cuomo C. A., Fairhead C., Branca A., Giraud T. (2015) Chaos of Rearrangements in the Mating-Type Chromosomes of the Anther-Smut Fungus Microbotryum lychnidis-dioicae. Genetics, 200 (4) 1275-84.

Bancel E., Bonnot T., Davanture M., Branlard G., Zivy M., Martre P. (2015) Proteomic Approach to Identify Nuclear Proteins in Wheat Grain. J Proteome Res, 14 (10) 4432-9.

Barbillon P., Thomas M., Goldringer I., Hospital F., Robin S. (2015) Network impact on persistence in a finite population dynamic diffusion model: application to an emergent seed exchange network. J Theor Biol, 365 365-76.

Blein-Nicolas M., Albertin W., da Silva T., Valot B., Balliau T., Masneuf-Pomarede I., Bely M., Marullo P., Sicard D., Dillmann C., de Vienne D., Zivy M. (2015) A Systems Approach to Elucidate Heterosis of Protein Abundances in Yeast. Mol Cell Proteomics, 14 (8) 2056-71.

Boisnard S., Zhou Li Y., Arnaise S., Sequeira G., Raffoux X., Enache-Angoulvant A., Bolotin-Fukuhara M., Fairhead C. (2015) Efficient Mating-Type Switching in Candida glabrata Induces Cell Death. PLoS One, 10 (10) e0140990.

da Silva T., Albertin W., Dillmann C., Bely M., la Guerche S., Giraud C., Huet S., Sicard D., Masneuf-Pomarede I., de Vienne D., Marullo P. (2015) Hybridization within Saccharomyces Genus Results in Homoeostasis and Phenotypic Novelty in Winemaking Conditions. PLoS One, 10 (5) e0123834.

de Brevern A. G., Meyniel J. P., Fairhead C., Neuveglise C., Malpertuy A. (2015) Trends in IT Innovation to Build a Next Generation Bioinformatics Solution to Manage and Analyse Biological Big Data Produced by NGS Technologies. Biomed Res Int, 2015 904541.

Durand E., Tenaillon M. I., Raffoux X., Thepot S., Falque M., Jamin P., Bourgais A., Ressayre A., Dillmann C. (2015) Dearth of polymorphism associated with a sustained response to selection for flowering time in maize. BMC Evol Biol, 15 103.

Gaba S., Lescourret F., Boudsocq S., Enjalbert J., Hinsinger P., Journet E. P., Navas M. L., Wery J., Louarn G., Malezieux E., Pelzer E., Prudent M., Ozier-Lafontaine H. (2015) Multiple cropping systems as drivers for providing multiple ecosystem services: from concepts to design. Agron Sustain Dev, 35 (2) 607-623.

Grigolon S., Sollich P., Martin O. C. (2015) Modelling the emergence of polarity patterns for the intercellular transport of auxin in plants. J R Soc Interface, 12 (106)

Guitard J., Atanasova R., Brossas J. Y., Meyer I., Gits M., Marinach C., Vellaissamy S., Angoulvant A., Mazier D., Hennequin C. (2015) Candida inconspicua and Candida norvegensis: new insights into identification in relation to sexual reproduction and genome organization. J Clin Microbiol, 53 (5) 1655-61.

Hummel M., Dobrenel T., Cordewener J. J., Davanture M., Meyer C., Smeekens S. J., Bailey-Serres J., America T. A., Hanson J. (2015) Proteomic LC-MS analysis of Arabidopsis cytosolic ribosomes: Identification of ribosomal protein paralogs and re-annotation of the ribosomal protein genes. J Proteomics, 128 436-49.

Jabbour F., Nadot S., Espinosa F., Damerval C. (2015) Ranunculacean flower terata: Records, a classification, and some clues about floral developmental genetics and evolution. Flora, 217 64-74.

Jabbour F., Udron M., Le Guilloux M., Goncalves B., Manicacci D., Nadot S., Damerval C. (2015) Flower development schedule and AGAMOUS-like gene expression patterns in two morphs of Nigella damascena (Ranunculaceae) differing in floral architecture. Bot J Linn Soc, 178 (4) 608-619.

Jaureguiberry S., Thellier M., Ndour P. A., Ader F., Roussel C., Sonneville R., Mayaux J., Matheron S., Angoulvant A., Wyplosz B., Rapp C., Pistone T., Lebrun-Vignes B., Kendjo E., Danis M., Houze S., Bricaire F., Mazier D., Buffet P., Caumes E. (2015) Delayed-onset hemolytic anemia in patients with travel-associated severe malaria treated with artesunate, France, 2011-2013. Emerg Infect Dis, 21 (5) 804-12.

Lanternier F., Barbati E., Meinzer U., Liu L., Pedergnana V., Migaud M., Heritier S., Chomton M., Fremond M. L., Gonzales E., Galeotti C., Romana S., Jacquemin E., Angoulvant A., Bidault V., Canioni D., Lachenaud J., Mansouri D., Mahdaviani S. A., Adimi P., Mansouri N., Jamshidi M., Bougnoux M. E., Abel L., Lortholary O., Blanche S., Casanova J. L., Picard C., Puel A. (2015) Inherited CARD9 deficiency in 2 unrelated patients with invasive Exophiala infection. J Infect Dis, 211 (8) 1241-50.

Legrand J., Temime L., Lawrence C., Herrmann J. L., Boelle P. Y., Guillemot D., Group o. b. o. t. i. S. (2015) Occupational Determinants of Methicillin-Resistant Staphylococcus aureus Colonization Among Healthcare Workers: A Longitudinal Study in a Rehabilitation Center. Infect Cont Hosp Ep, 36 (07) 767-776.

Obadia T., Silhol R., Opatowski L., Temime L., Legrand J., Thiebaut A. C., Herrmann J. L., Fleury E., Guillemot D., Boelle P. Y. (2015) Detailed Contact Data and the Dissemination of Staphylococcus aureus in Hospitals. PLoS Comput Biol, 11 (3) e1004170.

Osborne A. J., Pearson J., Negro S. S., Chilvers B. L., Kennedy M. A., Gemmell N. J. (2015) Heterozygote advantage at MHC DRB may influence response to infectious disease epizootics. Mol Ecol, 24 (7) 1419-32.

Oury F. X., Lasme P., Michelet C., Rousset M., Abecassis J., Lullien-Pellerin V. (2015) Relationships between wheat grain physical characteristics studied through near-isogenic lines with distinct puroindoline-b allele. Theor Appl Genet, 128 (5) 913-29.

Poncet V., Scutt C., Tournebize R., Villegente M., Cueff G., Rajjou L., Balliau T., Zivy M., Fogliani B., Job C., de Kochko A., Sarramegna-Burtet V., Job D. (2015) The Amborella vacuolar processing enzyme family. Front Plant Sci, 6 618.

Ressayre A., Glemin S., Montalent P., Serre-Giardi L., Dillmann C., Joets J. (2015) Introns Structure Patterns of Variation in Nucleotide Composition in Arabidopsis thaliana and Rice Protein-Coding Genes. Genome Biol Evol, 7 (10) 2913-28.

Rivet-Danon D., Guitard J., Grenouillet F., Gay F., Ait-Ammar N., Angoulvant A., Marinach C., Hennequin C. (2015) Rapid diagnosis of cryptococcosis using an antigen detection immunochromatographic test. J Infect, 70 (5) 499-503.

Riviere P., Dawson J. C., Goldringer I., David O. (2015) Hierarchical Bayesian Modeling for Flexible Experiments in Decentralized Participatory Plant Breeding. Crop Sci, 55 (3) 1053-1067.

Riviere P., Goldringer I., Berthellot J. F., Galic N., Pin S., De Kochko P., Dawson J. C. (2015) Response to farmer mass selection in early generation progeny of bread wheat landrace crosses. Renew Agr Food Syst, 30 (2) 190-201.

Rousselle Y., Jones E., Charcosset A., Moreau P., Robbins K., Stich B., Knaak C., Flament P., Karaman Z., Martinant J. P., Fourneau M., Taillardat A., Romestant M., Tabel C., Bertran J., Ranc N., Lespinasse D., Blanchard P., Kahler A., Chen J. L., Kahler J., Dobrin S., Warner T., Ferris R., Smith S. (2015) Study on Essential Derivation in Maize: III. Selection and Evaluation of a Panel of Single Nucleotide Polymorphism Loci for Use in European and North American Germplasm. Crop Sci, 55 (3) 1170-1180.

Samal A., Martin O. C. (2015) Statistical Physics Methods Provide the Exact Solution to a Long-Standing Problem of Genetics. Phys Rev Lett, 114 (23)

Sauquet H., Carrive L., Poullain N., Sannier J., Damerval C., Nadot S. (2015) Zygomorphy evolved from disymmetry in Fumarioideae (Papaveraceae, Ranunculales): new evidence from an expanded molecular phylogenetic framework. Ann Bot, 115 (6) 895-914.

Sidhu G. K., Fang C., Olson M. A., Falque M., Martin O. C., Pawlowski W. P. (2015) Recombination patterns in maize reveal limits to crossover homeostasis. Proc Natl Acad Sci U S A, 112 (52) 15982-7.

Tayeh N., Aluome C., Falque M., Jacquin F., Klein A., Chauveau A., Berard A., Houtin H., Rond C., Kreplak J., Boucherot K., Martin C., Baranger A., Pilet-Nayel M. L., Warkentin T. D., Brunel D., Marget P., Le Paslier M. C., Aubert G., Burstin J. (2015) Development of two major resources for pea genomics: the GenoPea 13.2K SNP Array and a high-density, high-resolution consensus genetic map. Plant J, 84 (6) 1257-73.

Thepot S., Restoux G., Goldringer I., Hospital F., Gouache D., Mackay I., Enjalbert J. (2015) Efficiently tracking selection in a multiparental population: the case of earliness in wheat. Genetics, 199 (2) 609-23.

Thomas M., Thepot S., Galic N., Jouanne-Pin S., Remoue C., Goldringer I. (2015) Diversifying mechanisms in the on-farm evolution of crop mixtures. Mol Ecol, 24 (12) 2937-54.

Zaag R., Tamby J. P., Guichard C., Tariq Z., Rigaill G., Delannoy E., Renou J. P., Balzergue S., Mary-Huard T., Aubourg S., Martin-Magniette M. L., Brunaud V. (2015) GEM2Net: from gene expression modeling to -omics networks, a new CATdb module to investigate Arabidopsis thaliana genes involved in stress response. Nucleic Acids Res, 43 (Database issue) D1010-7.

Zivy M., Wienkoop S., Renaut J., Pinheiro C., Goulas E., Carpentier S. (2015) The quest for tolerant varieties: the importance of integrating "omics" techniques to phenotyping. Front Plant Sci, 6 448.


   

2014

Publications in refereed journals

  • Abdallah C., Valot B., Guillier C., Mounier A., Balliau T., Zivy M., van Tuinen D., Renaut J., Wipf D., Dumas-Gaudot E., Recorbet G. (2014) The membrane proteome of Medicago truncatula roots displays qualitative and quantitative changes in response to arbuscular mycorrhizal symbiosis. J Proteomics, 108 354-68.
  • Ali S., Gladieux P., Leconte M., Gautier A., Justesen A. F., Hovmoller M. S., Enjalbert J., de Vallavieille-Pope C. (2014) Origin, migration routes and worldwide population genetic structure of the wheat yellow rust pathogen Puccinia striiformis f.sp. tritici. PLoS Pathog, 10 (1) e1003903.
  • Ali S., Gladieux P., Rahman H., Saqib M. S., Fiaz M., Ahmad H., Leconte M., Gautier A., Justesen A. F., Hovmoller M. S., Enjalbert J., de Vallavieille-Pope C. (2014) Inferring the contribution of sexual reproduction, migration and off-season survival to the temporal maintenance of microbial populations: a case study on the wheat fungal pathogen Puccinia striiformis f.sp. tritici. Mol Ecol, 23 (3) 603-17.
  • Amiour N., Imbaud S., Clement G., Agier N., Zivy M., Valot B., Balliau T., Quillere I., Terce-Laforgue T., Dargel-Graffin C., Hirel B. (2014) An integrated "omics" approach to the characterization of maize (Zea mays L.) mutants deficient in the expression of two genes encoding cytosolic glutamine synthetase. BMC Genomics, 15 (1) 1005.
  • Anderson L. K., Lohmiller L. D., Tang X., Hammond D. B., Javernick L., Shearer L., Basu-Roy S., Martin O. C., Falque M. (2014) Combined fluorescent and electron microscopic imaging unveils the specific properties of two classes of meiotic crossovers. Proc Natl Acad Sci U S A, 111 (37) 13415-20.
  • Barbillon P., Thomas M., Goldringer I., Hospital F., Robin S. (2014) Network impact on persistence in a finite population dynamic diffusion model: Application to an emergent seed exchange network. J Theo Biol, 365 365–376.
  • Barve A., Hosseini S. R., Martin O. C., Wagner A. (2014) Historical contingency and the gradual evolution of metabolic properties in central carbon and genome-scale metabolisms. BMC Syst Biol, 8 (1) 48.
  • Boex-Fontvieille E., Davanture M., Jossier M., Zivy M., Hodges M., Tcherkez G. (2014) Photosynthetic activity influences cellulose biosynthesis and phosphorylation of proteins involved therein in Arabidopsis leaves. J Exp Bot,
  • Boex-Fontvieille E., Daventure M., Jossier M., Hodges M., Zivy M., Tcherkez G. (2014) Phosphorylation pattern of Rubisco activase in Arabidopsis leaves. Plant Biol (Stuttg), 16 (3) 550-7.
  • Bonnin, I., Bonneuil, C., Goffaux, R., Montalent, P., Goldringer, I. (2014) Explaining the decrease in the genetic diversity of wheat in France over the 20th century. Agr Ecosys Env, 195 183-192.
  • Chaze T., Guillot A., Valot B., Langella O., Chamot-Rooke J., Di Guilmi A. M., Trieu-Cuot P., Dramsi S., Mistou M. Y. (2014) O-glycosylation of the N-terminal region of the serine-rich adhesin Srr1 of Streptococcus agalactiae explored by mass spectrometry. Mol Cell Proteomics, 13 (9) 2168-82.
  • Davanture M., Dumur J., Bataille-Simoneau N., Campion C., Valot B., Zivy M., Simoneau P., Fillinger S. (2014) Phosphoproteome profiles of the phytopathogenic fungi Alternaria brassicicola and Botrytis cinerea during exponential growth in axenic cultures. Proteomics, 14 (13-14) 1639-45.
  • Desjardin C., Chat S., Gilles M., Legendre R., Riviere J., Mata X., Balliau T., Esquerre D., Cribiu E. P., Betch J. M., Schibler L. (2014) Involvement of mitochondrial dysfunction and ER-stress in the physiopathology of equine osteochondritis dissecans (OCD). Exp Mol Pathol, 96 (3) 328-338.
  • Desjardin C., Riviere J., Vaiman A., Morgenthaler C., Diribarne M., Zivy M., Robert C., Le Moyec L., Wimel L., Lepage O., Jacques C., Cribiu E., Schibler L. (2014) Omics technologies provide new insights into the molecular physiopathology of equine osteochondrosis. BMC Genomics, 15 947.
  • Diez C. M., Meca E., Tenaillon M. I., Gaut B. S. (2014) Three groups of transposable elements with contrasting copy number dynamics and host responses in the maize (Zea mays ssp. mays) genome. PLoS Genet, 10 (4) e1004298.
  • Esnault F., Solano J., Perretant M. R., Hervé M., Label A., Pellé R., Dantec J. P., Boutet G., Brabant P., Chauvin J. E. (2014) Genetic diversity analysis of a potato (Solanum tuberosum L.) collection including Chiloé Island landraces and a large panel of worldwild cultivars. Pl Genet Res Util, 12 (1) 74-82.
  • Giraud H., Lehermeier C., Bauer E., Falque M., Segura V., Bauland C., Camisan C., Campo L., Meyer N., Ranc N., Schipprack W., Flament P., Melchinger A. E., Menz M., Moreno-Gonzalez J., Ouzunova M., Charcosset A., Schon C. C., Moreau L. (2014) Linkage Disequilibrium with Linkage Analysis of Multi-Line Crosses Reveals Different Multi-Allelic QTL for Hybrid Performance in the Flint and Dent Heterotic Groups of Maize. Genetics, ahead of print, DOI 10.1534/genetics.114.169367
  • Glemin S., Clement Y., David J., Ressayre A. (2014) GC content evolution in coding regions of angiosperm genomes: a unifying hypothesis. Trends Genet, 30 (7) 263-270.
  • Jabbour F., Cossard G., Le Guilloux M., Sannier J., Nadot S., Damerval C. (2014) Specific duplication and dorsoventrally asymmetric expression patterns of cycloidea-like genes in zygomorphic species of ranunculaceae. PLoS One, 9 (4) e95727.
  • Jahns M. T., Vezon D., Chambon A., Pereira L., Falque M., Martin O. C., Chelysheva L., Grelon M. (2014) Crossover localisation is regulated by the neddylation posttranslational regulatory pathway. PLoS Biol, 12 (8) e1001930.
  • Juste C., Kreil D. P., Beauvallet C., Guillot A., Vaca S., Carapito C., Mondot S., Sykacek P., Sokol H., Blon F., Lepercq P., Levenez F., Valot B., Carre W., Loux V., Pons N., David O., Schaeffer B., Lepage P., Martin P., Monnet V., Seksik P., Beaugerie L., Ehrlich S. D., Gibrat J. F., Van Dorsselaer A., Dore J. (2014) Bacterial protein signals are associated with Crohn's disease. Gut, ahead of prin.
  • Lehermeier C., Kramer N., Bauer E., Bauland C., Camisan C., Campo L., Flament P., Melchinger A. E., Menz M., Meyer N., Moreau L., Moreno-Gonzalez J., Ouzunova M., Pausch H., Ranc N., Schipprack W., Schonleben M., Walter H., Charcosset A., Schon C. C. (2014) Usefulness of multiparental populations of maize (Zea mays L.) for genome-based prediction. Genetics, 198 (1) 3-16.
  • Leroux D., Rahmani A., Jasson S., Ventelon M., Louis F., Moreau L., Mangin B. (2014) Clusthaplo: a plug-in for MCQTL to enhance QTL detection using ancestral alleles in multi-cross design. Theor Appl Genet, 127 (4) 921-33.
  • Levy-Leduc C., Delattre M., Mary-Huard T., Robin S. (2014) Two-dimensional segmentation for analyzing Hi-C data. Bioinformatics, 30 (17) i386-i392.
  • Mirouze M., Vitte C. (2014) Transposable elements, a treasure trove to decipher epigenetic variation: insights from Arabidopsis and crop epigenomes. J Exp Bot, 65 (10) 2801-12.
  • Nougué O., Corbi J., Ball S. G., Manicacci D., Tenaillon M. I. (2014) Molecular evolution accompanying functional divergence of duplicated genes along the plant starch biosynthesis pathway. BMC Evol Biol, 14 103.
  • Renvoisé M., Bonhomme L., Davanture M., Valot B., Zivy M., Lemaire C. (2014) Quantitative variations of the mitochondrial proteome and phosphoproteome during fermentative and respiratory growth in Saccharomyces cerevisiae. J Proteomics, 106C 140-150.
  • Rincent R., Moreau L., Monod H., Kuhn E., Melchinger A. E., Malvar R. A., Moreno-Gonzalez J., Nicolas S., Madur D., Combes V., Dumas F., Altmann T., Brunel D., Ouzunova M., Flament P., Dubreuil P., Charcosset A., Mary-Huard T. (2014) Recovering power in association mapping panels with variable levels of linkage disequilibrium. Genetics, 197 (1) 375-87.
  • Rivière P., Goldringer I., Berthellot J.-F., Galic N., Pin S., De Kochkoa P., Dawson J. C. (2014) Response to farmer mass selection in early generation progeny of bread wheat landrace crosses. Renew Agr Food Syst, Ahead of print.
  • Spor A., Kvitek D. J., Nidelet T., Martin J., Legrand J., Dillmann C., Bourgais A., de Vienne D., Sherlock G., Sicard D. (2014) Phenotypic and genotypic convergences are influenced by historical contingency and environment in yeast. Evolution, 68 (3) 772-90.
  • Thépot S., Restoux G., Goldringer I., Hospital F., Gouache D., Mackay I. J., Enjalbert J. (2014) Efficiently Tracking Selection in a Multiparental Population: The Case of Earliness in Wheat. Genetics, ahead of print.
  • Vindras-Fouillet C., Ranke O., Anglade J.-P., Taupier-Letage B., Chable C., Goldringer I. (2014) Sensory Analyses and Nutritional Qualities of Hand-Made Breads with Organic Grown Wheat Bread Populations. Food and Nutrition Sciences, 5 1860-1874
  • Valente F., Gauthier F., Bardol N., Blanc G., Joets J., Charcosset A., Moreau L. (2014) OptiMAS: A Decision Support Tool to Conduct Marker-Assisted Selection Programs. Methods Mol Biol, 1145 97-116.
  • Vitte C., Fustier M. A., Alix K., Tenaillon M. I. (2014) The bright side of transposons in crop evolution. Brief Funct Genomics, 13 (4) 276-95.
  • Zaag R., Tamby J. P., Guichard C., Tariq Z., Rigaill G., Delannoy E., Renou J. P., Balzergue S., Mary-Huard T., Aubourg S., Martin-Magniette M. L., Brunaud V. (2014) GEM2Net: from gene expression modeling to -omics networks, a new CATdb module to investigate Arabidopsis thaliana genes involved in stress response. Nucleic Acids Res, ahead of print.
   

2013

Publications in refereed journals

  • Albertin W., da Silva T., Rigoulet M., Salin B., Masneuf-Pomarede I., de Vienne D., Sicard D., Bely M., Marullo P. (2013) The mitochondrial genome impacts respiration but not fermentation in interspecific Saccharomyces hybrids. PLoS One, 8 (9) e75121.
  • Albertin, W., Marullo, P., Bely, M., Aigle, M., Bourgais, A., Langella, O., Balliau, T., Chevret, D., Valot, B., da Silva, T., Dillmann, C., de Vienne, D. , Sicard, D. (2013) Linking post-translational modifications and variation of phenotypic traits. Mol Cell Proteomics, 12 720–735.
  • Ali S., Gladieux P., Rahman H., Saqib M. S., Fiaz M., Ahmad H., Leconte M., Gautier A., Justesen A. F., Hovmoller M. S., Enjalbert J., de Vallavieille-Pope C. (2013) Inferring the contribution of sexual reproduction, migration and off-season survival to the temporal maintenance of microbial populations: a case study on the wheat fungal pathogen Puccinia striiformis f.sp. tritici. Mol Ecol, Epub ahead of print.
  • Ali S., Gladieux P., Leconte M., Gautier A., Justesen A. F., Hovmøller M. S., Enjalbert J., de Vallavieille-Pope C. (2014) Origin, Migration Routes and Worldwide Population Genetic Structure of the Wheat Yellow Rust Pathogen Puccinia striiformis f.sp. tritici. PLoS Pathog, Epub ahead of print.
  • Bardol N., Ventelon M., Mangin B., Jasson S., Loywick V., Couton F., Derue C., Blanchard P., Charcosset A., Moreau L. (2013) Combined linkage and linkage disequilibrium QTL mapping in multiple families of maize (Zea mays L.) line crosses highlights complementarities between models based on parental haplotype and single locus polymorphism. Theor Appl Genet, 126 (11) 2717-36.
  • Basu-Roy S., Gauthier F., Giraut L., Mezard C., Falque M., Martin O. C. (2013) Hot Regions of Noninterfering Crossovers Coexist with a Nonuniformly Interfering Pathway in Arabidopsis thaliana. Genetics, 195 (3) 769-79.
  • Bauer E., Falque M., Walter H., Bauland C., Camisan C., Campo L., Meyer N., Ranc N., Rincent R., Schipprack W., Altmann T., Flament P., Melchinger A. E., Menz M., Moreno-Gonzalez J., Ouzunova M., Revilla P., Charcosset A., Martin O. C., Schon C. C. (2013) Intraspecific variation of recombination rate in maize. Genome Biol, 14 (9) R103.
  • Bérard C., Seifert M., Mary-Huard T., Martin-Magniette M. (2013) MultiChIPmixHMM: an R package for ChIP-chip data analysis modeling spatial dependencies and multiple replicates. BMC Bioinformatics, 14 (1) 271.
  • Blein-Nicolas M., Albertin W., Valot B., Marullo P., Sicard D., Giraud C., Huet S., Bourgais A., Dillmann C., de Vienne D., Zivy M. (2013) Yeast proteome variations reveal different adaptive responses to grape must fermentation. Mol Biol Evol, 30 (6) 1368-83.
  • Boex-Fontvieille E., Davanture M., Jossier M., Zivy M., Hodges M., Tcherkez G. (2013) Protein phosphorylation in the photosynthetic control of initiation of cytoplasmic translation in Arabidopsis leaves. PLoS One, 8 (7) e70692.
  • Boex-Fontvieille E., Daventure M., Jossier M., Hodges M., Zivy M., Tcherkez G. (2013) Phosphorylation pattern of Rubisco activase in Arabidopsis leaves. Plant Biol (Stuttg), Epub ahead of print.
  • Bouchet S., Larièpe A., Servin B., Bertin P., Madur D., Combes V., Dumas F., Moreau L., Laborde J., Charcosset A., Nicolas S. D. (2013) Adaptation of maize to temperate climates: mid-density genome-wide association genetics and diversity patterns reveal key genomic regions, with a major contribution of the Vgt2 (ZCN8) locus. PLoS One, 8 (8) e71377.
  • Chateil C., Goldringer I., Tarallo L., Kerbiriou C., Le Viol I., Ponge J.-F., Slamon S., Gachet S., Porcher E. (2013) Crop genetic diversity benefits farmland biodiversity in cultivated fields. Agr Ecosyst Environ, 171 25-32.
  • Citerne H. L., Le Guilloux M., Sannier J., Nadot S., Damerval C. (2013) Combining phylogenetic and syntenic analyses for understanding the evolution of TCP ECE genes in eudicots. PLoS One, 8 (9) e74803.
  • Damerval, C., Citerne, H., Le Guilloux, M., Domenichini, S., Dutheil, J., Ronse de Craene, L. , Nadot, S. (2013) Asymmetric morphogenetic cues along the transverse plane: Shift from disymmetry to zygomorphy in the flower of Fumarioideae. Am J Bot, 100 391–402.
  • Dawson, J. C., Serpolay, E., Giuliano, S., Schermann, N., Galic, N., Berthellot, J. .-F., Chesneau, V., Ferté, H., Mercier, F., Osman, A., Pino, S. , Goldringer, I. (2013) Phenotypic diversity and evolution of farmer varieties of bread wheat on organic farms in Europe.Genet. Resour. Crop Evol. 60: 145-163
  • Diez C. M., Gaut B. S., Meca E., Scheinvar E., Montes-Hernandez S., Eguiarte L. E., Tenaillon M. I. (2013) Genome size variation in wild and cultivated maize along altitudinal gradients. New Phytol, 199 (1) 264-76.
  • Douché T., Clemente H. S., Burlat V., Roujol D., Valot B., Zivy M., Pont-Lezica R., Jamet E. (2013) Brachypodium distachyon as a model plant towards improved biofuel crops: Search for secreted proteins involved in biogenesis and disassembly of cell wall polymers. Proteomics, 13 (16) 2438-54.
  • Drouaud J., Khademian H., Giraut L., Zanni V., Bellalou S., Henderson I. R., Falque M., Mezard C. (2013) Contrasted Patterns of Crossover and Non-crossover at Arabidopsis thaliana Meiotic Recombination Hotspots. PLoS Genet, 9 (11) e1003922.
  • Gonçalves B., Nougué O., Jabbour F., Ridel C., Morin H., Laufs P., Manicacci D., Damerval C. (2013) An Apetala3 homolog controls both petal identity and floral meristem patterning in Nigella damascena L. (Ranunculaceae). Plant J, 76 (2) 223-35.
  • Guerinier T., Millan L., Crozet P., Oury C., Rey F., Valot B., Mathieu C., Vidal J., Hodges M., Thomas M., Glab N. (2013) Phosphorylation of p27 homologs KRP6 and 7 by SNF1-Related protein Kinase-1 links plant energy homeostasis and cell proliferation. Plant J, 75 (3) 515-25.
  • Henry A., Moneger F., Samal A., Martin O. C. (2013) Network function shapes network structure: the case of the Arabidopsis flower organ specification genetic network. Mol Biosyst, 9 (7) 1726-35.
  • * Houel C., Martin-Magniette M.-L., Nicolas S. D., Lacombe T., Le Cunff L., Franck D., Torregrosa L., Conéjéro G., Lalet S., This P., Adam-Blondon A.-F. (2013) Genetic diversity of berry size in grapevine (Vitis vinifera L.). Aus J Grape and Wine R, 19 (2) 208-220.
  • Jolivet P., Acevedo F., Boulard C., d'Andrea S., Faure J. D., Kohli A., Nesi N., Valot B., Chardot T. (2013) Crop seed oil bodies: From challenges in protein identification to an emerging picture of the oil body proteome. Proteomics, 13 (12-13) 1836-49.
  • Khan A. R., Enjalbert J., Marsolier A.-C., Rousselet A., Goldringer I., Vitte C. (2013) Vernalization treatment induces site-specific DNA hypermethylation at the VERNALIZATION-A1 (VRN-A1) locus in hexaploid winter wheat. BMC Plant Biol, 13 209.
  • Langella O., Valot B., Jacob D., Balliau T., Flores R., Hoogland C., Joets J., Zivy M. (2013) Management and dissemination of MS proteomic data with PROTICdb: Example of a quantitative comparison between methods of protein extraction. Proteomics, 13 (9) 1457-66.
  • Mir C., Zerjal T., Combes V., Dumas F., Madur D., Bedoya C., Dreisigacker S., Franco J., Grudloyma P., Hao P. X., Hearne S., Jampatong C., Laloe D., Muthamia Z., Nguyen T., Prasanna B. M., Taba S., Xie C. X., Yunus M., Zhang S., Warburton M. L., Charcosset A. (2013) Out of America: tracing the genetic footprints of the global diffusion of maize. Theor Appl Genet, 126 (11) 2671-82.
  • Manaa A., Faurobert M., Valot B., Bouchet J.-P., Grasselly D., Causse M., Ahmed H. B. (2013) Effect of salinity and calcium on tomato fruit proteome. OMICS, 17 (6) 338-352.
  • Mir C., Zerjal T., Combes V., Dumas F., Madur D., Bedoya C., Dreisigacker S., Franco J., Grudloyma P., Hao P. X., Hearne S., Jampatong C., Laloe D., Muthamia Z., Nguyen T., Prasanna B. M., Taba S., Xie C. X., Yunus M., Zhang S., Warburton M. L., Charcosset A. (2013) Out of America: tracing the genetic footprints of the global diffusion of maize. Theor Appl Genet, 126 (11) 2671-82.
  • Muñoz Diez C., Gaut B. S., Meca E., Scheinvar E., Montes-Hernandez S., Eguiarte L. E., Tenaillon M. I. (2013) Genome size variation in wild and cultivated maize along altitudinal gradients. New Phytol, 199 264-276.
  • Pautasso, M., Aistara, G., Barnaud, A., Caillon, S., Clouvel, P., Coomes, O. T., Delêtre, M., Demeulenaere, E., De Santis, P., Döring, T., Eloy, L., Emperaire, L., Garine, E., Goldringer, I., Jarvis, D., Joly, H. I., Leclerc, C., Louafi, S., Martin, P., Massol, F., McGuire, S., McKey, D., Padoch, C., Soler, C., Thomas, M. , Tramontini, S. (2013) Seed exchange networks for agrobiodiversity conservation: A review. Agron. Sustain. Devel. 33:151-175
  • Radanielina, T., Ramanantsoanirina, A., Raboin, L.-M., Frouin, J., Perrier, X., Brabant, P. , Ahmadi, N. (2013) The original features of rice (Oryza sativa L.) genetic diversity and the importance of within-variety diversity in the highlands of Madagascar build a strong case for in situ conservation. Genet Resour Crop Ev, 60 311–323.
  • Rivière P., Goldringer I., Berthellot J. F., Galic N., Pin S., de Kochko P., Dawson J. C. (2013) Response to farmer mass selection in early generation progeny of bread wheat landrace crosses. Renewable Agric Food Syst, FirstView 1-12.
  • Samal A., Martin O. C. (2013) Shining fresh light on the evolution of photosynthesis. eLife, 2 e01403.
  • Sarilar, V., Palacios, P. M., Rousselet, A., Ridel, C., Falque, M., Eber, F., Chèvre, A.-M., Joets, J., Brabant, P. , Alix, K. (2013) Allopolyploidy has a moderate impact on restructuring at three contrasting transposable element insertion sites in resynthesized Brassica napus allotetraploids. New Phytol, 198 593–604.
  • Spor A., Kvitek D. J., Nidelet T., Martin J., Legrand J., Dillmann C., Bourgais A., de Vienne D., Sherlock G., Sicard D. (2013) Phenotypic and Genotypic Convergences Are Influenced by Historical Contingency and Environment in Yeast. Evolution, Epub ahead of print.
  • Suay L., Zhang D., Eber F., Jouy H., Lode M., Huteau V., Coriton O., Szadkowski E., Leflon M., Martin O. C., Falque M., Jenczewski E., Paillard S., Chevre A. M. (2013) Crossover rate between homologous chromosomes and interference are regulated by the addition of specific unpaired chromosomes in Brassica. New Phytol, Epub ahead of print.
  • Valente F., Gauthier F., Bardol N., Blanc G., Joets J., Charcosset A., Moreau L. (2013) OptiMAS: A Decision Support Tool for Marker-Assisted Assembly of Diverse Alleles. J Hered, Epub ahead of print.
  • Vitte C., Estep M., Leebens-Mack J., Bennetzen J. (2013) Young, intact and nested retrotransposons are abundant in the onion and asparagus genomes. Ann Bot, 112 (5) 881-9.
  • Xu J. X., Pascual L., Aurand R., Bouchet J. P., Valot B., Zivy M., Causse M., Faurobert M. (2013) An extensive proteome map of tomato (Solanum lycopersicum) fruit pericarp. Proteomics, 13 (20) 3059-3063.
  • Zagorski, M., Krzywicki, A. , Martin, O. C. (2013) Edge usage, motifs, and regulatory logic for cell cycling genetic networks. Phys Rev E Stat Nonlin Soft Matter Phys, 87 012727.
   

2012

Publications in refereed journals

  • Acevedo, F., Rubilar, M., Shene, C., Navarrete, P., Romero, F., Rabert, C., Jolivet, P., Valot, B. , Chardot, T. (2012) Seed oil bodies from Gevuina avellana and Madia sativa. J Agric Food Chem, 60 6994–7004.
  • Ainouche, A., Bétermier, M., Chandler, M., Cordaux, R., Cristofari, G., Deragon, J.-M., Lesage, P., Panaud, O., Quesneville, H., Vaury, C., Vieira, C. , Vitte, C. (2012) International Congress on Transposable Elements (ICTE) 2012 in Saint Malo and the sea of TE stories. Mob DNA, 3 17.
  • Allard, V., Veisz, O., Kõszegi, B., Rousset, M., Le Gouis, J. , Martre, P. (2012) The quantitative response of wheat vernalization to environmental variables indicates that vernalization is not a response to cold temperature. J Exp Bot, 63 847–857.
  • Amiour, N., Imbaud, S., Clément, G., Agier, N., Zivy, M., Valot, B., Balliau, T., Armengaud, P., Quilleré, I., Cañas, R., Tercet-Laforgue, T., Hirel, B. (2012) The use of metabolomics integrated with transcriptomic and proteomic studies for identifying key steps involved in the control of nitrogen metabolism in crops such as maize. J. Exp. Bot., 63 5017–5033.
  • Arc, E., Chibani, K., Grappin, P., Jullien, M., Godin, B., Cueff, G., Valot, B., Balliau, T., Job, D. , Rajjou, L. (2012) Cold Stratification and Exogenous Nitrates Entail Similar Functional Proteome Adjustments during Arabidopsis Seed Dormancy Release. J Proteome Res, 11 5418–5432.
  • Ashfield T., Egan A. N., Pfeil B. E., Chen N. W., Podicheti R., Ratnaparkhe M. B., Ameline-Torregrosa C., Denny R., Cannon S., Doyle J. J., Geffroy V., Roe B. A., Saghai Maroof M. A., Young N. D., Innes R. W. (2012) Evolution of a complex disease resistance gene cluster in diploid Phaseolus and tetraploid Glycine. Plant Physiol, 159 (1) 336-54.
  • Blein-Nicolas, M., Xu, H., de Vienne, D., Giraud, C., Huet, S. , Zivy, M. (2012) Including shared peptides for estimating protein abundances: A significant improvement for quantitative proteomics. Proteomics, 12 2797–2801.
  • Bonhomme, L., Valot, B., Tardieu, F. , Zivy, M. (2012) Phosphoproteome dynamics upon changes in plant water status reveal early events associated with rapid growth adjustment in maize leaves. Mol Cell Proteomics, 11 957–972.
  • Bonneuil, C., Goffaux, R., Bonnin, I., Montalent, P., Hamon, C., Balfourier, F. , Goldringer, I. (2012) A new integrative indicator to assess crop genetic diversity. Ecol. Indic. 23 280–289.
  • Cañas, R. A., Quilleré, I., Gallais, A. , Hirel, B. (2012) Can genetic variability for nitrogen metabolism in the developing ear of maize be exploited to improve yield? New Phytol, 194 440–452.
  • Chia, J.-M., Song, C., Bradbury, P. J., Costich, D., de Leon, N., Doebley, J., Elshire, R. J., Gaut, B., Geller, L., Glaubitz, J. C., Gore, M., Guill, K. E., Holland, J., Hufford, M. B., Lai, J., Li, M., Liu, X., Lu, Y., McCombie, R., Nelson, R., Poland, J., Prasanna, B. M., Pyhäjärvi, T., Rong, T., Sekhon, R. S., Sun, Q., Tenaillon, M. I., Tian, F., Wang, J., Xu, X., Zhang, Z., Kaeppler, S. M., Ross-Ibarra, J., McMullen, M. D., Buckler, E. S., Zhang, G., Xu, Y. , Ware, D. (2012) Maize HapMap2 identifies extant variation from a genome in flux.Nat Genet, 44 803–807.
  • Corbi, J., Dutheil, J. Y., Damerval, C., Tenaillon, M. I., Manicacci, D. (2012) Accelerated evolution and coevolution drove the evolutionary history of AGPase sub-units during angiosperm radiation. Ann Bot, 109 693–708.
  • Cornille, A., Gladieux, P., Smulders, M. J. M., Roldán-Ruiz, I., Laurens, F., Le Cam, B., Nersesyan, A., Clavel, J., Olonova, M., Feugey, L., Gabrielyan, I., Zhang, X.-G., Tenaillon, M. I. , Giraud, T. (2012) New insight into the history of domesticated apple: Secondary contribution of the European wild apple to the genome of cultivated varieties. PLoS Genet, 8 e1002703.
  • Dawson, J. C., Serpolay, E., Giuliano, S., Schermann, N., Galic, N., Chable, V. , Goldringer, I. (2012) Multi-trait evolution of farmer varieties of bread wheat after cultivation in contrasting organic farming systems in Europe. Genetica, 140 1–17.
  • Desjardin, C., Balliau, T., Valot, B., Zivy, M., Wimel, L., Guérin, G., Cribiu, E. , Schibler, L. (2012) A method for proteomic analysis of equine subchondral bone and epiphyseal cartilage. Proteomics, 12 1870–1874.
  • Durand, E., Bouchet, S., Bertin, P., Ressayre, A., Jamin, P., Charcosset, A., Dillmann, C., Tenaillon, M. I. (2012) Flowering time in maize: Linkage and epistasis at a major effect locus. Genetics, 190 1547–1562.
  • Hufford, M. B., Martínez-Meyer, E., Gaut, B. S., Eguiarte, L. E. , Tenaillon, M. I. (2012) Inferences from the historical distribution of wild and domesticated maize provide ecological and evolutionary insight. PLoS ONE, 7 e47659.
  • Islam, N. M., Jacquemot, M.-P., Coursol, S., Ng, C. K.-Y. (2012) Sphingosine in plants--more riddles from the Sphinx? New Phytol, 193 51–57.
  • Jean, N., Dumont, E., Durrieu, G., Balliau, T., Jamet, J.-L., Personnic, S. , Garnier, C. (2012) Protein expression from zooplankton communities in a metal contaminated NW mediterranean coastal ecosystem. Mar Environ Res, 80 12–26.
  • Larièpe, A., Mangin, B., Jasson, S., Combes, V., Dumas, F., Jamin, P., Lariagon, C., Jolivot, D., Madur, D., Fiévet, J., Gallais, A., Dubreuil, P., Charcosset, A., Moreau, L. (2012) The genetic basis of heterosis: Multiparental quantitative trait loci mapping reveals contrasted levels of apparent overdominance among traits of agronomical interest in maize (Zea mays L.). Genetics, 190 795–811.
  • Le Gouis, J., Bordes, J., Ravel, C., Heumez, E., Faure, S., Praud, S., Galic, N., Remoué, C., Balfourier, F., Allard, V. , Rousset, M. (2012) Genome-wide association analysis to identify chromosomal regions determining components of earliness in wheat. Theor Appl Genet, 124 597–611.
  • * Mangin B., Siberchicot A., Nicolas S., Doligez A., This P., Cierco-Ayrolles C. (2012) Novel measures of linkage disequilibrium that correct the bias due to population structure and relatedness. Heredity (Edinb), 108 (3) 285-91.
  • *Mboup, M., Bahri, B., Leconte, M., De Vallavieille-Pope, C., Kaltz, O. , Enjalbert, J. (2012) Genetic structure and local adaptation of European wheat yellow rust populations: The role of temperature-specific adaptation. Evol Appl, 5 341–352.
  • Nicolas S. D., Monod H., Eber F., Chevre A. M., Jenczewski E. (2012) Non-random distribution of extensive chromosome rearrangements in Brassica napus depends on genome organization. Plant J, 70 (4) 691-703.
  • Ng, C. K.-Y., Coursol, S. (2012) New insights into phospholipase d and sphingosine kinase activation in Arabidopsis. Front Physiol, 3 67.
  • Rincent, R., Laloë, D., Nicolas, S., Altmann, T., Brunel, D., Revilla, P., Rodríguez, V. M., Moreno-Gonzalez, J., Melchinger, A., Bauer, E., Schoen, C.-C., Meyer, N., Giauffret, C., Bauland, C., Jamin, P., Laborde, J., Monod, H., Flament, P., Charcosset, A. , Moreau, L. (2012) Maximizing the reliability of genomic selection by optimizing the calibration set of reference individuals: Comparison of methods in two diverse groups of maize inbreds (Zea mays L.). Genetics, 192 715–728.
  • Sosnowski, O., Charcosset, A. , Joets, J. (2012) BioMercator V3: An upgrade of genetic map compilation and quantitative trait loci meta-analysis algorithms. Bioinformatics, 28 2082–2083.
  • Thomas, M., Demeulenaere, E., Dawson, J. C., Khan, A. R., Galic, N., Jouanne-Pin, S., Remoue, C., Bonneuil, C. , Goldringer, I. (2012) On-farm dynamic management of genetic diversity: The impact of seed diffusions and seed saving practices on a population-variety of bread wheat. Evol. Appl. 5(8): 779-795
  • Till-Bottraud, I., Gouyon, P.-H., Ressayre, A. , Godelle, B. (2012) Gametophytic vs. sporophytic control of pollen aperture number: A generational conflict. Theor Popul Biol, 82 147–157.
  • Truntzler, M., Ranc, N., Sawkins, M. C., Nicolas, S., Manicacci, D., Lespinasse, D., Ribière, V., Galaup, P., Servant, F., Muller, C., Madur, D., Betran, J., Charcosset, A. , Moreau, L. (2012) Diversity and linkage disequilibrium features in a composite public/private dent maize panel: Consequences for association genetics as evaluated from a case study using flowering time. Theor Appl Genet, 125 731–747.
  • *de Vallavieille-Pope, C., Ali, S., Leconte, M., Enjalbert, J., Delos, M. , Rouzet, J. (2012) Virulence Dynamics and Regional Structuring of Puccinia striiformis f. sp tritici in France Between 1984 and 2009. Plant Dis, 96 131–140.
  • Vincent, D., Kohler, A., Claverol, S., Solier, E., Joets, J., Gibon, J., Lebrun, M.-H., Plomion, C., Martin, F. (2012) Secretome of the free-living mycelium from the ectomycorrhizal basidiomycete Laccaria bicolor. J Proteome Res, 11 157–171.
  • Zerjal, T., Rousselet, A., Mhiri, C., Combes, V., Madur, D., Grandbastien, M.-A., Charcosset, A., Tenaillon, M. I. (2012) Maize genetic diversity and association mapping using transposable element insertion polymorphisms. Theor Appl Genet, 124(8):1521-37
   

2011

  • Agrawal, G. K., Job, D., Zivy, M., Agrawal, V. P., Bradshaw, R. A., Dunn, M. J., Haynes, P. A., van Wijk, K. J., Kikuchi, S., Renaut, J., Weckwerth, W., Rakwal, R. (2011) Time to articulate a vision for the future of plant proteomics - A global perspective: An initiative for establishing the International Plant Proteomics Organization (INPPO). Proteomics, 11 1559–1568.
  • Albertin, W., Marullo, P., Aigle, M., Dillmann, C., de Vienne, D., Bely, M., Sicard, D. (2011) Population size drives industrial Saccharomyces cerevisiae alcoholic fermentation and is under genetic control. Appl Environ Microbiol, 77 2772–2784.
  • Albert B., Raquin C., Prigent M., Nadot S., Brisset F., Yang M., Ressayre A. (2011) Successive microsporogenesis affects pollen aperture pattern in the tam mutant of Arabidopsis thaliana. Ann Bot, 107 (8) 1421-6.
  • Albert B., Ressayre A., Nadot S. (2011) Correlation between pollen aperture pattern and callose deposition in late tetrad stage in three species producing atypical pollen grains. Am J Bot, 98 (2) 189-96.
  • * Ali S., Gautier A., Leconte M., Enjalbert J., de Vallavieille-Pope C. (2011) A rapid genotyping method for an obligate fungal pathogen, Puccinia striiformis f.sp. tritici, based on DNA extraction from infected leaf and Multiplex PCR genotyping. BMC Res Notes, 4 240.
  • * Bahri B., Shah S., Hussain S., Leconte M., Enjalbert J., de Vallavieille C. (2011) Genetic diversity of wheat yellow rust in Pakistan and its relation with host resistance. Plant Pathol, 60 (4) 649-660.
  • Becker A., Alix K., Damerval C. (2011) The evolution of flower development: current understanding and future challenges. Ann Bot, 107 (9) 1427-31.
  • Bienvenut, W. V., Espagne, C., Martinez, A., Majeran, W., Valot, B., Zivy, M., Vallon, O., Adam, Z., Meinnel, T., Giglione, C. (2011) Dynamics of post-translational modifications and protein stability in the stroma of Chlamydomonas reinhardtii chloroplasts. Proteomics, 11 1734–1750.
  • Burda Z., Krzywicki A., Martin O. C., Zagorski M. (2011) Motifs emerge from function in model gene regulatory networks. Proc Natl Acad Sci U S A, 108 (42) 17263-8.
  • Corbi, J., Debieu, M., Rousselet, A., Montallent, P., Le Guilloux, M., Manicacci, D. Tenaillon, M.I.. (2011) Contrasted patterns of selection since maize domestication on duplicated genes encoding a starch pathway enzyme. Theor. Appl. Genet. 122 705–722.
  • Dawson, J. C., Rivière, P., Berthellot, J.-F., Mercier, F., Kochko, P. D., Galic, N., Pin, S., Serpolay, E., Thomas, M., Giuliano, S., Goldringer, I. (2011) Collaborative Plant Breeding for Organic Agricultural Systems in Developed Countries. Sustainability, 3 1206–1223.
  • * Dereeper A., Nicolas S., Le Cunff L., Bacilieri R., Doligez A., Peros J. P., Ruiz M., This P. (2011) SNiPlay: a web-based tool for detection, management and analysis of SNPs. Application to grapevine diversity projects. BMC Bioinformatics, 12 134.
  • Dumont, E., Bahrman, N., Goulas, E., Valot, B., Sellier, H., Hilbert, J.-L., Vuylsteker, C., Lejeune-Henaut, I., Delbreil, B. (2011) A proteomic approach to decipher chilling response from cold acclimation in pea (Pisum sativum L.). Plant Science, 180 86–98.
  • Enjalbert, J., Dawson, J. C., Paillard, S., Rhoné, B., Rousselle, Y., Thomas, M.,Goldringer, I. (2011) Dynamic management of crop diversity: From an experimental approach to on-farm conservation. C R Biol, 334 458–468.
  • Espinosa-Soto, C., Martin, O.C., Wagner, A. (2011) Phenotypic plasticity can facilitate adaptive evolution in gene regulatory circuits. BMC Evol Biol 11, 5.
  • Espinosa-Soto C., Martin O. C., Wagner A. (2011) Phenotypic robustness can increase phenotypic variability after nongenetic perturbations in gene regulatory circuits. J Evol Biol, 24 (6) 1284-97.
  • Ganal M. W., Durstewitz G., Polley A., Berard A., Buckler E. S., Charcosset A., Clarke J. D., Graner E. M., Hansen M., Joets J., Le Paslier M. C., McMullen M. D., Montalent P., Rose M., Schon C. C., Sun Q., Walter H., Martin O. C., Falque M. (2011) A large maize (Zea mays L.) SNP genotyping array: development and germplasm genotyping, and genetic mapping to compare with the B73 reference genome. PLoS One, 6 (12) e28334.
  • Gauthier, F., Martin, O.C., Falque, M. (2011) CODA (crossover distribution analyzer): quantitative characterization of crossover position patterns along chromosomes. BMC Bioinformatics 12, 27.
  • Gervais C. E., Castric V., Ressayre A., Billiard S. (2011) Origin and diversification dynamics of self-incompatibility haplotypes. Genetics, 188 (3) 625-36.
  • Giraut L., Falque M., Drouaud J., Pereira L., Martin O. C., Mezard C. (2011) Genome-wide crossover distribution in Arabidopsis thaliana meiosis reveals sex-specific patterns along chromosomes. PLoS Genet, 7 (11) e1002354.
  • Hasson A., Plessis A., Blein T., Adroher B., Grigg S., Tsiantis M., Boudaoud A., Damerval C., Laufs P. (2011) Evolution and diverse roles of the CUP-SHAPED COTYLEDON genes in Arabidopsis leaf development. Plant Cell, 23 (1) 54-68.
  • Jolivet, P., Boulard, C., Bellamy, A., Valot, B., d'Andréa, S., Zivy, M., Nesi, N.,Chardot, T. (2011) Oil body proteins sequentially accumulate throughout seed development in Brassica napus. J Plant Physiol, 168 2015–2020.
  • Kalunke R. M., Janni M., Sella L., David P., Geffroy V., Favaron F., D'Ovidio R. (2011) Transcript analysis of the bean polygalacturonase inhibiting protein gene family reveals that Pvpgip2 is expressed in the whole plant and is strongly induced by pathogen infection. J Plant Pathol, 93 (1) 141-148.
  • Ligat, L., Lauber, E., Albenne, C., Clemente, H. S., Valot, B., Zivy, M., Pont-Lezica, R., Arlat, M., Jamet, E. (2011) Analysis of the xylem sap proteome of Brassica oleracea reveals a high content in secreted proteins. Proteomics, 11 1798–1813.
  • Manaa, A., Ben Ahmed, H., Valot, B., Bouchet, J.-P., Aschi-Smiti, S., Causse, M., Faurobert, M. (2011) Salt and genotype impact on plant physiology and root proteome variations in tomato. J Exp Bot, 62(8) 2797–2813.
  • Martin O. C., Hospital F. (2011) Distribution of parental genome blocks in recombinant inbred lines. Genetics, 189 (2) 645-54.
  • Mezmouk S., Dubreuil P., Bosio M., Decousset L., Charcosset A., Praud S., Mangin B. (2011) Effect of population structure corrections on the results of association mapping tests in complex maize diversity panels. Theor Appl Genet, 122 (6) 1149-60.
  • Muyle A., Serres-Giardi L., Ressayre A., Escobar J., Glemin S. (2011) GC-biased gene conversion and selection affect GC content in the Oryza genus (rice). Mol Biol Evol, 28 (9) 2695-706.
  • Rousselle, Y., Thomas, M., Galic, N., Bonnin, I., Goldringer, I. (2011) Inbreeding depression and low between-population heterosis in recently diverged experimental populations of a selfing species. Heredity, 106 289–299.
  • Rousset, M., Bonnin, I., Remoué, C., Falque, M., Rhoné, B., Veyrieras, J.-B., Madur, D., Murigneux, A., Balfourier, F., Le Gouis, J., Santoni, S., Goldringer, I. (2011) Deciphering the genetics of flowering time by an association study on candidate genes in bread wheat (Triticum aestivum L.). Theor Appl Genet, 123 907–926.
  • Sabarly, V., Bouvet, O., Glodt, J., Clermont, O., Skurnik, D., Diancourt, L., de Vienne, D., Denamur, E., Dillmann, C. (2011) The decoupling between genetic structure and metabolic phenotypes in Escherichia coli leads to continuous phenotypic diversity. J Evol Biol, 24 1559–1571.
  • Samal A., Martin O. C. (2011) Randomizing genome-scale metabolic networks. PLoS One, 6 (7) e22295.
  • Samal A., Wagner A., Martin O. C. (2011) Environmental versatility promotes modularity in genome-scale metabolic networks. BMC Syst Biol, 5 135.
  • Sarilar V., Marmagne A., Brabant P., Joets J., Alix K. (2011) ‘BraSto’, a Stowaway MITE from Brassica: recently active copies preferentially accumulate in gene space. Plant Mol Biol , 77(1-2):59-75
  • Serpolay, E., Dawson, J., Chable, V., Van Bueren, E., Osman, A., Pino, S., Silveri, D., Goldringer, I. (2011) Diversity of different farmer and modern wheat varieties cultivated in contrasting organic farming conditions in western Europe and implications for European seed and variety legislation. Organic Agriculture, 1 127–145.
  • Sicard D., Legras J. L. (2011) Bread, beer and wine: yeast domestication in the Saccharomyces sensu stricto complex. C R Biol, 334 (3) 229-36.
  • Serpolay, E., Schermann, N., Dawson, J., van Bueren, E. L. T., Goldringer, I.,Chable, V. (2011) Phenotypic Changes in Different Spinach Varieties Grown and Selected under Organic Conditions. Sustainability, 3 1616–1636.
  • Tenaillon M. I., Charcosset A. (2011) A European perspective on maize history. C R Biol, 334 (3) 221-8.
  • Tenaillon M. I., Hufford M. B., Gaut B. S., Ross-Ibarra J. (2011) Genome size and transposable element content as determined by high-throughput sequencing in maize and Zea luxurians. Genome Biol Evol, 3 219-29.
  • Thomas, M., Dawson, J. C., Goldringer, I. Bonneuil, C. (2011) Seed exchanges, a key to analyze crop diversity dynamics in farmer-led on-farm conservation. Genet. Resour. Crop Evol. 58 321–338.
  • Valot, B., Langella, O., Nano, E., Zivy, M. (2011) MassChroQ: A versatile tool for mass spectrometry quantification. Proteomics, 11 3572–3577.
  • Virlouvet, L., Jacquemot, M.-P., Gerentes, D., Corti, H., Bouton, S., Gilard, F., Valot, B., Trouverie, J., Tcherkez, G., Falque, M., Damerval, C., Rogowsky, P., Perez, P., Noctor, G., Zivy, M.,Coursol, S. (2011) The ZmASR1 protein influences branched-chain amino acid biosynthesis and maintains kernel yield in maize under water-limited conditions. Plant Physiol, 157 917–936.
  • Wang, S., Spor, A., Nidelet, T., Montalent, P., Dillmann, C., de Vienne, D., Sicard, D. (2011) Switch between life history strategies due to changes in glycolytic enzyme gene dosage in Saccharomyces cerevisiae. Appl Environ Microbiol 77, 452-459.
  • Warburton M., Wilkes G., Taba S., Charcosset A., Mir C., Dumas F., Madur D., Dreisigacker S., Bedoya C., Prasanna B., Xie C., Hearne S., Franco J. (2011) Gene flow among different teosinte taxa and into the domesticated maize gene pool. Genet Resour Crop Ev, 57 (8) 1243-1261.
  • Welcker C., Sadok W., Dignat G., Renault M., Salvi S., Charcosset A., Tardieu F. (2011) A common genetic determinism for sensitivities to soil water deficit and evaporative demand: meta-analysis of quantitative trait Loci and introgression lines of maize. Plant Physiol, 157 (2) 718-29.
  • Zhang, Y., Giboulot, A., Zivy, M., Valot, B., Jamet, E., Albenne, C. (2011) Combining various strategies to increase the coverage of the plant cell wall glycoproteome. Phytochemistry, 72(10) 1109–1123.
   

2010

  • Albert, B., Nadot, S., Dreyer, L., Ressayre, A. (2010) The influence of tetrad shape and intersporal callose wall formation on pollen aperture pattern ontogeny in two eudicot species. Ann Bot, 106 557–564.
  • Barriere, Y., Charcosset, A., Denoue, D., Madur, D., Bauland, C., Laborde, J. (2010) Genetic variation for lignin content and cell wall digestibility in early maize lines derived from ancient landraces. Maydica, 55 65–74.
  • Barriere, Y., Mechin, V., Denoue, D., Bauland, C., Laborde, J. (2010) QTL for Yield, Earliness, and Cell Wall Quality Traits in Topcross Experiments of the F838 x F286 Early Maize RIL Progeny. Crop Science, 50 1761–1772.
  • Bourguignon P. Y., Samal A., Kepes F., Jost J., Martin O. C.Algorithms Mol Biol, 5 20.
  • Burda, Z., Krzywicki, A., Martin, O. C.,Zagorski, M. (2010) Distribution of essential interactions in model gene regulatory networks under mutation-selection balance. Phys Rev E Stat Nonlin Soft Matter Phys, 82 011908.
  • Capelle, V., Remoue, C., Moreau, L., Reyss, A., Mahe, A., Massonneau, A., Falque, M., Charcosset, A., Thevenot, C., Rogowsky, P., Coursol, S., Prioul, J.-L. (2010) QTLs and candidate genes for desiccation and abscisic acid content in maize kernels. BMC Plant Biol, 10 2. doi: 10.1186/1471-2229-10-2.
  • Cassan, L., Moreau, L., Segouin, S., Bellamy, A., Falque, M.,Limami, A. M. (2010) Genetic map construction and quantitative trait loci (QTL) mapping for nitrogen use efficiency and its relationship with productivity and quality of the biennial crop Belgian endive (Cichorium intybus L.). J Plant Physiol, 167 1253–1263.
  • Citerne, H., Jabbour, F., Nadot, S.,Damerval, C. (2010) The Evolution of Floral Symmetry. Adv. Bot. Res. 54 85–137.
  • Chen, N. W. G., Sévignac, M., Thareau, V., Magdelenat, G., David, P., Ashfield, T., Innes, R. W.,Geffroy, V. (2010) Specific resistances against Pseudomonas syringae effectors AvrB and AvrRpm1 have evolved differently in common bean (Phaseolus vulgaris), soybean (Glycine max), and Arabidopsis thaliana. New Phytol, 187 941–956.
  • Crozet, P., Jammes, F., Valot, B., Ambard-Bretteville, F., Nessler, S., Hodges, M., Vidal, J., Thomas, M. (2010) Cross-phosphorylation between Arabidopsis thaliana sucrose nonfermenting 1-related protein kinase 1 (AtSnRK1) and its activating kinase (AtSnAK) determines their catalytic activities. J Biol Chem, 285 12071–12077.
  • Daher, Z., Recorbet, G., Valot, B., Robert, F., Balliau, T., Potin, S., Schoefs, B.,Dumas-Gaudot, E. (2010) Proteomic analysis of Medicago truncatula root plastids. Proteomics, 10 2123–2137.
  • David, P., Colas des Francs, C., Sévignac, M., Thareau, V., Macadré, C., Langin, T.,Geffroy, V. (2010) Three highly similar formate dehydrogenase genes located in the vicinity of the B4 resistance gene cluster are differentially expressed under biotic and abiotic stresses in Phaseolus vulgaris. Theor Appl Genet, 121 87–103.
  • * Duan X., Tellier A., Wan A., Leconte M., de Vallavieille-Pope C., Enjalbert J. (2010) Puccinia striiformis f.sp. tritici presents high diversity and recombination in the over-summering zone of Gansu, China. Mycologia, 102 (1) 44-53.
  • Durand, E., Tenaillon, M. I., Ridel, C., Coubriche, D., Jamin, P., Jouanne, S., Ressayre, A., Charcosset, A., Dillmann, C. (2010) Standing variation and new mutations both contribute to a fast response to selection for flowering time in maize inbreds. BMC Evol Biol, 10 2. doi:10.1186/1471-2148-10-2
  • Fiévet, J. B., Dillmann, C., de Vienne, D. (2010). Systemic properties of metabolic networks lead to an epistasis-based model for heterosis. Theor Appl Genet, 120(2), 463–473.
  • Feria Bourrellier A. B., Valot B., Guillot A., Ambard-Bretteville F., Vidal J., Hodges M. (2010) Chloroplast acetyl-CoA carboxylase activity is 2-oxoglutarate-regulated by interaction of PII with the biotin carboxyl carrier subunit. Proc Natl Acad Sci U S A, 107 (1) 502-7.
  • Fonsêca, A., Ferreira, J., dos Santos, T. R. B., Mosiolek, M., Bellucci, E., Kami, J., Gepts, P., Geffroy, V., Schweizer, D., dos Santos, K. G. B.,Pedrosa-Harand, A. (2010) Cytogenetic map of common bean (Phaseolus vulgaris L.). Chromosome Res, 18 487–502.
  • Hoogland, C., O'Gorman, M., Bogard, P., Gibson, F., Berth, M., Cockell, S., Ekefjärd, A., Forsstrom-Olsson, O., Kapferer, A., Nilsson, M., Martínez-Bartolomé, S., Albar, J., Echevarría-Zomeño, S., Joets, J., Binz, P.-A., Taylor, C. , Dowsey, A. (2010) Guidelines for reporting the use of gel image informatics in proteomics. Nature Biotech.28(7):655-6.
  • Huang, Y.-F., Madur, D., Combes, V., Ky, C. L., Coubriche, D., Jamin, P., Jouanne, S., Dumas, F., Bouty, E., Bertin, P., Charcosset, A.,Moreau, L. (2010) The genetic architecture of grain yield and related traits in Zea maize L. revealed by comparing intermated and conventional populations. Genetics, 186 395–404.
  • Junier, I., Martin, O., Képès, F. (2010) Spatial and Topological Organization of DNA Chains Induced by Gene Co-localization. PLoS Comput Biol, 6 e1000678.
  • Levert, M., Zamfir, O., Clermont, O., Bouvet, O., Lespinats, S., Hipeaux, M. C., Branger, C., Picard, B., Saint-Ruf, C., Norel, F., Balliau, T., Zivy, M., Le Nagard, H., Cruvellier, S., Chane-Woon-Ming, B., Nilsson, S., Gudelj, I., Phan, K., Ferenci, T., Tenaillon, O.,Denamur, E. (2010) Molecular and Evolutionary Bases of Within-Patient Genotypic and Phenotypic Diversity in Escherichia coli Extraintestinal Infections. PLoS Pathog, 6 e1001125.
  • Marmagne, A., Brabant, P., Thiellement, H. , Alix, K. (2010) Analysis of gene expression in resynthesized Brassica napus allotetraploids: Transcriptional changes do not explain differential protein regulation. New Phytol, 186 216–227.
  • Montalent, P., Joets, J. (2010) EuGène-maize: A web site for maize gene prediction. Bioinformatics, 26 1254–1255.
  • Page, D., Gouble, B., Valot, B., Bouchet, J. P., Callot, C., Kretzschmar, A., Causse, M., Renard, C. M. C. G.,Faurobert, M. (2010) Protective proteins are differentially expressed in tomato genotypes differing for their tolerance to low-temperature storage. Planta, 232 483–500.
  • Parisod, C., Alix, K., Just, J., Petit, M., Sarilar, V., Mhiri, C., Ainouche, M., Chalhoub, B., Grandbastien, M.-A. (2010) Impact of transposable elements on the organization and function of allopolyploid genomes. New Phytol, 186 37–45
  • Recorbet, G., Valot, B., Robert, F., Gianinazzi-Pearson, V.,Dumas-Gaudot, E. (2010) Identification of in planta-expressed arbuscular mycorrhizal fungal proteins upon comparison of the root proteomes of Medicago truncatula colonised with two Glomus species. Fungal Genet Biol, 47 608–618.
  • Rhoné, B., Vitalis, R., Goldringer, I., Bonnin, I. (2010) Evolution of flowering time in experimental wheat populations: a comprehensive approach to detect genetic signatures of natural selection. Evolution, 4-7: 2110--2125.
  • Samal, A., Rodrigues, J. M. F., Jost, J., Martin, O. C.,Wagner, A. (2010) Genotype networks in metabolic reaction spaces. BMC Syst Biol, 4 30.
  • Santure, A. W., Ewen, J. G., Sicard, D., Roff, D. A., Moller, A. P. (2010) Population structure in the barn swallow, Hirundo rustica: A comparison between neutral DNA markers and quantitative traits. Biol J Linn Soc Lond, 99 306–314.
  • Sirichandra, C., Davanture, M., Turk, B. E., Zivy, M., Valot, B., Leung, J.,Merlot, S. (2010) The Arabidopsis ABA-Activated Kinase OST1 Phosphorylates the bZIP Transcription Factor ABF3 and Creates a 14-3-3 Binding Site Involved in Its Turnover. PLoS ONE, 5. e13935
  • Spor, A., Dillmann, C., Wang, S., de Vienne, D., Sicard, D., Parent, E. (2010) Hierarchical Bayesian Modelling for Saccharomyces cerevisiae population dynamics. Int J Food Microbiol 142, 25-35.
  • Storlazzi, A., Gargano, S., Ruprich-Robert, G., Falque, M., David, M., Kleckner, N., Zickler, D. (2010) Recombination Proteins Mediate Meiotic Spatial Chromosome Organization and Pairing. Cell, 141 94–106.
  • Sulc, P., Wagner, A.,Martin, O. C. (2010) Quantifying slow evolutionary dynamics in RNA fitness landscapes. J Bioinform Comput Biol, 8 1027–1040.
  • Tenaillon, M. I., Hollister, J. D., Gaut, B. S. (2010) A triptych of the evolution of plant transposable elements. Trends Plant Sci, 15 471–478.
  • Truntzler, M., Barrière, Y., Sawkins, M. C., Lespinasse, D., Betran, J., Charcosset, A.,Moreau, L. (2010) Meta-analysis of QTL involved in silage quality of maize and comparison with the position of candidate genes. Theor Appl Genet, 121(8) 1465-1482
  • Vlad, F., Droillard, M.-J., Valot, B., Khafif, M., Rodrigues, A., Brault, M., Zivy, M., Rodriguez, P. L., Merlot, S. & Laurière, C. (2010) Phospho-site mapping, genetic and in planta activation studies reveal key aspects of the different phosphorylation mechanisms involved in activation of SnRK2s. Plant J, 65(5) 778-790
   

2009

  • Albert, B., Gouyon, P.-H., Ressayre, A. (2009) Microsporogenesis variation in Codiaeum producing inaperturate pollen grain. C R Biol, 332 507–516.
  • Albertin, W., Langella, O., Joets, J., Négroni, L., Zivy, M., Damerval, C., Thiellement, H. (2009) Comparative proteomics of leaf, stem, and root tissues of synthetic Brassica napus. Proteomics, 9 793–799.
  • Albertin, W., Marullo, P., Aigle, M., Bourgais, A., Bely, M., Dillmann, C., de Vienne, D., Sicard, D. (2009) Evidence for autotetraploidy associated with reproductive isolation in Saccharomyces cerevisiae: Towards a new domesticated species. J Evol Biol, 22 2157-2170.
  • Aloui, A., Recorbet, G., Gollotte, A., Robert, F., Valot, B., Gianinazzi-Pearson, V., Aschi-Smiti, S., Dumas-Gaudot, E. (2009) On the mechanisms of cadmium stress alleviation in Medicago truncatula by arbuscular mycorrhizal symbiosis: A root proteomic study. Proteomics, 9 420–433.
  • Barre, P., Moreau, L., Mi, F., Turner, L., Gastal, F., Julier, B.,Ghesquiere, M. (2009) Quantitative trait loci for leaf length in perennial ryegrass (Lolium perenne L.). Grass and Forage Science, 64 310–321.
  • Bérard A., Le Paslier M. C., Dardevet M., Exbrayat-Vinson F., Bonnin I., Cenci A., Haudry A., Brunel D., Ravel C. (2009) High-throughput single nucleotide polymorphism genotyping in wheat (Triticum spp.). Plant Biotechnol J, 7 (4) 364-74.
  • * David P., Chen N. W., Pedrosa-Harand A., Thareau V., Sevignac M., Cannon S. B., Debouck D., Langin T., Geffroy V. (2009) A nomadic subtelomeric disease resistance gene cluster in common bean. Plant Physiol, 151 (3) 1048-65.
  • Ducrocq, S., Giauffret, C., Madur, D., Combes, V., Dumas, F., Jouanne, S., Coubriche, D., Jamin, P., Moreau, L.,Charcosset, A. (2009) Fine mapping and haplotype structure analysis of a major flowering time quantitative trait locus on maize chromosome 10. Genetics, 183 1555–1563.
  • Edelist, C., Raffoux, X., Falque, M., Dillmann, C., Sicard, D., Rieseberg, L. H., Karrenberg, S. (2009) Differential expression of candidate salt-tolerance genes in the halophyte Helianthus paradoxus and its glycophyte progenitors H. annuus and H. petiolaris (Asteraceae). Am. J. Bot. 96 1830–1838.
  • Falque, M., Anderson, L. K., Stack, S. M., Gauthier, F.,Martin, O. C. (2009) Two Types of Meiotic Crossovers Coexist in Maize. Plant Cell, 21(12) 3915–3925.
  • Frottin F., Espagne C., Traverso J. A., Mauve C., Valot B., Lelarge-Trouverie C., Zivy M., Noctor G., Meinnel T., Giglione C. (2009) Cotranslational proteolysis dominates glutathione homeostasis to support proper growth and development. Plant Cell, 21 (10) 3296-314.
  • Gallais, A. (2009) Full-Sib Reciprocal Recurrent Selection with the Use of Doubled Haploids. Crop Science, 49 150–152.
  • Jabbour, F., Nadot, S., Damerval, C. (2009) Evolution of floral symmetry: A state of the art. C R Biol, 332 219–231.
  • Jabbour F., Ronse De Craene L. P., Nadot S., Damerval C. (2009) Establishment of zygomorphy on an ontogenic spiral and evolution of perianth in the tribe Delphinieae (Ranunculaceae). Ann Bot, 104 (5) 809-22.
  • Jannink, J.-L., Moreau, L., Charmet, G.,Charcosset, A. (2009) Overview of QTL detection in plants and tests for synergistic epistatic interactions. Genetica, 136 225–236.
  • Johannes, F., Porcher, E., Teixeira, F. K., Saliba-Colombani, V., Simon, M., Agier, N., Bulski, A., Albuisson, J., Heredia, F., Audigier, P., Bouchez, D., Dillmann, C., Guerche, P., Hospital, F., Colot, V. (2009) Assessing the impact of transgenerational epigenetic variation on complex traits. PLoS Genet, 5 e1000530.
  • Legrand, D., Tenaillon, M. I., Matyot, P., Gerlach, J., Lachaise, D.,Cariou, M.-L. (2009) Species-wide Genetic Variation and Demographic History of Drosophila sechellia, a Species Lacking Population Structure. Genetics, 182 1197–1206.
  • Manicacci, D., Camus-Kulandaivelu, L., Fourmann, M., Arar, C., Barrault, S., Rousselet, A., Feminias, N., Consoli, L., Francès, L., Méchin, V., Murigneux, A., Prioul, J.-L., Charcosset, A., Damerval, C. (2009) Epistatic Interactions between Opaque2 Transcriptional Activator and Its Target Gene CyPPDK1 Control Kernel Trait Variation in Maize. Plant Physiol, 150 506–520.
  • Martin, O. C.,Wagner, A. (2009) Effects of recombination on complex regulatory circuits. Genetics, 183 673–84, 1SI-8S.
  • Marullo, P., Mansour, C., Dufour, M., Albertin, W., Sicard, D., Bely, M., Dubourdieu, D. (2009) Genetic improvement of thermo-tolerance in wine Saccharomyces cerevisiae strains by a backcross approach. FEMS Yeast Res 9, 1148-1160.
  • * Nicolas S. D., Leflon M., Monod H., Eber F., Coriton O., Huteau V., Chevre A. M., Jenczewski E. (2009) Genetic regulation of meiotic cross-overs between related genomes in Brassica napus haploids and hybrids. Plant Cell, 21 (2) 373-85.
  • Ostergard, H., Finckh, M. R., Fontaine, L., Goldringer, I., Hoad, S. P., Kristensen, K., van Bueren, E. L. T., Mascher, F., Munk, L.,Wolfe, M. S. (2009) Time for a shift in crop production: Embracing complexity through diversity at all levels. J Sci Food Agr, 89 1439–1445.
  • Parisod C., Salmon A., Zerjal T., Tenaillon M., Grandbastien M. A., Ainouche M. (2009) Rapid structural and epigenetic reorganization near transposable elements in hybrid and allopolyploid genomes in Spartina. New Phytol, 184 (4) 1003-15.
  • Roulin A., Piegu B., Fortune P. M., Sabot F., D'Hont A., Manicacci D., Panaud O. (2009) Whole genome surveys of rice, maize and sorghum reveal multiple horizontal transfers of the LTR-retrotransposon Route66 in Poaceae. BMC Evol Biol, 9 58.
  • Ross-Ibarra, J., Tenaillon, M., Gaut, B. S. (2009) Historical divergence and gene flow in the genus Zea. Genetics, 181 1399–1413.
  • Saintenac, C., Falque, M., Martin, O. C., Paux, E., Feuillet, C., Sourdille, P. (2009) Detailed recombination studies along chromosome 3B provide new insights on crossover distribution in wheat (Triticum aestivum L.). Genetics, 181 393–403.
  • Sirichandra, C., Gu, D., Hu, H.-C., Davanture, M., Lee, S., Djaoui, M., Valot, B., Zivy, M., Leung, J., Merlot, S., Kwak, J. M. (2009) Phosphorylation of the Arabidopsis AtrbohF NADPH oxidase by OST1 protein kinase. FEBS Lett, 583 2982–2986.
  • Spor, A., Nidelet, T., Simon, J., Bourgais, A., de Vienne, D.,Sicard, D. (2009) Niche-driven evolution of metabolic and life-history strategies in natural and domesticated populations of Saccharomyces cerevisiae. BMC Evol Biol, 9 296.
  • Vincent, D., Balesdent, M.-H., Gibon, J., Claverol, S., Lapaillerie, D., Lomenech, A.-M., Blaise, F., Rouxel, T., Martin, F., Bonneu, M., Amselem, J., Dominguez, V., Howlett, B. J., Wincker, P., Joets, J., Lebrun, M.-H.,Plomion, C. (2009) Hunting down fungal secretomes using liquid-phase IEF prior to high resolution 2-DE. Electrophoresis, 30 4118–4136.
  • Zerjal, T., Joets, J., Alix, K., Grandbastien, M.-A.,Tenaillon, M. I. (2009) Contrasting evolutionary patterns and target specificities among three Tourist-like MITE families in the maize genome. Plant Mol Biol, 71 99–114.
   

2008

  • Alix, K., Joets, J., Ryder, C. D., Moore, J., Barker, G. C., Bailey, J. P., King, G. J.,Heslop-Harrison, J. P. S. (2008) The CACTA transposon Bot1 played a major role in Brassica genome divergence and gene proliferation. Plant J, 56 1030–1044.
  • Blanc,G. Charcosset,A. Veyrieras,J B. Gallais,A. Moreau,L. 2008. Marker-assisted selection efficiency in multiple connected populations: a simulation study based on the results of a QTL detection experiment in maize Euphytica 161 : 71-84.
  • Bonnin,I. Rousset,M. Madur,D. Sourdille,P. Dupuits,C. Brunel,D. Goldringer,I. 2008. FT genome A and D polymorphisms are associated with the variation of earliness components in hexaploid wheat. Theor Appl Genet 116 : 383-394.
  • Camus-Kulandaivelu,L. Chevin,L M. Tollon-Cordet,C. Charcosset,A. Manicacci,D. Tenaillon,M I. 2008. Patterns of molecular evolution associated with two selective sweeps in the Tb1-Dwarf8 region in maize. Genetics 180 : 1107-1121.
  • Coque M., Gallais A. (2008) Genetic variation for N-remobilization and postsilking N-up-take in a set of maize recombinant inbred lines. 2. Line per se performance and comparison with testcross performance. Maydica, 53 (1) 29-38.
  • Coque,M. Martin,A. Veyrieras,J B. Hirel,B. Gallais,A. 2008. Genetic variation for N-remobilization and postsilking N-uptake in a set of maize recombinant inbred lines. 3. QTL detection and coincidences. Theor Appl Genet 117(5) : 729-747.
  • Ducrocq,S. Madur,D. Veyrieras,J B. Camus-Kulandaivelu,L. Kloiber-Maitz,M. Presterl,T. Ouzunova,M. Manicacci,D. Charcosset,A. 2008. Key impact of Vgt1 on flowering time adaptation in maize: evidence from association mapping and ecogeographical information. Genetics 178 : 2433-2437.
  • *Ducruix, C., Vailhen, D., Werner, E., Fiévet, J. B., Bourguignon, J., Tabet, J.-C., Ezan, E.,Junot, C. (2008) Metabolomic investigation of the response of the model plant Arabidopsis thaliana to cadmium exposure: Evaluation of data pretreatment methods for further statistical analyses. Chemometr Intell Lab Syst, 91 67–77.
  • Gallais,A. Carle,J. Simplot-Ryl,D. Stojmenovic,I. 2008. Localized sensor area coverage with low communication overhead Ieee Transactions On Mobile Computing 7 : 661-672.
  • Gallais A., Coque M., Bertin P. (2008) Response to selection of a maize population for adaptation to high or low nitrogen fertilization. Maydica, 53 (1) 21-28.
  • Garcia-Verdugo,I. Synguelakis, M. Degrouard,J. Franco,C A. Valot,B. Zivy,M. Chaby,R. Tanfin,Z. 2008. Interaction of surfactant protein A with the intermediate filaments desmin and vimentin. Biochemistry 47 : 5127-5138.
  • Jabbour,F. Damerval,C. Nadot,S. 2008. Evolutionary Trends in the Flowers of Asteridae: Is Polyandry an Alternative to Zygomorphy? Ann Bot (Lond) 102(2) : 153-165.
  • Jorg,T. Martin,O. Wagner,A. 2008. Neutral network sizes of biological RNA molecules can be computed and are not atypically small. BMC Bioinformatics 9 : 464.
  • Kuang,H H. van Eck,H J. Sicard,D. Michelmore,R. Nevo,E. 2008. Evolution and genetic population structure of prickly lettuce (Lactuca serriola) and its RGC2 resistance gene cluster Genetics 178 : 1547-1558.
  • Langella, O.,Zivy, M. (2008) A method based on bead flows for spot detection on 2-D gel images. Proteomics, 8 4914–4918.
  • Martin,O C. Wagner,A. 2008. Multifunctionality and robustness trade-offs in model genetic circuits Biophysical Journal 94 : 2927-2937.
  • Martinez A., Traverso J. A., Valot B., Ferro M., Espagne C., Ephritikhine G., Zivy M., Giglione C., Meinnel T. (2008) Extent of N-terminal modifications in cytosolic proteins from eukaryotes. Proteomics, 8 (14) 2809-31.
  • Nadot S., Furness C. A., Sannier J., Penet L., Triki-Teurtroy S., Albert B., Ressayre A. (2008) Phylogenetic comparative analysis of microsporogenesis in angiosperms with a focus on monocots. Am J Bot, 95 (11) 1426-36.
  • Prioul J. L., Mechin V., Damerval C. (2008) Molecular and biochemical mechanisms in maize endosperm development: the role of pyruvate-Pi-dikinase and Opaque-2 in the control of C/N ratio. C R Biol, 331 (10) 772-9.
  • Prioul J. L., Mechin V., Lessard P., Thevenot C., Grimmer M., Chateau-Joubert S., Coates S., Hartings H., Kloiber-Maitz M., Murigneux A., Sarda X., Damerval C., Edwards K. J. (2008) A joint transcriptomic, proteomic and metabolic analysis of maize endosperm development and starch filling. Plant Biotechnol J, 6 (9) 855-69.
  • Pouilly, N., Delourme, R., Alix, K.,Jenczewski, E. (2008) Repetitive sequence-derived markers tag centromeres and telomeres and provide insights into chromosome evolution in Brassica napus. Chromosome Res, 16 683–700.
  • Raquin,A L. Brabant,P. Rhone,B. Balfourier,F. Leroy,P. Goldringer,I. 2008. Soft selective sweep near a gene that increases plant height in wheat Molecular Ecology 17 : 741-756.
  • Raquin A. L., Brabant P., Rhone B., Balfourier F., Leroy P., Goldringer I. (2008) Soft selective sweep near a gene that increases plant height in wheat. Mol Ecol, 17 (3) 741-56.
  • Raquin, A.-L., Depaulis, F., Lambert, A., Galic, N., Brabant, P.,Goldringer, I. (2008) Experimental estimation of mutation rates in a wheat population with a gene genealogy approach. Genetics, 179 2195–2211.
  • Rhone,B. Remoué,C. Galic,N. Goldringer,I. Bonnin,I. 2008. Insight into the genetic bases of climatic adaptation in experimentally evolving wheat populations. Mol Ecol 17 : 930-943.
  • Siol,M. Prosperi,J M. Bonnin,I. Ronfort,J. 2008. How multilocus genotypic pattern helps to understand the history of selfing populations: a case study in Medicago truncatula. Heredity 100 : 517-525.
  • Spor,A. Wang,S. Dillmann,C. de Vienne,D. Sicard,D. 2008. "Ant" and "grasshopper" life-history strategies in Saccharomyces cerevisiae. PLoS ONE 3 : e1579.
  • Tenaillon,M I. Austerlitz,F. Tenaillon,O. 2008. Apparent mutational hotspots and long distance linkage disequilibrium resulting from a bottleneck Journal Of Evolutionary Biology 21 : 541-550.
  • Tenaillon,M I. Tiffin,P L. 2008. The quest for adaptive evolution: a theoretical challenge in a maze of data Current Opinion In Plant Biology 11 : 110-115.
  • Thuillet,A C. Tenaillon,M I. Falque,M. Mitchell,S E. Kresovich,S. Stack,S M. Gaut,B. Doebley,J. 2008. A weak effect of background selection on trinucleotide microsatellites in maize Journal Of Heredity 99 : 45-55.
  • van Bueren E. T. L., Ostergard H., Goldringer I., Scholten O. (2008) Plant breeding for organic and sustainable, low-input agriculture: dealing with genotype-environment interactions. Euphytica, 163 (3) 321-322.
  • Wolfe, M. S., Baresel, J. P., Desclaux, D., Goldringer, I., Hoad, S., Kovacs, G., Loeschenberger, F., Miedaner, T., Ostergard, H.,van Bueren, L. E. T. (2008) Developments in breeding cereals for organic agriculture. Euphytica, 163 323–346.
  • Xiong,T C. Coursol,S. Grat,S. Ranjeva,R. Mazars,C. 2008. Sphingolipid metabolites selectively elicit increases in nuclear calcium concentration in cell suspension cultures and in isolated nuclei of tobacco. Cell Calcium 43 : 29-37.
   

2007

  • Albertin W, Alix K, Balliau T, Brabant P, Davanture M, Malosse C, Valot B & Thiellement H. (2007). Differential regulation of gene products in newly synthesized Brassica napus allotetraploids is not related to gene function nor subcellular localization . BMC Genomics 8 : 56
  • Alix K., Lariagon C., Delourme R. and Manzanares-Dauleux M. (2007). Exploiting natural genetic diversity and mutant resources of Arabidopsis thaliana to study the A. thaliana - Plasmodiophora brassicae interaction. Plant Breeding 126: 218-221.
  • Camus-Kulandaivelu, L., J.B. Veyrieras, B. Gouesnard, A. Charcosset, and D. Manicacci. 2007. Evaluating the reliability of STRUCTURE outputs in case of relatedness between individuals. Crop Sci 47:885-890
  • Ciliberti S. , Martin O.C. and Wagner A. (2007) Robustness Can Evolve Gradually in Complex Regulatory Gene Networks with Varying Topology, PLoS Comput Biol 3(2): e15.
  • CilibertiS. , Martin O.C. and Wagner A. (2007) Innovation and robustness in complex regulatory gene networks, PNAS 104(34):13591-6.
  • Damerval C, Le Guilloux M, Jager M, Charon C. (2007). Diversity and evolution of CYCLOIDEA-Like TCP genes in relation to flower development in Papaveraceae. Plant Physiol. 143: 759-72.
  • Damerval C et Nadot S. (2007). Evolution of perianth and stamen characteristics with respect to floral symmetry in Ranunculales. /Ann. Bot./doi: 10.1093/aob/mcm041
  • Drouaud, J., Mercier, R, Chelysheva, L., Bérard, A., Falque, M., Martin, O., Zanni, V., Brunel, D., and C. Mézard. (2007). Sex-specific crossover distribution and variations in interference level along Arabidopsis thaliana chromosome 4. PLoS Genet 3(6): e106
  • Falque, M., Mercier, R., Mézard, C., de Vienne, D., and O.C. Martin. (2007). Patterns of recombination rate along chromosomes : importance of interference and obligate chiasma, Genetics 176: 1453-1467.
  • Gallais A., Moreau L., Charcosset A. (2007) Detection of marker-QTL associations by studying change in marker frequencies with selective genotyping. Theor Appl Genet, 114 (4): 669-681
  • Manicacci, D., Falque, M., Le Guillou, S., Piégu, B., Henry, A.M., Le Guillou, M., Damerval, C. & D. de Vienne (2007). Maize Sh2 gene is constrained by natural selection but escaped domestication. Journal of Evolutionary Biology 20 (2), 503–516.
  • Méchin V., Thévenot C., Le Guilloux M., Prioul J.L. and Damerval C. 2007. Developmental analysis of maize endosperm proteome suggests a pivotal role for PPDK in starch/protein balance. Plant Physiol. 143: 1203-1219.
  • Moeller A., Tenaillon M.I. and Tiffin P. 2007. Population structure and its effects on patterns of nucleotide polymorphism in teosinte (Zea mays ssp. parviglumis). Genetics 176: 1799-1809.
  • Rhoné B., Raquin AL., Goldringer I. (2007) Strong linkage disequilibrium near the selected Yr17 resistance gene in a wheat population under dynamic management. Theor. Appl. Genet. 114:787–802
  • Sicard, D., Pennings, P.S., Grandclément, C., Acosta, J., Kaltz, O. and Shykoff, J. A. (2007). Specialization and local adaptation of a fungal parasite on two host species as revealed by two fitness traits. Evolution 61, 27-41.
  • Siol M., Bonnin I., Olivieri I., Prosperi J.M. and Ronfort J. (2007). Effective population size associated with self-fertilization: lessons from temporal changes in allele frequencies in the selfing annual Medicago truncatula. Journal of Evolutionary Biology 20: 2349-2360.
  • Sumedha, Martin O.C. and Wagner A. (2007), New structural variation in evolutionary searches of RNA neutral networks,BioSystems 90: 475-485.
  • Sumedha, Martin O.C. and Peliti L. (2007) Population size effects in evolutionary dynamics on neutral networks and toy landscapes, J. Stat. Mech. P05011.
  • Thuillet A-C., Tenaillon M.I., Anderson L.K., Mitchell S.E., Kresovich S., Stack S.M., Gaut B.S. and Doebley J (2007). A weak effect of background selection on trinucleotide microsatellites in maize. Journal of Heredity. 99(1): 45-55
  • Veyrieras, J.B., Goffinet B., and Charcosset A. (2007) MetaQTL: a package of new computational methods for the meta-analysis of QTL mapping experiments. BMC Bioinformatics 8(1):49.
   

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