2024

• Ali B. , Huguenin-Bizot B., Laurent M., Chaumont F., Maistriaux LC., Nicolas S. , Duborjal H., Welcker C., Tardieu F., Mary-Huard T. , Moreau L. , Charcosset A. , Runcie D., Rincent R. . (2024) High-dimensional multi-omics measured in controlled conditions are useful for maize platform and field trait predictions. Theor Appl Genet, 7 (137) 175
• Andrieu, Marie-Hélène ., Atienza, Isabelle ., Marmagne, Anne ., Just, Daniel ., Bienvenut, Willy Vincent ., Gibon, Yves ., Colombié, Sophie .. (2024) Protocole de marquage à l’azote 15N de fruits de tomate issus de plantes cultivées en condition standard. NOV'AE, 5 (2022) 1-11
• Balconi C., Galaretto A. , Malvar RA., Nicolas S. , Redaelli R., Andjelkovic V., Revilla P., Bauland C. , Gouesnard B., Butron A., Torri A., Barata AM., Kravic N., Combes V. , Mendes-Moreira P., Murariu D., Šarčević H., Schierscher-Viret B., Vincent M., Zanetto A., Kessel B., Madur D. , Mary-Huard T. , Pereira A., Placinta DD., Strigens A., Charcosset A. , Goritschnig S.. (2024) Genetic and Phenotypic Evaluation of European Maize Landraces as a Tool for Conservation and Valorization of Agrobiodiversity. Biology, 6 (13) 454
• Balliau T. , Ashenafi M., Blein-Nicolas M. , Turc O., Zivy M., Marchadier É. . (2024) A Moderate Water Deficit Induces Profound Changes in the Proteome of Developing Maize Ovaries. Biomolecules, 10 (14) 1239
• Berthet ET., Louis H., Hooge R., Bosshardt S., Malicet-Chebbah L., Van Frank G., Baritaux E., Barrier-Guillot A., Bernard L., Bridonneau S., Montaz H., Picq E., Goldringer I. . (2024) Operationalizing collective action for crop diversity in-situ management: insights from a decentralized collective design approach. Agric Hum Values,
• Blein-Nicolas M. , Devijver E., Gallopin M., Perthame E.. (2024) Nonlinear network-based quantitative trait prediction from biological data. Journal of the Royal Statistical Society Series C: Applied Statistics, qlae012
• Boideau F., Huteau V., Maillet L., Brunet A., Coriton O., Deniot G., Trotoux G., Taburel-Lodé M., Eber F., Gilet M., Baron C., Boutte J., Richard G., Aury JM., Belser C., Labadie K., Morice J., Falentin C., Martin O., Falque M. , Chèvre AM., Rousseau-Gueutin M.. (2024) Alternating between even and odd ploidy levels switches on and off the recombination control, even near the centromeres. The Plant Cell, 10 (36) 4472-4490
• Bécu T., Barot S., Lata JC., Roux XL., Enjalbert J. , Niboyet A.. (2024) Increasing intraspecific diversity of wheat affects plant nutrient contents but not N recovery in the plant-soil system. Basic and Applied Ecology, (74) 24-34
• De Walsche A. , Gauthier F. , Charcosset A. , Mary-Huard T. . (2024) Large-scale composite hypothesis testing for omics analyses. ,
• Falque M. , Bourgais A., Dumas F. , De Carvalho M., Diblasi C.. (2024) MiniRead: A simple and inexpensive do‐it‐yourself device for multiple analyses of micro‐organism growth kinetics. Yeast, yea.3932
• Gawinowski M., Enjalbert J. , Cournède PH., Flutre T. . (2024) Contrasted reaction norms of wheat yield in pure vs mixed stands explained by tillering plasticities and shade avoidance. Field Crops Research, (310) 109368
• Griffiths JS., Sasaki M., Neylan IP., Kelly MW.. (2024) The Potential for Experimental Evolution to Uncover Trade-Offs Associated With Anthropogenic and Climate Change Adaptation. Glob Chang Biol, 11 (30) e17584
• Hure V., Piron-Prunier F., Yehouessi T., Vitte C. , Kornienko AE., Adam G., Nordborg M., Déléris A.. (2024) Alternative silencing states of Transposable Elements in Arabidopsis. Molecular Biology,
• Langella O. , Renne T., Balliau T. , Davanture M. , Brehmer S., Zivy M., Blein-Nicolas M. , Rusconi F. . (2024) Full Native timsTOF PASEF-Enabled Quantitative Proteomics with the i2MassChroQ Software Package. J. Proteome Res., 8 (23) 3353-3366
• Leduque B., Edera A., Vitte C. , Quadrana L.. (2024) Simultaneous profiling of chromatin accessibility and DNA methylation in complete plant genomes using long-read sequencing. Nucleic Acids Research, gkae306
• Lorenzi A., Bauland C. , Pin S. , Madur D. , Combes V. , Palaffre C., Guillaume C., Touzy G., Mary-Huard T. , Charcosset A. , Moreau L. . (2024) Portability of genomic predictions trained on sparse factorial designs across two maize silage breeding cycles. Theor Appl Genet, 3 (137) 75
• Maistriaux LC., Laurent MJ., Jeanguenin L., Prado SA., Nader J., Welcker C., Charcosset A. , Tardieu F., Nicolas S. , Chaumont F.. (2024) Genetic variability of aquaporin expression in maize: From eQTLs to a MITE insertion regulating PIP2;5 expression. Plant Physiology, kiae326
• Petrizzelli M., Coton C., de Vienne D. . (2024) Formalizing the law of diminishing returns in metabolic networks using an electrical analogy. R. Soc. Open Sci., 10 (11) 240165
• Revillon S., Dillmann C. , Galic N. , Bauland C. , Palaffre C., Malvar RA., Butron A., Rebaudo F., Legrand J. , Stout M.. (2024) Effects of maize development and phenology on the field infestation dynamics of the European corn borer (Lepidoptera: Crambidae). Journal of Economic Entomology, toae171
• Siddiq MA., Duveau F., Wittkopp PJ.. (2024) Plasticity and environment-specific relationships between gene expression and fitness in Saccharomyces cerevisiae. Nat Ecol Evol,
• Stone K., Platig J., Quackenbush J., Fagny M. . (2024) Complex Traits Heritability is Highly Clustered in the eQTL Bipartite Network. Systems Biology,
• Tarkowski Łukasz P., Clochard T., Blein-Nicolas M. , Zivy M., Baillau T., Abadie C., Morère-Le Paven MC., Limami AM., Tcherkez G., Montrichard F.. (2024) The nitrate transporter-sensor MtNPF6.8 regulates the branched chain amino acid/pantothenate metabolic pathway in barrel medic (Medicago truncatula Gaertn.) root tip. Plant Physiology and Biochemistry, (206) 108213
• Turbet Delof M., 2024, Impacts de l'environnement sur les pratiques de sélection paysanne et le comportement des variétés qui en résultent, PhD, Université Paris Saclay
• Urrutia M., Blein-Nicolas M. , Fernandez O., Bernillon S., Maucourt M., Deborde C., Balliau T. , Rabier D., Bénard C., Prigent S., Quilleré I., Jacob D., Gibon Y., Zivy M., Giauffret C., Hirel B., Moing A.. (2024) Identification of metabolic and protein markers representative of the impact of mild nitrogen deficit on agronomic performance of maize hybrids. Metabolomics, 6 (20) 128
• Voedts H., Anoyatis-Pelé C., Langella O. , Rusconi F. , Hugonnet JE., Arthur M.. (2024) (p)ppGpp modifies RNAP function to confer β-lactam resistance in a peptidoglycan-independent manner. Nat Microbiol, 3 (9) 647-656

2023

• Abu-Awad D., Waller D.. (2023) Conditions for maintaining and eroding pseudo-overdominance and its contribution to inbreeding depression. Peer Community Journal, (3) e8
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• Beugnot A., 07/02/2023, Hybrid performance in maize: from study of complementary between heterotic groups to genomic prediction, PhD, Université Paris-Saclay
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• Bouidghaghen J., Moreau L. , Beauchêne K., Chapuis R., Mangel N., Cabrera‐Bosquet L., Welcker C., Bogard M., Tardieu F.. (2023) Robotized indoor phenotyping allows genomic prediction of adaptive traits in the field. Nat Commun, 1 (14) 6603
• Burban E., Tenaillon M. , Glémin S.. (2023) RIDGE, a tool tailored to detect gene flow barriers across species pairs. Evolutionary Biology,
• Chasseriaud L., Albertin W., Blein-Nicolas M. , Balliau T. , Zivy M., Coulon J., Bely M.. (2023) Physical Contact between Torulaspora delbrueckii and Saccharomyces cerevisiae Alters Cell Growth and Molecular Interactions in Grape Must. Beverages, 3 (9) 81
• Chen X. , Avia K., Forler A., Remoué C. , Venon A. , Rousselet A. , Lucas G., Kwarteng AO., Rover R., Le Guilloux M., Belcram H. , Combes V. , Corti H., Olverà-Vazquez S., Falque M. , Alins G., Kirisits T., Ursu TM., Roman A., Volk GM., Bazot S., Cornille A. . (2023) Ecological and evolutionary drivers of phenotypic and genetic variation in the European crabapple [ Malus sylvestris (L.) Mill.], a wild relative of the cultivated apple. Annals of Botany, 6 (131) 1025-1037
• Chen X. , Cornille A. , An N., Xing L., Ma J., Zhao C., Wang Y., Han M., Zhang D.. (2023) The East Asian wild apples, Malus baccata (L.) Borkh and Malus hupehensis (Pamp.) Rehder., are additional contributors to the genomes of cultivated European and Chinese varieties. Molecular Ecology, 18 (32) 5125-5139
• Conde e Silva N. , Leguilloux M., Bellec A., Rodde N., Aubert J., Manicacci D. , Damerval C. , Berges H., Deveaux Y. . (2023) A MITE insertion abolishes the AP3-3 self-maintenance regulatory loop in apetalous flowers of Nigella damascena. Journal of Experimental Botany, 5 (74) 1448-1459
• Coton C., Dillmann C. , de Vienne D. . (2023) Evolution of enzyme levels in metabolic pathways: A theoretical approach. Part 2. Journal of Theoretical Biology, (558) 111354
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• Desbiez-Piat A., Ressayre A. , Marchadier É. , Noly A., Remoue C., Vitte C. , Belcram H. , Bourgais A., Galic N. , Guilloux ML., Tenaillon M. , Dillmann C. . (2023) Pervasive GxE interactions shape adaptive trajectories and the exploration of the phenotypic space in artificial selection experiments. Genetics, (in press) 2023.01.13.523786
• Djabali Y., Rincent R. , Martin ML., Blein-Nicolas M. . (2023) Plasticity QTLs specifically contribute to the genotype × water availability interaction in maize. Theor Appl Genet, 11 (136) 228
• Djabali Yacine ., 2023-12-13, Exploitation des données multi-omiques pour élucider les bases génétiques et moléculaires de caractères complexes : une étude de génétique des systèmes de la réponse du maïs à la sécheresse, , Université Paris Saclay
• Dubs F., Enjalbert J. , Barot S., Porcher E., Allard V., Pope C., Gauffreteau A., Niboyet A., Pommier T., Saint-Jean S., Vidal T., Le Roux X.. (2023) Unfolding the link between multiple ecosystem services and bundles of functional traits to design multifunctional crop variety mixtures. Agron. Sustain. Dev., 6 (43) 71
• Duruflé H., Balliau T. , Blanchet N., Chaubet A., Duhnen A., Pouilly N., Blein-Nicolas M. , Mangin B., Maury P., Langlade NB., Zivy M.. (2023) Sunflower Hybrids and Inbred Lines Adopt Different Physiological Strategies and Proteome Responses to Cope with Water Deficit. Biomolecules, 7 (13) 1110
• Fraunhoffer NA., Moreno Vega AI., Abuelafia AM., Morvan M., Lebarbier E., Mary-Huard T. , Zimmermann MT., Lomberk G., Urrutia R., Dusetti N., Blum Y., Nicolle R., Iovanna J.. (2023) Priming therapy by targeting enhancer-initiated pathways in patient-derived pancreatic cancer cells. eBioMedicine, (92) 104602
• Galić V., Anđelković V., Kravić N., Grčić N., Ledenčan T., Jambrović A., Zdunić Z., Nicolas S. , Charcosset A. , Šatović Z., Šimić D.. (2023) Genetic diversity and selection signatures in a gene bank panel of maize inbred lines from Southeast Europe compared with two West European panels. BMC Plant Biol, 1 (23) 315
• Gawinowski M., 11/01/2023, Importance des interactions plante-plante dans les mélanges de variétés de blé tendre : étude de la compétition pour la lumière avec une approche interdisciplinaire entre expérimentation au champ et modélisation mécaniste, PhD, Université Paris Cité
• Haug B., Messmer MM., Enjalbert J. , Goldringer I. , Flutre T. , Mary-Huard T. , Hohmann P.. (2023) New insights towards breeding for mixed cropping of spring pea and barley to increase yield and yield stability. Field Crops Research, (297) 108923
• Jamet E., Esquerré-Tugayé MT., Gallardo-Guerrero K., Rolland N., Zivy M., Blein-Nicolas M. , Vincent D., Gontero B., Rajjou L.. (2023) Obituary: Dominique Job (1947-2022). Front. Plant Sci., (14) 1188766
• Korfmann K., Abu-Awad D., Tellier A.. (2023) Weak seed banks influence the signature and detectability of selective sweeps. J of Evolutionary Biology, 9 (36) 1282-1294
• Legarra A., Gonzalez-Dieguez DO., Charcosset A. , Vitezica ZG.. (2023) Impact of interpopulation distance on dominance variance and average heterosis in hybrid populations within species. GENETICS, 2 (224)
• Lorenzi A., 08/11/2023, Optimization of genomic selection for hybrids in a reciprocal selection program: Experimental evaluation in maize and simulations, PhD, Université Paris-Saclay
• Mary-Huard T. , Balding D., Weir BS.. (2023) Fast and accurate joint inference of coancestry parameters for populations and/or individuals. PLoS Genet, 1 (19) e1010054
• Michel E., Masson E., Bubbendorf S., Lapicque L., Nidelet T., Segond D., Guézenec S., Marlin T., Devillers H., Rué O., Onno B., Legrand J. , Sicard D.. (2023) Artisanal and farmer bread making practices differently shape fungal species community composition in French sourdoughs. Peer Community Journal, (3) e11
• Moissiard G., Mirouze M., Carles CC., Vitte C. . (2023) Editorial: Plant epigenetics and chromatin dynamics - EPIPLANT 2021-2022. Front. Plant Sci., (14) 1260391
• Papalini S., Di Vittori V., Pieri A., Allegrezza M., Frascarelli G., Nanni L., Bitocchi E., Bellucci E., Gioia T., Pereira LG., Susek K., Tenaillon M. , Neumann K., Papa R.. (2023) Challenges and Opportunities behind the Use of Herbaria in Paleogenomics Studies. Plants, 19 (12) 3452
• Plancade S., Marchadier É. , Huet S., Ressayre A. , Noûs C., Dillmann C. . (2023) A successive time-to-event model of phyllochron dynamics for hypothesis testing: application to the analysis of genetic and environmental effects in maize. Plant Methods, 1 (19) 54
• Prunier G., Cherkaoui M., Lysiak A., Langella O. , Blein-Nicolas M. , Lollier V., Benoist E., Jean G., Fertin G., Rogniaux H., Tessier D.. (2023) Fast alignment of mass spectra in large proteomics datasets, capturing dissimilarities arising from multiple complex modifications of peptides. BMC Bioinformatics, 1 (24) 421
• Raffo MA., Cuyabano BCD., Rincent R. , Sarup P., Moreau L. , Mary-Huard T. , Jensen J.. (2023) Genomic prediction for grain yield and micro-environmental sensitivity in winter wheat. Front. Plant Sci., (13) 1075077
• Revilla P., Butrón A., Rodriguez VM., Rincent R. , Charcosset A. , Giauffret C., Melchinger AE., Schön CC., Bauer E., Altmann T., Brunel D., Moreno-González J., Campo L., Ouzunova M., Álvarez Ángel., Ruíz de Galarreta JI., Laborde J., Malvar RA.. (2023) Genetic Variation for Cold Tolerance in Two Nested Association Mapping Populations. Agronomy, 1 (13) 195
• Rio S., Charcosset A. , Moreau L. , Mary-Huard T. , Endelman J.. (2023) Detecting directional and non-directional epistasis in bi-parental populations using genomic data. GENETICS, 3 (224) iyad089
• Rishmawi L., Bauget F., Protto V., Bauland C. , Nacry P., Maurel C.. (2023) Natural variation of maize root hydraulic architecture underlies highly diverse water uptake capacities. Plant Physiology, 3 (192) 2404-2418
• Rouger B., Goldringer I. , Barbillon P., Miramon A., Naino Jika AK., Thomas M.. (2023) Sensitivity analysis of a crop metapopulation model. Ecological Modelling, (475) 110174
• Régnier B., Legrand J. , Calatayud PA., Rebaudo F.. (2023) Developmental Differentiations of Major Maize Stemborers Due to Global Warming in Temperate and Tropical Climates. Insects, 1 (14) 51
• Sanane I., Nicolas S. , Bauland C. , Marion-Poll F., Noûs C., Legrand J. , Dillmann C. . (2023) Large genetic variability of maize leaf palatability to european corn borer : metabolic insights. bioRxiv,
• Sanchez D., Sadoun SB., Mary-Huard T. , Allier A., Moreau L. , Charcosset A. . (2023) Improving the use of plant genetic resources to sustain breeding programs’ efficiency. Proc. Natl. Acad. Sci. U.S.A., 14 (120) e2205780119
• Sanchez D., 29/09/2023, Incorporation of genetic resources in breeding programs: theoretical analysis and experimental evaluation of a pre-breeding multiparental maize population, PhD, Université Paris-Saclay
• Taschen E., Dezette D., Guillot E., Abadie J., Arnal D., Plassard C., Taudière A., Wheatamix consortium, Violle C., Enjalbert J. , Le Roux X., Hinsinger P.. (2023) Wheat varietal diversity modulates nitrogen-related enzymatic activities but has limited impact on arbuscular mycorrhizal fungi. Plant Soil,
• Tenaillon M. , Burban E., Huynh S., Wojcik A. , Thuillet AC., Manicacci D. , Gérard P. , Alix K. , Belcram H. , Cornille A. , Brault M., Stevens R., Lagnel J., Dogimont C., Vigouroux Y., Glémin S.. (2023) Crop domestication as a step toward reproductive isolation. American Journal of Botany, 7 (110) e16173
• Tittes, S., Lorant, A., McGinty, S., Holland, J.B., Sanchez-Gonzalez, JJ, Seetharam, A., Tenaillon, M.I., Ross-Ibarra, J.. (2023) Not so local: the population genetics of convergent adaptation in maize and teosinte. eLife, RP92405 (12)
• Von Gastrow L., Michel E., Legrand J. , Amelot R., Segond D., Guezenec S., Rué O., Chable V., Goldringer I. , Dousset X., Serpolay‐Bessoni E., Taupier‐Letage B., Vindras‐Fouillet C., Onno B., Valence F., Sicard D.. (2023) Microbial community dispersal from wheat grains to sourdoughs: A contribution of participatory research. Molecular Ecology, 10 (32) 2413-2427
• de Vienne D. , Coton C., Dillmann C. . (2023) The genotype–phenotype relationship and evolutionary genetics in the light of the Metabolic Control Analysis. Biosystems, (232) 105000

2022

• Ahmadi N., Bartholomé J., Rio S., Charcosset A. , Mary-Huard T. , Moreau L. , Rincent R. . (2022) Building a Calibration Set for Genomic Prediction, Characteristics to Be Considered, and Optimization Approaches. DOI.org (Crossref), (2467) 77-112
• Ahmadi N., Bartholomé J., Crossa J., Montesinos-López OA., Pérez-Rodríguez P., Costa-Neto G., Fritsche-Neto R., Ortiz R., Martini JWR., Lillemo M., Montesinos-López A., Jarquin D., Breseghello F., Cuevas J., Rincent R. . (2022) Genome and Environment Based Prediction Models and Methods of Complex Traits Incorporating Genotype × Environment Interaction. DOI.org (Crossref), (2467) 245-283
• Ahmadi N., Bartholomé J., Robert P., Brault C., Rincent R. , Segura V.. (2022) Phenomic Selection: A New and Efficient Alternative to Genomic Selection. DOI.org (Crossref), (2467) 397-420
• Albert B., Matamoro-Vidal A., Prieu C., Nadot S., Till-Bottraud I., Ressayre A. , Gouyon PH.. (2022) A Review of the Developmental Processes and Selective Pressures Shaping Aperture Pattern in Angiosperms. Plants, 3 (11) 357
• Amandine C., Ebert D., Stukenbrock E., Rodríguez De La Vega RC., Tiffin P., Croll D., Tellier A.. (2022) Unraveling coevolutionary dynamics using ecological genomics. Trends in Genetics, 10 (38) 1003-1012
• Atze H., Liang Y., Hugonnet JE., Gutierrez A., Rusconi F. , Arthur M.. (2022) Heavy isotope labeling and mass spectrometry reveal unexpected remodeling of bacterial cell wall expansion in response to drugs. eLife, (11) e72863
• Bastide H., Ogereau D., Montchamp-Moreau C., Gérard P. . (2022) The fate of a suppressed X-linked meiotic driver: experimental evolution in Drosophila simulans. Chromosome Res, 2-3 (30) 141-150
• Baudouin E., Puyaubert J., Meimoun P., Blein-Nicolas M. , Davanture M. , Zivy M., Bailly C.. (2022) Dynamics of Protein Phosphorylation during Arabidopsis Seed Germination. International Journal of Molecular Sciences, 13 (23) 7059
• Ben Guebila M., Weighill D., Lopes-Ramos CM., Burkholz R., Pop RT., Palepu K., Shapoval M., Fagny M. , Schlauch D., Glass K., Altenbuchinger M., Kuijjer ML., Platig J., Quackenbush J.. (2022) An online notebook resource for reproducible inference, analysis and publication of gene regulatory networks. Nat Methods, 5 (19) 511-513
• Bina H., Yousefzadeh H., Venon A. , Remoué C. , Rousselet A. , Falque M. , Faramarzi S., Chen X. , Samanchina J., Gill D., Kabaeva A., Giraud T., Hosseinpour B., Abdollahi H., Gabrielyan I., Nersesyan A., Cornille A. . (2022) Evidence of an additional centre of apple domestication in Iran, with contributions from the Caucasian crab apple Malus orientalis Uglitzk. to the cultivated apple gene pool. Molecular Ecology, 21 (31) 5581-5601
• Burban E., Tenaillon M. , Le Rouzic A.. (2022) Gene network simulations provide testable predictions for the molecular domestication syndrome. Genetics, 2 (220) iyab214
• Colombo M., Roumet P., Salon C., Jeudy C., Lamboeuf M., Lafarge S., Dumas F. , Dubreuil P., Ngo W., Derepas B., Beauchêne K., Allard V., Le Gouis J., Rincent R. . (2022) Genetic Analysis of Platform-Phenotyped Root System Architecture of Bread and Durum Wheat in Relation to Agronomic Traits. Front. Plant Sci., (13) 853601
• Cornille A. . (2022) HDR Ecological genomics of multi-species interactions.. ,
• Coton C., Talbot G., Le Louarn M., Dillmann C. , de Vienne D. . (2022) Evolution of enzyme levels in metabolic pathways: A theoretical approach. Part 1. Journal of Theoretical Biology, (538) 111015
• Damerval C. , Claudot C. , Le Guilloux M., Conde e Silva N. , Brunaud V., Soubigou-Taconnat L., Caius J., Delannoy E., Nadot S., Jabbour F., Deveaux Y. . (2022) Evolutionary analyses and expression patterns of TCP genes in Ranunculales. Front Plant Sci, (13) 1055196
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• Delpeuch P., Jabbour F., Damerval C. , Schönenberger J., Pamperl S., Rome M., Nadot S.. (2022) A flat petal as ancestral state for Ranunculaceae. Front Plant Sci, (13) 961906
• Demie DT., Döring TF., Finckh MR., van der Werf W., Enjalbert J. , Seidel SJ.. (2022) Mixture × Genotype Effects in Cereal/Legume Intercropping. Front. Plant Sci., (13) 846720
• Fagny M. , Glass K., Kuijjer ML.. (2022) Editorial: Applications and Methods in Genomic Networks. Front. Genet., (13) 936015
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• Gawinowski M., Enjalbert J. , Cournède PH., Flutre T. . (2022) Contrasted reaction norms of wheat yield in pure vs mixed stands explained by tillering plasticities and shade avoidance. Plant Biology,
• Gaynor SM., Fagny M. , Lin X., Platig J., Quackenbush J.. (2022) Connectivity in eQTL networks dictates reproducibility and genomic properties. Cell Reports Methods, 5 (2) 100218
• Guillou MC., Balliau T. , Vergne E., Canut H., Chourré J., Herrera-León C., Ramos-Martín F., Ahmadi-Afzadi M., D'Amelio N., Ruelland E., Zivy M., Renou JP., Jamet E., Aubourg S.. (2022) The PROSCOOP10 Gene Encodes Two Extracellular Hydroxylated Peptides and Impacts Flowering Time in Arabidopsis. Plants (Basel), 24 (11) 3554
• Henry C., Bassignani A., Berland M., Langella O. , Sokol H., Juste C.. (2022) Modern Metaproteomics: A Unique Tool to Characterize the Active Microbiome in Health and Diseases, and Pave the Road towards New Biomarkers—Example of Crohn’s Disease and Ulcerative Colitis Flare-Ups. Cells, 8 (11) 1340
• Hsu YM., 2022-09, Mining genetic diversity for tomorrow's agriculture, Theses, Université Paris-Saclay
• Hsu YM., Falque M. , Martin OC.. (2022) Quantitative modelling of fine-scale variations in the Arabidopsis thaliana crossover landscape. Quant Plant Bio., (3) e3
• Jean N., Perié L., Dumont E., Bertheau L., Balliau T. , Caruana AMN., Amzil Z., Laabir M., Masseret E.. (2022) Metal stresses modify soluble proteomes and toxin profiles in two Mediterranean strains of the distributed dinoflagellate Alexandrium pacificum. Sci Total Environ, (818) 151680
• Kalemba EM., Valot B., Job D., Bailly C., Meimoun P.. (2022) Are Methionine Sulfoxide-Containing Proteins Related to Seed Longevity? A Case Study of Arabidopsis thaliana Dry Mature Seeds Using Cyanogen Bromide Attack and Two-Dimensional-Diagonal Electrophoresis. Plants, 4 (11) 569
• Kiær LP., Weedon OD., Bedoussac L., Bickler C., Finckh MR., Haug B., Iannetta PPM., Raaphorst-Travaille G., Weih M., Karley AJ.. (2022) Supply Chain Perspectives on Breeding for Legume–Cereal Intercrops. Front. Plant Sci., (13) 844635
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• Lemeunier P., Paux E., Babi S., Auzanneau J., Goudemand-Dugué E., Ravel C., Rincent R. . (2022) Training population optimization for genomic selection improves the predictive ability of a costly measure in bread wheat, the gliadin to glutenin ratio. Euphytica, 8 (218) 111
• Lorenzi A., Bauland C. , Mary-Huard T. , Pin S. , Palaffre C., Guillaume C., Lehermeier C., Charcosset A. , Moreau L. . (2022) Genomic prediction of hybrid performance: comparison of the efficiency of factorial and tester designs used as training sets in a multiparental connected reciprocal design for maize silage. Theor Appl Genet,
• Millán-Oropeza A., Blein-Nicolas M. , Monnet V., Zivy M., Henry C.. (2022) Comparison of Different Label-Free Techniques for the Semi-Absolute Quantification of Protein Abundance. Proteomes, 1 (10) 2
• Monnot S., Cantet M., Mary-Huard T. , Moreau L. , Lowdon R., Van Haesendonck M., Ricard A., Boissot N.. (2022) Unravelling cucumber resistance to several viruses via genome-wide association studies highlighted resistance hotspots and new QTLs. Horticulture Research, uhac184
• Montazeaud G., Flutre T. , Ballini E., Morel JB., David J., Girodolle J., Rocher A., Ducasse A., Violle C., Fort F., Fréville H.. (2022) From cultivar mixtures to allelic mixtures: opposite effects of allelic richness between genotypes and genotype richness in wheat. New Phytologist, 6 (233) 2573-2584
• Plancade S., Berland M., Blein-Nicolas M. , Langella O. , Bassignani A., Juste C.. (2022) A combined test for feature selection on sparse metaproteomics data—an alternative to missing value imputation. PeerJ, (10) e13525
• Robert P., Auzanneau J., Goudemand E., Oury FX., Rolland B., Heumez E., Bouchet S., Le Gouis J., Rincent R. . (2022) Phenomic selection in wheat breeding: identification and optimisation of factors influencing prediction accuracy and comparison to genomic selection. Theor Appl Genet, 3 (135) 895-914
• Robert P., Goudemand E., Auzanneau J., Oury FX., Rolland B., Heumez E., Bouchet S., Caillebotte A. , Mary-Huard T. , Le Gouis J., Rincent R. . (2022) Phenomic selection in wheat breeding: prediction of the genotype-by-environment interaction in multi-environment breeding trials. Theor Appl Genet, 10 (135) 3337-3356
• Roth M., Beugnot A., Mary-Huard T. , Moreau L. , Charcosset A. , Fievet JB.. (2022) Improving genomic predictions with inbreeding and non-additive effects in two admixed maize hybrid populations in single and multi-environment contexts. Genetics, iyac018
• Rouger B., 2022, Coconstruction et évaluation de scénarios de gestion dynamique de la biodiversité cultivée dans des réseaux paysans et jardiniers à l'aide de la modélisation participative ; application à deux études de cas sur la tomate et sur le blé tendre en France, PhD, Université Paris Cité
• Régnier B., Legrand J. , Rebaudo F., Brent C.. (2022) Modeling Temperature-Dependent Development Rate in Insects and Implications of Experimental Design. Environmental Entomology, 1 (51) 132-144
• Sano N., Lounifi I., Cueff G., Collet B., Clément G., Balzergue S., Huguet S., Valot B., Galland M., Rajjou L.. (2022) Multi-Omics Approaches Unravel Specific Features of Embryo and Endosperm in Rice Seed Germination. Front. Plant Sci., (13) 867263
• Speck A., Trouvé JP., Enjalbert J. , Geffroy V., Joets J. , Moreau L. . (2022) Genetic Architecture of Powdery Mildew Resistance Revealed by a Genome-Wide Association Study of a Worldwide Collection of Flax (Linum usitatissimum L.). Front. Plant Sci., (13) 871633
• Vidal A., Gauthier F. , Rodrigez W., Guiglielmoni N., Leroux D., Chevrolier N., Jasson S., Tourrette E., Martin OC., Falque M. . (2022) SeSAM: software for automatic construction of order-robust linkage maps. BMC Bioinformatics, 1 (23) 499
• Wang X., Davanture M. , Zivy M., Bailly C., Nambara E., Corbineau F.. (2022) Label-Free Quantitative Proteomics Reveal the Involvement of PRT6 in Arabidopsis thaliana Seed Responsiveness to Ethylene. International Journal of Molecular Sciences, 16 (23) 9352
• Welcker C., Spencer NA., Turc O., Granato I., Chapuis R., Madur D. , Beauchene K., Gouesnard B., Draye X., Palaffre C., Lorgeou J., Melkior S., Guillaume C., Presterl T., Murigneux A., Wisser RJ., Millet EJ., van Eeuwijk F., Charcosset A. , Tardieu F.. (2022) Physiological adaptive traits are a potential allele reservoir for maize genetic progress under challenging conditions. Nat Commun, 1 (13) 3225
• Yip Delormel T., Avila-Ospina L., Davanture M. , Zivy M., Lang J., Valentin N., Rayapuram N., Hirt H., Colcombet J., Boudsocq M.. (2022) In vivo identification of putative CPK5 substrates in Arabidopsis thaliana. Plant Science, (314) 111121
• Zang L., Tarkowski LP., Morère-Le Paven MC., Zivy M., Balliau T. , Clochard T., Bahut M., Balzergue S., Pelletier S., Landès C., Limami AM., Montrichard F.. (2022) The Nitrate Transporter MtNPF6.8 Is a Master Sensor of Nitrate Signal in the Primary Root Tip of Medicago truncatula. Front Plant Sci, (13) 832246
• de Vienne D. , Capy P.. (2022) Special issue on “The relationship between genotype and phenotype: new insight into an old question”. Genetica, 3-4 (150) 151-151
• de Vienne D. . (2022) What is a phenotype? History and new developments of the concept. Genetica, 3-4 (150) 153-158

2021

• Arca M., Mary-Huard T. , Gouesnard B., Bérard A., Bauland C. , Combes V. , Madur D. , Charcosset A. , Nicolas S. . (2021) Deciphering the Genetic Diversity of Landraces With High-Throughput SNP Genotyping of DNA Bulks: Methodology and Application to the Maize 50k Array. Front. Plant Sci., (11) 568699
• Atanda SA., Olsen M., Crossa J., Burgueño J., Rincent R. , Dzidzienyo D., Beyene Y., Gowda M., Dreher K., Boddupalli PM., Tongoona P., Danquah EY., Olaoye G., Robbins KR.. (2021) Scalable Sparse Testing Genomic Selection Strategy for Early Yield Testing Stage. Front. Plant Sci., (12) 658978
• Balliau T. , Duruflé H., Blanchet N., Blein-Nicolas M. , Langlade NB., Zivy M.. (2021) Proteomic data from leaves of twenty-four sunflower genotypes under water deficit. OCL, (28) 12
• Barrera-Redondo J., Sánchez-de la Vega G., Aguirre-Liguori JA., Castellanos-Morales G., Gutiérrez-Guerrero YT., Aguirre-Dugua X., Aguirre-Planter E., Tenaillon M. , Lira-Saade R., Eguiarte LE.. (2021) The domestication of Cucurbita argyrosperma as revealed by the genome of its wild relative. Hortic Res, 1 (8) 109
• Bassignani A., Plancade S., Berland M., Blein-Nicolas M. , Guillot A., Chevret D., Moritz C., Huet S., Rizkalla S., Clément K., Doré J., Langella O. , Juste C.. (2021) Benefits of Iterative Searches of Large Databases to Interpret Large Human Gut Metaproteomic Data Sets. J. Proteome Res.,
• Bellucci E., Mario Aguilar O., Alseekh S., Bett K., Brezeanu C., Cook D., De la Rosa L., Delledonne M., Dostatny DF., Ferreira JJ., Geffroy V., Ghitarrini S., Kroc M., Kumar Agrawal S., Logozzo G., Marino M., Mary‐Huard T., McClean P., Meglič V., Messer T., Muel F., Nanni L., Neumann K., Servalli F., Străjeru S., Varshney RK., Vasconcelos MW., Zaccardelli M., Zavarzin A., Bitocchi E., Frontoni E., Fernie AR., Gioia T., Graner A., Guasch L., Prochnow L., Oppermann M., Susek K., Tenaillon M. , Papa R.. (2021) The INCREASE project: Intelligent Collections of food‐legume genetic resources for European agrofood systems. The Plant Journal, 3 (108) 646-660
• Ben Salah E., Barrera C., Sakly W., Mosbahi S., Balliau T. , Franche N., Gottstein B., Ben Youssef S., Mekki M., Babba H., Millon L.. (2021) Novel biomarkers for the early prediction of pediatric cystic echinococcosis post-surgical outcomes. J Infect, S0163-4453(21)00494-1
• Blanc E., Barbillon P., Fournier C., Lecarpentier C., Pradal C., Enjalbert J. . (2021) Functional–Structural Plant Modeling Highlights How Diversity in Leaf Dimensions and Tillering Capability Could Promote the Efficiency of Wheat Cultivar Mixtures. Front. Plant Sci., (12) 734056
• Blanc E., 2021-03, Modélisation des conséquences évolutives de la compétition pour la lumière dans des populations composites de blé, PhD, Université Paris-Saclay
• Brisou G., Piquerez SJM., Minoia S., Marcel F., Cornille A. , Carriero F., Boualem A., Bendahmane A.. (2021) Induced mutations in SlE8 and SlACO1 control tomato fruit maturation and shelf-life. Journal of Experimental Botany, erab330
• Chen X. , Cornille A. , An N., Xing L., Ma J., Zhao C., Wang Y., Han M., Zhang D.. (2021) The Siberian wild apple is an additional contributor to the genome of the cultivated European and Chinese apple. bioRxiv,
• Coton C., 2021-12, Évolution des concentrations d'enzymes dans les réseaux métaboliques, Theses, Université Paris-Saclay
• Cui J., Davanture M. , Lamade E., Zivy M., Tcherkez G.. (2021) Plant low-K responses are partly due to Ca prevalence and the low-K biomarker putrescine does not protect from Ca side effects but acts as a metabolic regulator. Plant Cell Environ, 5 (44) 1565-1579
• Denoirjean T., Doury G., Cornille A. , Chen X. , Hance T., Ameline A.. (2021) Genetic structure of Malus sylvestris and potential link with preference/performance by the rosy apple aphid pest Dysaphis plantaginea. Sci Rep, 1 (11) 5732
• Desbiez-Piat A., Le Rouzic A., Tenaillon M. , Dillmann C. . (2021) Interplay between extreme drift and selection intensities favors the fixation of beneficial mutations in selfing maize populations. Genetics, 2 (219)
• Desbiez-Piat, 2021, The Dynamics of the Response to Selection under High Drift-High Selection: Insights from Saclay’s Divergent Selection Experiments for Flowering Time in Maize, PhD Thesis, Université Paris-Saclay
• Deveaux Y. , Conde e Silva N. , Manicacci D. , Le Guilloux M., Brunaud V., Belcram H. , Joets J. , Soubigou-Taconnat L., Delannoy E., Corti H., Balzergue S., Caius J., Nadot S., Damerval C. . (2021) Transcriptome Analysis Reveals Putative Target Genes of APETALA3-3 During Early Floral Development in Nigella damascena L.. Front. Plant Sci., (12) 660803
• Diaw Y., Tollon-Cordet C., Charcosset A. , Nicolas S. , Madur D. , Ronfort J., David J., Gouesnard B., Chiang TY.. (2021) Genetic diversity of maize landraces from the South-West of France. PLoS ONE, 2 (16) e0238334
• Douché T., Valot B., Balliau T. , San Clemente H., Zivy M., Jamet E.. (2021) Cell wall proteomic datasets of stems and leaves of Brachypodium distachyon. Data in Brief, (35) 106818
• Duminil P., Davanture M. , Oury C., Boex‐Fontvieille E., Tcherkez G., Zivy M., Hodges M., Glab N.. (2021) Arabidopsis thaliana 2,3‐bisphosphoglycerate‐independent phosphoglycerate mutase 2 activity requires serine 82 phosphorylation. Plant J, 5 (107) 1478-1489
• Fagny M. , Kuijjer ML., Stam M., Joets J. , Turc O., Rozière J., Pateyron S., Venon A. , Vitte C. . (2021) Identification of Key Tissue-Specific, Biological Processes by Integrating Enhancer Information in Maize Gene Regulatory Networks. Frontiers in Genetics, (11) 1703
• Galipot P., Gerber S., Le Guilloux M., Jabbour F., Damerval C. . (2021) Micro- and Macroscale Patterns of Petal Morphogenesis in Nigella damascena (Ranunculaceae) Revealed by Geometric Morphometrics and Cellular Analyses. Front Plant Sci, (12) 769246
• Galipot P., Damerval C. , Jabbour F.. (2021) The seven ways eukaryotes produce repeated colour motifs on external tissues. Biol Rev Camb Philos Soc, 4 (96) 1676-1693
• Gonzàlez-Diéguez D., Legarra A., Charcosset A. , Moreau L. , Lehermeier C., Teyssèdre S., Vitezica ZG.. (2021) Genomic Prediction of Hybrid Crops Allows Disentangling Dominance and Epistasis. Genetics, iyab026
• Groppi A., Liu S., Cornille A. , Decroocq S., Bui QT., Tricon D., Cruaud C., Arribat S., Belser C., Marande W., Salse J., Huneau C., Rodde N., Rhalloussi W., Cauet S., Istace B., Denis E., Carrère S., Audergon JM., Roch G., Lambert P., Zhebentyayeva T., Liu WS., Bouchez O., Lopez-Roques C., Serre RF., Debuchy R., Tran J., Wincker P., Chen X. , Pétriacq P., Barre A., Nikolski M., Aury JM., Abbott AG., Giraud T., Decroocq V.. (2021) Population genomics of apricots unravels domestication history and adaptive events. Nat Commun, 1 (12) 3956
• Haug B., Messmer MM., Enjalbert J. , Goldringer I. , Forst E., Flutre T. , Mary-Huard T. , Hohmann P.. (2021) Advances in Breeding for Mixed Cropping – Incomplete Factorials and the Producer/Associate Concept. Front. Plant Sci., (11) 620400
• Haug B., 2021-12, Breeding for mixed cropping : lessons learned from a genetic analysis of pea (P. sativum L.) - barley (H. vulgare L.) mixtures, PhD, Université Paris-Saclay
• Henriet C., Balliau T. , Aimé D., Le Signor C., Kreplak J., Zivy M., Gallardo K., Vernoud V.. (2021) Proteomics of developing pea seeds reveals a complex antioxidant network underlying the response to sulfur deficiency and water stress. Journal of Experimental Botany, eraa571
• Jabbour F., Pasquier PED., Chazalviel L., Guilloux ML., Conde e Silva N. , Deveaux Y. , Manicacci D. , Galipot P., Heiss AG., Damerval C. . (2021) Evolution of the distribution area of the Mediterranean Nigella damascena and a likely multiple molecular origin of its perianth dimorphism. Flora, (274) 151735
• Kalendar R., Sabot F., Rodriguez F., Karlov GI., Natali L., Alix K. . (2021) Editorial: Mobile Elements and Plant Genome Evolution, Comparative Analyzes and Computational Tools. Front. Plant Sci., (12) 735134
• Kolkas H., Balliau T. , Chourré J., Zivy M., Canut H., Jamet E.. (2021) The Cell Wall Proteome of Marchantia polymorpha Reveals Specificities Compared to Those of Flowering Plants. Front Plant Sci, (12) 765846
• Koupilová K., Koubek T., Cornille A. , Janovský Z.. (2021) Local maladaptation of the anther-smut fungus parasitizing Dianthus carthusianorum. European Journal of Plant Pathology, 2 (160) 365-374
• Labarthe P., Coléno F., Enjalbert J. , Fugeray-Scarbel A., Hannachi M., Lemarié S.. (2021) Exploration, exploitation and environmental innovation in agriculture. The case of variety mixture in France and Denmark. Technological Forecasting and Social Change, (172) 121028
• Langella O. , Rusconi F. . (2021) mineXpert2 : Full-Depth Visualization and Exploration of MS ⁿ Mass Spectrometry Data. J. Am. Soc. Mass Spectrom., 4 (32) 1138-1141
• Maroc L. , 2021-02, Etude sur le changement de type sexuel et les cassures chromosomiques chez Candida glabrata, Theses, Université Paris-Saclay
• Maroc L. , Fairhead C. . (2021) Lessons from the Nakaseomyces: mating-type switching, DSB repair and evolution of Ho. Curr Genet, 5 (67) 685-693
• Mary-Huard T. , Perduca V., Martin-Magniette ML., Blanchard G.. (2021) Error rate control for classification rules in multiclass mixture models. The International Journal of Biostatistics, 0 (0)
• Mary-Huard T. , Das S., Mukhopadhyay I., Robin S., Birol I.. (2021) Querying multiple sets of P -values through composed hypothesis testing. Bioinformatics, 1 (38) 141-148
• Mazé A., Calabuig Domenech A., Goldringer I. . (2021) Restoring cultivated agrobiodiversity: The political ecology of knowledge networks between local peasant seed groups in France. Ecological Economics, (179) 106821
• Meguerditchian C., Ergun A., Decroocq V., Lefebvre M., Bui QT.. (2021) Pipeline to detect the relationship between transposable elements and adjacent genes in host genome. , 2021.02.25.432867
• Monnot S., Desaint H., Mary-Huard T. , Moreau L. , Schurdi-Levraud V., Boissot N.. (2021) Deciphering the Genetic Architecture of Plant Virus Resistance by GWAS, State of the Art and Potential Advances. Cells, 11 (10) 3080
• Märkle H., John S., Cornille A. , Fields PD., Tellier A.. (2021) Novel genomic approaches to study antagonistic coevolution between hosts and parasites. Mol Ecol, 15 (30) 3660-3676
• Nicoud Q., Lamouche F., Chaumeret A., Balliau T. , Le Bars R., Bourge M., Pierre F., Guérard F., Sallet E., Tuffigo S., Pierre O., Dessaux Y., Gilard F., Gakière B., Nagy I., Kereszt A., Zivy M., Mergaert P., Gourion B., Alunni B., Heck M., Griffitts J.. (2021) Bradyrhizobium diazoefficiens USDA110 Nodulation of Aeschynomene afraspera Is Associated with Atypical Terminal Bacteroid Differentiation and Suboptimal Symbiotic Efficiency. mSystems, 3 (6) e01237-20
• Olvera-Vazquez SG., Alhmedi A., Miñarro M., Shykoff JA., Marchadier É. , Rousselet A. , Remoué C. , Gardet R., Degrave A., Robert P., Chen X. , Porchier J., Giraud T., Vander-Mijnsbrugee K., Raffoux X., Falque M. , Alins G., Didelot F., Beliën T., Dapena E., Lemarquand A., Cornille A. . (2021) Experimental test for local adaptation of the rosy apple aphid (Dysaphis plantaginea) to its host (Malus domestica) and to its climate in Europe. PCI Ecology, (Pre-registration version)
• Olvera-Vazquez SG., Remoué C. , Venon A. , Rousselet A. , Grandcolas O., Azrine M., Momont L., Galan M., Benoit L., David GM., Alhmedi A., Beliën T., Alins G., Franck P., Haddioui A., Jacobsen SK., Andreev R., Simon S., Sigsgaard L., Guibert E., Tournant L., Gazel F., Mody K., Khachtib Y., Roman A., Ursu TM., Zakharov IA., Belcram H. , Harry M., Roth M., Simon JC., Oram S., Ricard JM., Agnello A., Beers EH., Engelman J., Balti I., Salhi-Hannachi A., Zhang H., Tu H., Mottet C., Barrès B., Degrave A., Razmjou J., Giraud T., Falque M. , Dapena E., Miñarro M., Jardillier L., Deschamps P., Jousselin E., Cornille A. . (2021) Large-scale geography survey provides insights into the colonization history of a major aphid pest on its cultivated apple host in Europe, North America and North Africa. Peer Community Journal, (1)
• Perronne R., Dubs F., de Vallavieille-Pope C., Leconte M., du Cheyron P., Cadot V., Vidal T., Enjalbert J. . (2021) Spatiotemporal Changes in Varietal Resistance to Wheat Yellow Rust in France Reveal an Increase in Field Resistance Level During the Period 1985–2018. Phytopathology®, 9 (111) 1602-1612
• Petrizzelli MS., de Vienne D. , Nidelet T., Noûs C., Dillmann C. , Kaleta C.. (2021) Data integration uncovers the metabolic bases of phenotypic variation in yeast. PLoS Comput Biol, 7 (17) e1009157
• Plancade S., Berland M., Blein-Nicolas M. , Langella O. , Bassignani A., Juste C.. (2021) A combined test for feature selection on sparse metaproteomics data - alternative to missing value imputation. bioRxiv, 2021.06.22.449387
• Plancade S., Marchadier É. , Huet S., Ressayre A. , Noûs C., Dillmann C. . (2021) A new hypothesis-testing model for phyllochron based on a stochastic process - application to analysis of genetic and environment effects in maize. DOI.org (Crossref),
• Recorbet G., Calabrese S., Balliau T. , Zivy M., Wipf D., Boller T., Courty PE.. (2021) Proteome adaptations under contrasting soil phosphate regimes of Rhizophagus irregularis engaged in a common mycorrhizal network. Fungal Genetics and Biology, (147) 103517
• Rusconi F. . (2021) Free Open Source Software for Protein and Peptide Mass Spectrometry- based Science. CPPS, 2 (22) 134-147
• Sanané I., Legrand J. , Dillmann C. , Marion-Poll F.. (2021) High-Throughput Feeding Bioassay for Lepidoptera Larvae. J Chem Ecol, 7 (47) 642-652
• Tittes S., Lorant A., McGinty S., Holland JB., Sánchez-González JDJ., Seetharam A., Tenaillon M. , Ross-Ibarra J.. (2021) Not so local: the population genetics of convergent adaptation in maize and teosinte. DOI.org (Crossref),
• Tourrette E., Falque M. , Martin OC.. (2021) Enhancing backcross programs through increased recombination. Genet Sel Evol, 1 (53) 25
• Urrutia M., Blein-Nicolas M. , Prigent S., Bernillon S., Deborde C., Balliau T. , Maucourt M., Jacob D., Ballias P., Bénard C., Sellier H., Gibon Y., Giauffret C., Zivy M., Moing A.. (2021) Maize metabolome and proteome responses to controlled cold stress partly mimic early-sowing effects in the field and differ from those of Arabidopsis. Plant Cell Environ,
• Van Den Bossche T., Kunath BJ., Schallert K., Schäpe SS., Abraham PE., Armengaud J., Arntzen M., Bassignani A., Benndorf D., Fuchs S., Giannone RJ., Griffin TJ., Hagen LH., Halder R., Henry C., Hettich RL., Heyer R., Jagtap P., Jehmlich N., Jensen M., Juste C., Kleiner M., Langella O. , Lehmann T., Leith E., May P., Mesuere B., Miotello G., Peters SL., Pible O., Queiros PT., Reichl U., Renard BY., Schiebenhoefer H., Sczyrba A., Tanca A., Trappe K., Trezzi JP., Uzzau S., Verschaffelt P., Von Bergen M., Wilmes P., Wolf M., Martens L., Muth T.. (2021) Critical Assessment of MetaProteome Investigation (CAMPI): a multi-laboratory comparison of established workflows. Nat Commun, 1 (12) 7305
• Vindras-Fouillet C., Goldringer I. , Frank G., Dewalque M., Colin A., Montaz H., Berthellot JF., Baltassat R., Dalmasso C.. (2021) Sensory Analyses and Nutritional Qualities of Wheat Population Varieties Developed by Participatory Breeding. Agronomy, 11 (11) 2117
• İltaş Ömer., Svitok M., Cornille A. , Schmickl R., Lafon Placette C.. (2021) Early evolution of reproductive isolation: A case of weak inbreeder/strong outbreeder leads to an intraspecific hybridization barrier in Arabidopsis lyrata. Evolution, 6 (75) 1466-1476

2020

• Allier A., 2020-01, Contributions to Genetic Diversity Management in Maize Breeding Programs using Genomic Selection, Theses, Université Paris-Saclay
• Allier A., Teyssèdre S., Lehermeier C., Charcosset A. , Moreau L. . (2020) Genomic prediction with a maize collaborative panel: identification of genetic resources to enrich elite breeding programs. Theor Appl Genet, 1 (133) 201-215
• Allier A., Teyssèdre S., Lehermeier C., Moreau L. , Charcosset A. . (2020) Optimized breeding strategies to harness genetic resources with different performance levels. BMC Genomics, 1 (21) 349
• Arca M., Gouesnard B., Mary-Huard T. , Le Paslier MC., Bauland C. , Combes V. , Madur D. , Charcosset A. , Nicolas S. . (2020) Genome-wide SNP genotyping of DNA pools identifies untapped landraces and genomic regions that could enrich the maize breeding pool. DOI.org (Crossref),
• Belouah I., Bénard C., Denton A., Blein-Nicolas M. , Balliau T. , Teyssier E., Gallusci P., Bouchez O., Usadel B., Zivy M., Gibon Y., Colombié S.. (2020) Transcriptomic and proteomic data in developing tomato fruit. Data in Brief, (28) 105015
• Benoist R., Capdevielle‐Dulac C., Chantre C., Jeannette R., Calatayud PA., Drezen JM., Dupas S., Le Rouzic A., Le Ru B., Moreau L. , Van Dijk E., Kaiser L., Mougel F.. (2020) Quantitative Trait Loci involved in the reproductive success of a parasitoid wasp. Mol Ecol, mec.15567
• Berthet ET., Bosshardt S., Malicet-Chebbah L., Van Frank G., Weil B., Segrestin B., Rivière P., Bernard L., Baritaux E., Goldringer I. . (2020) Designing Innovative Management for Cultivated Biodiversity: Lessons from a Pioneering Collaboration between French Farmers, Facilitators and Researchers around Participatory Bread Wheat Breeding. Sustainability, 2 (12) 605
• Blein-Nicolas M. , Negro SS., Balliau T. , Welcker C., Cabrera-Bosquet L., Nicolas S. , Charcosset A. , Zivy M.. (2020) A systems genetics approach reveals environment-dependent associations between SNPs, protein coexpression, and drought-related traits in maize. Genome Res., 11 (30) 1593-1604
• Carrillo-Perdomo E., Vidal A., Kreplak J., Duborjal H., Leveugle M., Duarte J., Desmetz C., Deulvot C., Raffiot B., Marget P., Tayeh N., Pichon JP., Falque M. , Martin OC., Burstin J., Aubert G.. (2020) Development of new genetic resources for faba bean (Vicia faba L.) breeding through the discovery of gene-based SNP markers and the construction of a high-density consensus map. Sci Rep, 1 (10) 6790
• Carrive L., Domenech B., Sauquet H., Jabbour F., Damerval C. , Nadot S.. (2020) Insights into the ancestral flowers of Ranunculales. Botanical Journal of the Linnean Society, 1 (194) 23-46
• Castelletti S., Coupel-Ledru A., Granato I., Palaffre C., Cabrera-Bosquet L., Tonelli C., Nicolas S. , Tardieu F., Welcker C., Conti L., de Meaux J.. (2020) Maize adaptation across temperate climates was obtained via expression of two florigen genes. PLoS Genet, 7 (16) e1008882
• Chaix R., Fagny M. , Cosin-Tomás M., Alvarez-López M., Lemee L., Regnault B., Davidson RJ., Lutz A., Kaliman P.. (2020) Differential DNA methylation in experienced meditators after an intensive day of mindfulness-based practice: Implications for immune-related pathways. Brain, Behavior, and Immunity, (84) 36-44
• Chetouhi C., Masseret E., Satta CT., Balliau T. , Laabir M., Jean N.. (2020) Intraspecific variability in membrane proteome, cell growth, and morphometry of the invasive marine neurotoxic dinoflagellate Alexandrium pacificum grown in metal-contaminated conditions. Science of The Total Environment, (715) 136834
• David O., van Frank G., Goldringer I. , Rivière P., Turbet Delof M.. (2020) Bayesian inference of natural selection from spatiotemporal phenotypic data. Theoretical Population Biology, (131) 00-109
• De Oliveira Y. , Burlot L., Dawson JC., Goldringer I. , Madi D., Rivière P., Steinbach D., van Frank G., Thomas M.. (2020) SHiNeMaS: a web tool dedicated to seed lots history, phenotyping and cultural practices. Plant Methods, 1 (16) 98
• Denecker T., Zhou-Li Y., Fairhead C. , Budin K., Camadro JM., Bolotin-Fukuhara M., Angoulvant A. , Lelandais G.. (2020) Functional networks of co-expressed genes to explore iron homeostasis processes in the pathogenic yeast Candida glabrata. NAR Genomics and Bioinformatics, 2 (2) lqaa027
• Diouf I., Derivot L., Koussevitzky S., Carretero Y., Bitton F., Moreau L. , Causse M., Rebetzke G.. (2020) Genetic basis of phenotypic plasticity and genotype × environment interactions in a multi-parental tomato population. Journal of Experimental Botany, eraa265
• Espinosa F., Damerval C. , Le Guilloux M., Deroin T., Wang W., Pinedo-Castro M., Nadot S., Jabbour F.. (2020) Homeosis and delayed floral meristem termination could account for abnormal flowers in cultivars of Delphinium and Aquilegia (Ranunculaceae). Botanical Journal of the Linnean Society, boaa063
• Fagny M. , Platig J., Kuijjer ML., Lin X., Quackenbush J.. (2020) Nongenic cancer-risk SNPs affect oncogenes, tumour-suppressor genes, and immune function. Br J Cancer, 4 (122) 569-577
• Falque M. , Jebreen K., Paux E., Knaak C., Mezmouk S., Martin OC.. (2020) CNVmap: A Method and Software To Detect and Map Copy Number Variants from Segregation Data. Genetics, 3 (214) 561-576
• Goldringer I. , van Frank G., Bouvier d’Yvoire C., Forst E., Galic N. , Garnault M., Locqueville J., Pin S. , Bailly J., Baltassat R., Berthellot JF., Caizergues F., Dalmasso C., de Kochko P., Gascuel JS., Hyacinthe A., Lacanette J., Mercier F., Montaz H., Ronot B., Rivière P.. (2020) Agronomic Evaluation of Bread Wheat Varieties from Participatory Breeding: A Combination of Performance and Robustness. Sustainability, 1 (12) 128
• Hanemian M., Vasseur F., Marchadier É. , Gilbault E., Bresson J., Gy I., Violle C., Loudet O.. (2020) Natural variation at FLM splicing has pleiotropic effects modulating ecological strategies in Arabidopsis thaliana. Nat Commun, 1 (11) 4140
• Harlé O., Legrand J. , Tesnière C., Pradal M., Mouret JR., Nidelet T., Ohya Y.. (2020) Investigations of the mechanisms of interactions between four non-conventional species with Saccharomyces cerevisiae in oenological conditions. PLoS ONE, 5 (15) e0233285
• Henry V., Saïs F., Inizan O., Marchadier É. , Dibie J., Goelzer A., Fromion V.. (2020) BiPOm: a rule-based ontology to represent and infer molecule knowledge from a biological process-centered viewpoint. BMC Bioinformatics, 1 (21) 327
• Kilani J., Davanture M. , Simon A., Zivy M., Fillinger S.. (2020) Comparative quantitative proteomics of osmotic signal transduction mutants in Botrytis cinerea explain mutant phenotypes and highlight interaction with cAMP and Ca2+ signalling pathways. Journal of Proteomics, (212) 103580
• Le Corre V., Siol M., Vigouroux Y., Tenaillon M. , Délye C.. (2020) Adaptive introgression from maize has facilitated the establishment of a teosinte as a noxious weed in Europe. Proc. Natl. Acad. Sci. U.S.A., 41 (117) 25618-25627
• Lopes-Ramos CM., Chen X. , Kuijjer ML., Paulson JN., Sonawane AR., Fagny M. , Platig J., Glass K., Quackenbush J., DeMeo DL.. (2020) Sex Differences in Gene Expression and Regulatory Networks across 29 Human Tissues. Cell Reports, 12 (31) 107795
• Lopez Arias DC., Chastellier A., Thouroude T., Bradeen J., Van Eck L., De Oliveira Y. , Paillard S., Foucher F., Hibrand-Saint Oyant L., Soufflet-Freslon V.. (2020) Characterization of black spot resistance in diploid roses with QTL detection, meta-analysis and candidate-gene identification. Theor Appl Genet,
• Lorant A., Ross-Ibarra J., Tenaillon M. , Dutheil JY.. (2020) Genomics of Long- and Short-Term Adaptation in Maize and Teosintes. Springer Link, 289-311
• Luo J., Havé M., Clément G., Tellier F., Balliau T. , Launay-Avon A., Guérard F., Zivy M., Masclaux-Daubresse C.. (2020) Integrating multiple omics to dissect the common and specific molecular changes occurring in Arabidopsis thaliana (L.) under nitrate and sulfate chronic limitations. Journal of Experimental Botany, eraa337
• Maroc L. , Zhou-Li Y., Boisnard S., Fairhead C. , Heitman J.. (2020) A single Ho-induced double-strand break at the MAT locus is lethal in Candida glabrata. PLoS Genet, 10 (16) e1008627
• Mazé A., Calabuig Domenech A., Goldringer I. . (2020) Commoning the seeds: alternative models of collective action and open innovation within French peasant seed groups for recreating local knowledge commons. Agric Hum Values,
• Rio S., Moreau L. , Charcosset A. , Mary-Huard T. . (2020) Accounting for Group-Specific Allele Effects and Admixture in Genomic Predictions: Theory and Experimental Evaluation in Maize. Genetics, 1 (216) 27-41
• Rio S., Mary-Huard T. , Moreau L. , Bauland C. , Palaffre C., Madur D. , Combes V. , Charcosset A. , Springer NM.. (2020) Disentangling group specific QTL allele effects from genetic background epistasis using admixed individuals in GWAS: An application to maize flowering. PLoS Genet, 3 (16) e1008241
• Sanane I., 20 octobre 2020, Composantes de la dynamique de l’interaction entre le maïs et les insectes lépidoptères foreurs de tige, PhD thesis, Université Paris-Saclay
• Saux M., Ponnaiah M., Langlade N., Zanchetta C., Balliau T. , El‐Maarouf‐Bouteau H., Bailly C.. (2020) A multiscale approach reveals regulatory players of water stress responses in seeds during germination. Plant Cell Environ, 5 (43) 1300-1313
• Seye AI., Bauland C. , Charcosset A. , Moreau L. . (2020) Revisiting hybrid breeding designs using genomic predictions: simulations highlight the superiority of incomplete factorials between segregating families over topcross designs. Theor Appl Genet, 6 (133) 1995-2010
• Tcherkez G., Carroll A., Abadie C., Mainguet S., Davanture M. , Zivy M.. (2020) Protein synthesis increases with photosynthesis via the stimulation of translation initiation. Plant Science, (291) 110352
• Zhou Li Y., Boisnard S., Enache‐Angoulvant A., Fairhead C. . (2020) Genome editing in the yeast Nakaseomyces delphensis and description of its complete sexual cycle. Yeast, yea.3522
• de Vienne D. , Fiévet J. . (2020) The Pitfalls of Heterosis Coefficients. Plants, 7 (9) 875
• van Frank G., Rivière P., Pin S. , Baltassat R., Berthellot JF., Caizergues F., Dalmasso C., Gascuel JS., Hyacinthe A., Mercier F., Montaz H., Ronot B., Goldringer I. . (2020) Genetic Diversity and Stability of Performance of Wheat Population Varieties Developed by Participatory Breeding. Sustainability, 1 (12) 384

2019

• Aguirre‐Liguori JA., Gaut BS., Jaramillo‐Correa JP., Tenaillon M. , Montes‐Hernández S., García‐Oliva F., Hearne SJ., Eguiarte LE.. (2019) Divergence with gene flow is driven by local adaptation to temperature and soil phosphorus concentration in teosinte subspecies (Zea mays parviglumis and Zea mays mexicana ). Mol Ecol, 11 (28) 2814-2830
• Allier A., Teyssèdre S., Lehermeier C., Claustres B., Maltese S., Melkior S., Moreau L. , Charcosset A. . (2019) Assessment of breeding programs sustainability: application of phenotypic and genomic indicators to a North European grain maize program. Theor Appl Genet, 5 (132) 1321-1334
• Allier A., Lehermeier C., Charcosset A. , Moreau L. , Teyssèdre S.. (2019) Improving Short- and Long-Term Genetic Gain by Accounting for Within-Family Variance in Optimal Cross-Selection. Front. Genet., (10) 1006
• Allier A., Moreau L. , Charcosset A. , Teyssèdre S., Lehermeier C.. (2019) Usefulness Criterion and Post-selection Parental Contributions in Multi-parental Crosses: Application to Polygenic Trait Introgression. G3: Genes, Genomes, Genetics, 5 (9) 1469-1479
• Bancel E., Bonnot T., Davanture M. , Alvarez D., Zivy M., Martre P., Déjean S., Ravel C.. (2019) Proteomic Data Integration Highlights Central Actors Involved in Einkorn (Triticum monococcum ssp. monococcum) Grain Filling in Relation to Grain Storage Protein Composition. Front. Plant Sci., (10) 832
• Belouah I., Nazaret C., Pétriacq P., Prigent S., Bénard C., Mengin V., Blein-Nicolas M. , Denton AK., Balliau T. , Augé S., Bouchez O., Mazat JP., Stitt M., Usadel B., Zivy M., Beauvoit B., Gibon Y., Colombié S.. (2019) Modeling Protein Destiny in Developing Fruit. Plant Physiology, 3 (180) 1709-1724
• Belouah I., Blein-Nicolas M. , Balliau T. , Gibon Y., Zivy M., Colombié S.. (2019) Peptide filtering differently affects the performances of XIC-based quantification methods. J Proteomics, (193) 131-141
• Bienvenut W. V. , 2 décembre 2019, Des débuts de la protéomique à l'acétylation N-terminale des protéines chez les plantes, HDR, Université Paris Saclay
• Boussardon C., Martin-Magniette ML., Godin B., Benamar A., Vittrant B., Citerne S., Mary-Huard T. , Macherel D., Rajjou L., Budar F.. (2019) Novel Cytonuclear Combinations Modify Arabidopsis thaliana Seed Physiology and Vigor. Front Plant Sci, (10) 32
• Carreté L., Ksiezopolska E., Gómez-Molero E., Angoulvant A. , Bader O., Fairhead C. , Gabaldón T.. (2019) Genome Comparisons of Candida glabrata Serial Clinical Isolates Reveal Patterns of Genetic Variation in Infecting Clonal Populations. Frontiers in Microbiology, (10) 112
• Chauffour F., Bailly M., Perreau F., Cueff G., Suzuki H., Collet B., Frey A., Clément G., Soubigou-Taconnat L., Balliau T. , Krieger-Liszkay A., Rajjou L., Marion-Poll A.. (2019) Multi-omics Analysis Reveals Sequential Roles for ABA during Seed Maturation. Plant Physiol., 2 (180) 1198-1218
• Cornille A. , Antolín F., Garcia E., Vernesi C., Fietta A., Brinkkemper O., Kirleis W., Schlumbaum A., Roldán-Ruiz I.. (2019) A Multifaceted Overview of Apple Tree Domestication. Trends in Plant Science, 8 (24) 770 - 782
• Courret C., Gérard P. , Ogereau D., Falque M. , Moreau L. , Montchamp-Moreau C.. (2019) X-chromosome meiotic drive in Drosophila simulans: a QTL approach reveals the complex polygenic determinism of Paris drive suppression. Heredity, 6 (122) 906-915
• Cuello, C., Baldy, A., Brunaud, V., Joets, J., Jacquemot, M.P., Coursol, S.. (2019) A systems biology approach uncovers a gene co-expression network associated with cell wall degradability in maize. PlosOne, 12 (14) e0227011
• Cui J., Davanture M. , Zivy M., Lamade E., Tcherkez G.. (2019) Metabolic responses to potassium availability and waterlogging reshape respiration and carbon use efficiency in oil palm. New Phytologist, 1 (223) 310-322
• Damerval C. , Citerne H., Conde e Silva N. , Deveaux Y. , Delannoy E., Joets J. , Simonnet F., Staedler Y., Schönenberger J., Yansouni J., Le Guilloux M., Sauquet H., Nadot S.. (2019) Unraveling the Developmental and Genetic Mechanisms Underpinning Floral Architecture in Proteaceae. Front Plant Sci, (10) 18
• Duruflé H., Ranocha P., Balliau T. , Dunand C., Jamet E.. (2019) Transcriptomic and cell wall proteomic datasets of rosettes and floral stems from five Arabidopsis thaliana ecotypes grown at optimal or sub-optimal temperature. Data in Brief, (27) 104581
• Fairhead C. , Fischer G., Liti G., Neuveglise C., Schacherer J.. (2019) Andre Goffeau's imprinting on second generation yeast "genomologists". Yeast, 4 (36) 167-175
• Forst E., Enjalbert J. , Allard V., Ambroise C., Krissaane I., Mary-Huard T. , Robin S., Goldringer I. . (2019) A generalized statistical framework to assess mixing ability from incomplete mixing designs using binary or higher order variety mixtures and application to wheat. Field Crops Research, (242) 107571
• Fustier MA., Martínez-Ainsworth NE., Aguirre-Liguori JA., Venon A. , Corti H., Rousselet A. , Dumas F. , Dittberner H., Camarena MG., Grimanelli D., Ovaskainen O., Falque M. , Moreau L. , Meaux J., Montes-Hernández S., Eguiarte LE., Vigouroux Y., Manicacci D. , Tenaillon M. . (2019) Common gardens in teosintes reveal the establishment of a syndrome of adaptation to altitude. PLOS Genetics, 12 (15) e1008512
• Gabaldón T., Fairhead C. . (2019) Genomes shed light on the secret life of Candida glabrata: not so asexual, not so commensal. Curr. Genet., 1 (65) 93-98
• Hartmann FE., Rodríguez de la Vega RC., Carpentier F., Gladieux P., Cornille A. , Hood ME., Giraud T.. (2019) Understanding Adaptation, Coevolution, Host Specialization, and Mating System in Castrating Anther-Smut Fungi by Combining Population and Comparative Genomics. Annu. Rev. Phytopathol., 1 (57) annurev-phyto-082718-095947
• Havé M., Luo J., Tellier F., Balliau T. , Cueff G., Chardon F., Zivy M., Rajjou L., Cacas JL., Masclaux‐Daubresse C.. (2019) Proteomic and lipidomic analyses of the Arabidopsis atg5 autophagy mutant reveal major changes in ER and peroxisome metabolisms and in lipid composition. New Phytol, 3 (223) 1461-1477
• Henry C., Haller L., Blein-Nicolas M. , Zivy M., Canette A., Verbrugghe M., Mézange C., Boulay M., Gardan R., Samson S., Martin V., André-Leroux G., Monnet V.. (2019) Identification of Hanks-Type Kinase PknB-Specific Targets in the Streptococcus thermophilus Phosphoproteome. Front. Microbiol., (10) 1329
• Jebreen K., Petrizzelli M., Martin OC.. (2019) Probabilities of Multilocus Genotypes in SIB Recombinant Inbred Lines. Front. Genet., (10) 833
• Kreplak J., Madoui MA., Cápal P., Novák P., Labadie K., Aubert G., Bayer PE., Gali KK., Syme RA., Main D., Klein A., Bérard A., Vrbová I., Fournier C., d’Agata L., Belser C., Berrabah W., Toegelová H., Milec Z., Vrána J., Lee HT., Kougbeadjo A., Térézol M., Huneau C., Turo CJ., Mohellibi N., Neumann P., Falque M. , Gallardo K., McGee R., Tar’an B., Bendahmane A., Aury JM., Batley J., Le Paslier MC., Ellis N., Warkentin TD., Coyne CJ., Salse J., Edwards D., Lichtenzveig J., Macas J., Doležel J., Wincker P., Burstin J.. (2019) A reference genome for pea provides insight into legume genome evolution. Nat Genet, 9 (51) 1411-1422
• Lecarpentier C., Barillot R., Blanc E., Abichou M., Goldringer I. , Barbillon P., Enjalbert J. , Andrieu B.. (2019) WALTer: a three-dimensional wheat model to study competition for light through the prediction of tillering dynamics. Ann Bot, 6 (123) 961-975
• Liu S., Cornille A. , Decroocq S., Tricon D., Chague A., Eyquard JP., Liu WS., Giraud T., Decroocq V.. (2019) The complex evolutionary history of apricots: species divergence, gene flow and multiple domestication events. Mol Ecol, mec.15296
• Mabire C., 2019-04, Contribution des variations structurales de type insertions/délétions à l'adaptation, la variation des caractères et les performances hybrides chez le maïs, Theses, Université Paris Saclay (COmUE)
• Mabire C., Duarte J., Darracq A., Pirani A., Rimbert H., Madur D. , Combes V. , Vitte C. , Praud S., Rivière N., Joets J. , Pichon JP., Nicolas S. . (2019) High throughput genotyping of structural variations in a complex plant genome using an original Affymetrix® axiom® array. BMC Genomics, 1 (20) 848
• Mangin B., Rincent R. , Rabier CE., Moreau L. , Goudemand-Dugue E.. (2019) Training set optimization of genomic prediction by means of EthAcc. PLOS ONE, 2 (14) e0205629
• Maroc L. , Fairhead C. . (2019) A new inducible CRISPR‐Cas9 system useful for genome editing and study of double‐strand break repair in Candida glabrata. Yeast, 12 (36) 723-731
• Martinez Palacios P., Jacquemot MP., Tapie M., Rousselet A. , Diop M., Remoué C. , Falque M. , Lloyd A., Jenczewski E., Lassalle G., Chévre AM., Lelandais C., Crespi M., Brabant P., Joets J. , Alix K. . (2019) Assessing the Response of Small RNA Populations to Allopolyploidy Using Resynthesized Brassica napus Allotetraploids. Mol Biol Evol, 4 (36) 709-726
• Martínez Ainsworth NE., 2019-10, Characterizing the genomic determinants and phenotypic responses to altitudinal adaptation in teosintes (Zea mays ssp. parviglumis and ssp. mexicana), Theses, Université Paris Saclay (COmUE)
• Mascher M., Schreiber M., Scholz U., Graner A., Reif JC., Stein N.. (2019) Genebank genomics bridges the gap between the conservation of crop diversity and plant breeding. Nat Genet, 7 (51) 1076-1081
• Millet EJ., Kruijer W., Coupel-Ledru A., Prado SA., Cabrera-Bosquet L., Lacube S., Charcosset A. , Welcker C., Eeuwijk F., Tardieu F.. (2019) Genomic prediction of maize yield across European environmental conditions. Nat Genet, 6 (51) 952-956
• Negro SS., Millet EJ., Madur D. , Bauland C. , Combes V. , Welcker C., Tardieu F., Charcosset A. , Nicolas S. . (2019) Genotyping-by-sequencing and SNP-arrays are complementary for detecting quantitative trait loci by tagging different haplotypes in association studies. BMC Plant Biol., 1 (19) 318
• Peace CP., Bianco L., Troggio M., van de Weg E., Howard NP., Cornille A. , Durel CE., Myles S., Migicovsky Z., Schaffer RJ., Costes E., Fazio G., Yamane H., van Nocker S., Gottschalk C., Costa F., Chagné D., Zhang X., Patocchi A., Gardiner SE., Hardner C., Kumar S., Laurens F., Bucher E., Main D., Jung S., Vanderzande S.. (2019) Apple whole genome sequences: recent advances and new prospects. Hortic Res, 1 (6) 59
• Petrizzelli M., de Vienne D. , Dillmann C. . (2019) Decoupling the Variances of Heterosis and Inbreeding Effects Is Evidenced in Yeast’s Life-History and Proteomic Traits. Genetics, 2 (211) 741-756
• Petrizzelli M., 2019-07, Mathematical modelling and integration of complex biological data : analysis of the heterosis phenomenon in yeast, Theses, Université Paris Saclay (COmUE)
• Rio S., 2019-04, Contributions to genomic selection and association mapping in structured and admixed populations : application to maize, Theses, Université Paris Saclay (COmUE)
• Rio S., Mary-Huard T. , Moreau L. , Charcosset A. . (2019) Genomic selection efficiency and a priori estimation of accuracy in a structured dent maize panel. Theor Appl Genet, 1 (132) 81-96
• Ruhsam M., Jessop W., Cornille A. , Renny J., Worrell R.. (2019) Crop-to-wild introgression in the European wild apple Malus sylvestris in Northern Britain. Forestry (Lond), 1 (92) 85-96
• Rusconi F. . (2019) mineXpert: Biological Mass Spectrometry Data Visualization and Mining with Full JavaScript Ability. J. Proteome Res., 5 (18) 2254-2259
• Scarcelli N., Cubry P., Akakpo R., Thuillet AC., Obidiegwu J., Baco MN., Otoo E., Sonké B., Dansi A., Djedatin G., Mariac C., Couderc M., Causse S., Alix K. , Chaïr H., François O., Vigouroux Y.. (2019) Yam genomics supports West Africa as a major cradle of crop domestication. Sci. Adv., 5 (5) eaaw1947
• Seye AI., 2019-03, Prédiction assistée par marqueurs de la performance hybride dans un schéma de sélection réciproque : simulations et évaluation expérimentale pour le maïs ensilage, Theses, Université Paris Saclay (COmUE)
• Seye AI., Bauland C. , Giraud H., Mechin V., Reymond M., Charcosset A. , Moreau L. . (2019) Quantitative trait loci mapping in hybrids between Dent and Flint maize multiparental populations reveals group-specific QTL for silage quality traits with variable pleiotropic effects on yield. Theor Appl Genet, 5 (132) 1523-1542
• Srisuwan S., Sihachakr D., Martin J., Valles J., Ressayre A. , Brown SC., Siljak-Yakovlev S.. (2019) Change in nuclear DNA content and pollen size with polyploidisation in the sweet potato (Ipomoea batatas, Convolvulaceae) complex. Plant Biol (Stuttg), 2 (21) 237-247
• Tenaillon M. , Seddiki K., Mollion M., Guilloux ML., Marchadier É. , Ressayre A. , Dillmann C. . (2019) Transcriptomic response to divergent selection for flowering times reveals convergence and key players of the underlying gene regulatory network. bioRxiv, 461947
• Termolino P., Falque M. , Aiese Cigliano R., Cremona G., Paparo R., Ederveen A., Martin OC., Consiglio FM., Conicella C.. (2019) Recombination suppression in heterozygotes for a pericentric inversion induces the interchromosomal effect on crossovers in Arabidopsis. Plant J, 6 (100) 1163-1175
• Tourrette E., Bernardo R., Falque M. , Martin OC.. (2019) Assessing by Modeling the Consequences of Increased Recombination in Recurrent Selection of Oryza sativa and Brassica rapa. G3, 12 (9) 4169-4181
• Tourrette E., 25 novembre 2019, Unleashing genetic diversity in breeding by increasing recombination: an in silico study, PhD Thesis, Université de Paris-Diderot
• Urien C., Legrand J. , Montalent P. , Casaregola S., Sicard D.. (2019) Fungal Species Diversity in French Bread Sourdoughs Made of Organic Wheat Flour. Front. Microbiol., (10) 201
• Vasseur F., Fouqueau L., de Vienne D. , Nidelet T., Violle C., Weigel D.. (2019) Nonlinear phenotypic variation uncovers the emergence of heterosis in Arabidopsis thaliana. PLoS Biol, 4 (17) e3000214
• Virlouvet L., El Hage F., Griveau Y., Jacquemot MP., Gineau E., Baldy A., Legay S., Horlow C., Combes V. , Bauland C. , Palafre C., Falque M. , Moreau L. , Coursol S., Méchin V., Reymond M.. (2019) Water Deficit-Responsive QTLs for Cell Wall Degradability and Composition in Maize at Silage Stage. Front. Plant Sci., (10) 488
• Volk GM., Cornille A. , Korban SS.. (2019) Genetic Diversity and Domestication History in Pyrus. Springer Link, 51-62
• van Frank G., Goldringer I. , Rivière P., David O.. (2019) Influence of experimental design on decentralized, on-farm evaluation of populations: a simulation study. Euphytica, 7 (215) 126

2018

• Adenot P., Bansard S., Benaben D., Brunaud V., Caron C., Dehne Garcia A., Duperier C., Falce A. , Filangi O., Giacomoni F., Granier F., Grevet P., Guilhot N., Hofstetter A., Joets J. , Hotelier T., Langella O. , Legrand J. , LOAEC M., Lollier V., Moreau L. , Morin E., Quesneville H., Rabemanantsoa T., Salin G., Tessier D.. (2018) AgroDataRing: Une infrastructure partagée et mutualisée pour le stockage longue durée. Cahier des Techniques de l'INRA, 1-7
• Akakpo R., 2018-05-16 16/05/18, Étude de la domestication et de l’adaptation de l’igname (Dioscorea spp) en Afrique par des approches génomiques, PhD thesis, Université Paris-Saclay
• Alaux M., Rogers J., Letellier T., Flores R., Alfama F., Pommier C., Mohellibi N., Durand S., Kimmel E., Michotey C., Guerche C., Loaec M., Lainé M., Steinbach D., Choulet F., Rimbert H., Leroy P., Guilhot N., Salse J., Feuillet C., Paux E., Eversole K., Adam-Blondon AF., Quesneville H., International Wheat Genome Sequencing Consortium. (2018) Linking the International Wheat Genome Sequencing Consortium bread wheat reference genome sequence to wheat genetic and phenomic data. Genome Biol, 1 (19) 111
• Albert B., Ressayre A. , Dillmann C. , Carlson AL., Swanson RJ., Gouyon PH., Dobritsa AA.. (2018) Effect of aperture number on pollen germination, survival and reproductive success in Arabidopsis thaliana. Ann. Bot., 4 (121) 733-740
• Ali B. , Sharma S., Leconte M., Shah SJA., Duveiller E., Enjalbert J. , Vallavieille‐Pope C.. (2018) Low pathotype diversity in a recombinant Puccinia striiformis population through convergent selection at the eastern Himalayan centre of diversity (Nepal). Plant Pathology, 4 (67) 810-820
• Aloui A., Recorbet G., Lemaître-Guillier C., Mounier A., Balliau T. , Zivy M., Wipf D., Dumas-Gaudot E.. (2018) The plasma membrane proteome of Medicago truncatula roots as modified by arbuscular mycorrhizal symbiosis. Mycorrhiza, 1 (28) 1-16
• Balliau T. , Blein-Nicolas M. , Zivy M.. (2018) Evaluation of Optimized Tube-Gel Methods of Sample Preparation for Large-Scale Plant Proteomics. Proteomes, 1 (6) 6
• Bennetzen J., Flint-Garcia S., Hirsch C., Tuberosa R., Joets J. , Vitte C. , Charcosset A. . (2018) Draft Assembly of the F2 European Maize Genome Sequence and Its Comparison to the B73 Genome Sequence: A Characterization of Genotype-Specific Regions. DOI.org (Crossref), 3-12
• Berrabah F., Balliau T. , Ait-Salem EH., George J., Zivy M., Ratet P., Gourion B.. (2018) Control of the ethylene signaling pathway prevents plant defenses during intracellular accommodation of the rhizobia. The New phytologist, 1 (219) 310-323
• Bichang'a G., Da Lage JL., Capdevielle-Dulac C., Zivy M., Balliau T. , Sambai K., Le Ru B., Kaiser L., Juma G., Maina ENM., Calatayud PA.. (2018) alpha-Amylase Mediates Host Acceptance in the Braconid Parasitoid Cotesia flavipes. J Chem Ecol, 11 (44) 1030-1039
• Borg J., Kiær LP., Lecarpentier C., Goldringer I. , Gauffreteau A., Saint-Jean S., Barot S., Enjalbert J. . (2018) Unfolding the potential of wheat cultivar mixtures: A meta-analysis perspective and identification of knowledge gaps. Field Crops Res, (221) 298-313
• Carbonetto B., Ramsayer J., Nidelet T., Legrand J. , Sicard D.. (2018) Bakery yeasts, a new model for studies in ecology and evolution. Yeast, 11 (35) 591-603
• Carrete L., Ksiezopolska E., Pegueroles C., Gomez-Molero E., Saus E., Iraola-Guzman S., Loska D., Bader O., Fairhead C. , Gabaldon T.. (2018) Patterns of Genomic Variation in the Opportunistic Pathogen Candida glabrata Suggest the Existence of Mating and a Secondary Association with Humans. Current biology : CB, 1 (28) 15-27 e7
• Collot D., Nidelet T., Ramsayer J., Martin OC., Meleard S., Dillmann C. , Sicard D., Legrand J. . (2018) Feedback between environment and traits under selection in a seasonal environment: consequences for experimental evolution. Proceedings. Biological sciences, 1876 (285)
• Collot D., 2018-06-19 19/06/18, Modélisation des dynamiques adaptatives de la levure de boulanger S. cerevisae dans un environnement saisonnier, PhD thesis, Université Paris-Saclay
• Damerval C. , Othman WB., Manicacci D. , Jabbour F.. (2018) Distribution area of the two floral morphs of Nigella damascena L. (Ranunculaceae): A diachronic study using herbarium specimens collected in France. Botany Letters, 3-4 (165) 396-403
• Dard-Dascot C., Naquin D., d'Aubenton-Carafa Y., Alix K. , Thermes C., van Dijk E.. (2018) Systematic comparison of small RNA library preparation protocols for next-generation sequencing. BMC genomics, 1 (19) 118
• Darracq A., Vitte C. , Nicolas S. , Duarte J., Pichon JP., Mary-Huard T. , Chevalier C., Bérard A., Le Paslier MC., Rogowsky P., Charcosset A. , Joets J. . (2018) Sequence analysis of European maize inbred line F2 provides new insights into molecular and chromosomal characteristics of presence/absence variants. BMC Genomics, 1 (19) 119
• Fiévet J. , Nidelet T., Dillmann C. , de Vienne D. . (2018) Heterosis Is a Systemic Property Emerging From Non-linear Genotype-Phenotype Relationships: Evidence From in Vitro Genetics and Computer Simulations. Front. Genet., (9)
• Forst E., 2018-03, Développement de méthodes d'estimation de l'aptitude au mélange pour la prédiction des performances et la sélection de mélanges variétaux chez le blé tendre, et co-conception d'idéotypes de mélanges adaptés à l'agriculture biologique, Theses, Université Paris Saclay (COmUE)
• Grigolon S., Bravi B., Martin OC.. (2018) Responses to auxin signals: an operating principle for dynamical sensitivity yet high resilience. Royal Society Open Science, 1 (5) 172098
• Havé M., Balliau T. , Cottyn-Boitte B., Dérond E., Cueff G., Soulay F., Lornac A., Reichman P., Dissmeyer N., Avice JC., Gallois P., Rajjou L., Zivy M., Masclaux-Daubresse C.. (2018) Increases in activity of proteasome and papain-like cysteine protease in Arabidopsis autophagy mutants: back-up compensatory effect or cell-death promoting effect?. J Exp Bot, 6 (69) 1369-1385
• Käfer J., Betancourt A., Villain AS., Fernandez M., Vignal C., Marais GAB., Tenaillon M. . (2018) Progress and Prospects in Gender Visibility at SMBE Annual Meetings. Genome Biol Evol, 3 (10) 901-908
• Lamichhane JR., Arseniuk E., Boonekamp P., Czembor J., Decroocq V., Enjalbert J. , Finckh MR., Korbin M., Koppel M., Kudsk P., Mesterhazy A., Sosnowska D., Zimnoch‐Guzowska E., Messéan A.. (2018) Advocating a need for suitable breeding approaches to boost integrated pest management: a European perspective. Pest Management Science, 6 (74) 1219-1227
• Laporte F., 2018-03-13 13/03/18, Développement de méthodes statistiques pour l’identification de gènes d’intérêt en présence d’apparentement et de dominance, application à la génétique du maïs, PhD thesis, Université Paris-Saclay
• Lorant A., Ross-Ibarra J., Tenaillon M. , Dutheil JY.. (2018) Genomics of long- and short- term adaptation in maize and teosintes. , (accepted) in press
• Lorant A., 2018-03, Plasticity and genetic adaptation as contributors to the evolutionary history of cultivated maize and its wild relatives, Theses, Université Paris Saclay (COmUE)
• Odonkor S., Choi S., Chakraborty D., Martinez-Bello L., Wang X., Bahri BA., Tenaillon M. , Panaud O., Devos KM.. (2018) QTL Mapping Combined With Comparative Analyses Identified Candidate Genes for Reduced Shattering in Setaria italica. Front. Plant Sci., (9)
• Perronne R., Goldringer I. . (2018) Application of a partitioning procedure based on Rao quadratic entropy index to characterize the temporal evolution of in situ varietal and genetic diversity of bread wheat in France over the period 1981–2006. Theor Appl Genet, 4 (131) 775-786
• Raffoux X., 2018-11, Diversité et déterminisme génétique de la recombinaison méiotique chez Saccharomyces cerevisiae, Theses, Université Paris Saclay (COmUE)
• Raffoux X., Bourge M., Dumas F. , Martin OC., Falque M. . (2018) High-throughput measurement of recombination rates and genetic interference in Saccharomyces cerevisiae. Yeast, 6 (35) 431-442
• Raffoux X., Bourge M., Dumas F. , Martin OC., Falque M. . (2018) Role of Cis, Trans, and Inbreeding Effects on Meiotic Recombination in Saccharomyces cerevisiae. Genetics, 4 (210) 1213-1226
• Richard MMS., Gratias A., Thareau V., Kim KD., Balzergue S., Joets J. , Jackson SA., Geffroy V.. (2018) Genomic and epigenomic immunity in common bean: the unusual features of NB-LRR gene family. DNA Res, 2 (25) 161-172
• Senghor Y., Guitard J., Angoulvant A. , Hennequin C.. (2018) Cryptococcal antigen detection in broncho-alveolar lavage fluid. Med Mycol, 6 (56) 774-777
• van Frank G., 2018-12, Gestion participative de la diversité cultivée et création de mélanges diversifiés de blé tendre à la ferme, Theses, Université Paris Saclay (COmUE)

2017

• Adam-Blondon AF., 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., van Dijk ADJ.. (2017) Mining Plant Genomic and Genetic Data Using the GnpIS Information System. , (1533) 103-117
• Aguirre‐Liguori JA., Tenaillon M. , Vázquez‐Lobo A., Gaut BS., Jaramillo‐Correa JP., Montes‐Hernandez S., Souza V., Eguiarte LE.. (2017) Connecting genomic patterns of local adaptation and niche suitability in teosintes. Molecular Ecology, 16 (26) 4226-4240
• Akakpo R., Scarcelli N., Chaïr H., Dansi A., Djedatin G., Thuillet AC., Rhoné B., François 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, 1 (18) 782
• Alix K. , Gérard P. , Schwarzacher T., Heslop-Harrison JSP.. (2017) Polyploidy and interspecific hybridization: partners for adaptation, speciation and evolution in plants. Ann Bot, 2 (120) 183-194
• Angoulvant A. , ANOFEL ., Houzé S., Botterel-Chartier F.. (2017) Examen mycologique des prélèvements respiratoires (chap 9). , 129 -139
• Baldy A., Jacquemot MP., 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. American Journal of Plant Sciences, (08) 1449
• Barot S., Allard V., Cantarel A., Enjalbert J. , Gauffreteau A., Goldringer I. , Lata JC., Le Roux X., Niboyet A., Porcher E.. (2017) Designing mixtures of varieties for multifunctional agriculture with the help of ecology. A review. Agron. Sustain. Dev., 2 (37) 13
• Bedoya CA., Dreisigacker S., Hearne S., Franco J., Mir C., Prasanna BM., Taba S., Charcosset A. , Warburton ML.. (2017) Genetic diversity and population structure of native maize populations in Latin America and the Caribbean. PLoS One, 4 (12)
• Bolotin-Fukuhara M.. (2017) Thirty years of the HAP2/3/4/5 complex. Biochim Biophys Acta Gene Regul Mech, 5 (1860) 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. The Plant Journal, 5 (91) 894-910
• 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), 3 (118) 249-259
• Brandenburg JT., Mary-Huard T. , Rigaill G., Hearne SJ., Corti H., Joets J. , Vitte C. , Charcosset A. , Nicolas S. , Tenaillon M. . (2017) Independent introductions and admixtures have contributed to adaptation of European maize and its American counterparts. PLOS Genetics, 3 (13) e1006666
• Brault V., Delattre M., Lebarbier E., Mary‐Huard T., Lévy‐Leduc C.. (2017) Estimating the Number of Block Boundaries from Diagonal Blockwise Matrices Without Penalization. Scandinavian Journal of Statistics, 2 (44) 563-580
• Bukreyeva I., Angoulvant A. , Bendib I., Gagnard JC., Bourhis JH., Dargère S., Bonhomme J., Thellier M., Gachot B., Wyplosz B.. (2017) Enterocytozoon bieneusi Microsporidiosis in Stem Cell Transplant Recipients Treated with Fumagillin1. Emerg Infect Dis, 6 (23) 1039-1041
• Cañas RA., Yesbergenova-Cuny Z., Simons M., Chardon F., Armengaud P., Quilleré I., Cukier C., Gibon Y., Limami AM., Nicolas S. , Brulé L., Lea PJ., Maranas CD., 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. The Plant Cell, 5 (29) 919-943
• Citerne HL., Reyes E., Le Guilloux M., Delannoy E., Simonnet F., Sauquet H., Weston PH., Nadot S., Damerval C. . (2017) Characterization of CYCLOIDEA-like genes in Proteaceae, a basal eudicot family with multiple shifts in floral symmetry. Ann Bot, 3 (119) 367-378
• Damerval C. , Jabbour F., Nadot S., Citerne HL., Nuno de la Rosa L., Müller G.. (2017) Evolution of symmetry in plants. , 1-18
• Damerval C. , Becker A.. (2017) Genetics of flower development in Ranunculales – a new, basal eudicot model order for studying flower evolution. New Phytologist, 2 (216) 361-366
• Damerval C. , Nadot S.. (2017) Letter to the 21st century botanist: “What is a flower?” 6. The evo-devo of floral symmetry. Botany Letters, 3 (164) 193-196
• Delatola EI., 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, 1 (18) 333
• Demeulenaere Élise., Rivière P., Hyacinthe A., Baltassat R., Baltazar S., Gascuel JS., Lacanette J., Montaz H., Pin S. , Ranke O., Serpolay-Besson E., Thomas M., Frank GV., Vanoverschelde M., Vindras-Fouillet C., Goldringer I. . (2017) La sélection participative à l’épreuve du changement d’échelle. À propos d’une collaboration entre paysans sélectionneurs et généticiens de terrain. Nat. Sci. Soc., 4 (25) 336-346
• Demeulenaere Élise., Goldringer I. . (2017) Semences et transition agroécologique : initiatives paysannes et sélection participative comme innovations de rupture. Nat. Sci. Soc., (25) S55-S59
• 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., 3 (90) 560-572
• Duruflé H., Hervé V., Ranocha P., Balliau T. , Zivy M., Chourré J., San Clemente H., Burlat V., Albenne C., Déjean 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 Science, (263) 183-193
• Duruflé H., Clemente HS., Balliau T. , Zivy M., Dunand C., Jamet E.. (2017) Cell wall proteome analysis of Arabidopsis thaliana mature stems. PROTEOMICS, 8 (17) 1600449
• Duruflé H., Hervé 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)
• Fustier MA., Brandenburg JT., Boitard S., Lapeyronnie J., Eguiarte LE., Vigouroux Y., Manicacci D. , Tenaillon M. . (2017) Signatures of local adaptation in lowland and highland teosintes from whole-genome sequencing of pooled samples. Molecular Ecology, 10 (26) 2738-2756
• Galland M., He D., Lounifi I., Arc E., Clément G., Balzergue S., Huguet S., Cueff G., Godin B., Collet B., Granier F., Morin H., Tran J., Valot B., Rajjou L.. (2017) An Integrated “Multi-Omics” Comparison of Embryo and Endosperm Tissue-Specific Features and Their Impact on Rice Seed Quality. Front Plant Sci, (8)
• 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: Genes, Genomes, Genetics, g3.300121.2017
• 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 QTL for General and Specific Combining Abilities in Hybrids Between Multiparental Populations from Two Maize (Zea mays L.) Heterotic Groups. Genetics, 3 (207) 1167-1180
• 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, 10 (130) 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. Aquatic Toxicology, (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., 2 (16) 494-503
• Laporte F., Charcosset A. , Mary‐Huard T.. (2017) Estimation of the relatedness coefficients from biallelic markers, application in plant mating designs. Biometrics, 3 (73) 885-894
• Larièpe A., Moreau L. , Laborde J., Bauland C. , Mezmouk S., Décousset L., Mary-Huard T. , Fiévet J. , 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., 2 (130) 403-417
• Lecarpentier C., 2017-01, Plasticité de l'architecture aérienne du blé en réponse à la compétition pour la lumière au sein de cultures pures ou d'associations variétales : caractérisation expérimentale et développement d'un modèle 3D, PhD, Université Paris Saclay
• Mary-Huard T. , 2017-06-12 06/12/17, Some contributions to statistical modeling and model selection with applications to genomics and quantitative genetics, HDR, Université Paris Sud
• Millan-Oropeza A., Henry C., Blein-Nicolas M. , Aubert-Frambourg A., Moussa F., Bleton J., Virolle MJ.. (2017) Quantitative Proteomics Analysis Confirmed Oxidative Metabolism Predominates in Streptomyces coelicolor versus Glycolytic Metabolism in Streptomyces lividans. J. Proteome Res., 7 (16) 2597-2613
• Moreau L. , 2017-06-13 13/06/17, Utilisation des marqueurs en sélection : des QTL à la Sélection Génomique, HDR, Université Paris Sud
• Negroni L., Zivy M., Lemaire C., Lacapere JJ.. (2017) Mass Spectrometry of Mitochondrial Membrane Protein Complexes. Springer Link, 233-246
• Ousseini IS., Bakasso Y., Kane NA., Couderc M., Zekraoui L., Mariac C., Manicacci D. , Rhoné 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, 2 (119) 88-94
• Pelé A., Falque M. , Trotoux G., Eber F., Nègre S., Gilet M., Huteau V., Lodé M., Jousseaume T., Dechaumet S., Morice J., Poncet C., Coriton O., Martin OC., Rousseau-Gueutin M., Chèvre AM.. (2017) Amplifying recombination genome-wide and reshaping crossover landscapes in Brassicas. PLoS Genet, 5 (13)
• Perronne R., Diguet S., 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
• Perronne R., Makowski 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
• 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, 20 (68) 5485-5495
• Renvoisé M., Bonhomme L., Davanture M. , Zivy M., Lemaire C., Tan AC., Huang PH.. (2017) Phosphoproteomic Analysis of Isolated Mitochondria in Yeast. Springer Link, 283-299
• Rincent R. , Charcosset A. , Moreau L. . (2017) Predicting genomic selection efficiency to optimize calibration set and to assess prediction accuracy in highly structured populations. Theor Appl Genet, 11 (130) 2231-2247
• Rouzet A., Reboux G., Dalphin JC., 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. Journal of Immunological Methods, (450) 58-65
• Samal A., Martin OC.. (2017) Haldane, Waddington and recombinant inbred lines: extension of their work to any number of genes. J. Genet., 5 (96) 795-800
• 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, 3 (5)

2016

• Ali B. , Soubeyrand S., Gladieux P., Giraud T., Leconte M., Gautier A., Mboup M., Chen X. , Vallavieille‐Pope C., Enjalbert J. . (2016) cloncase: Estimation of sex frequency and effective population size by clonemate resampling in partially clonal organisms. Molecular Ecology Resources, 4 (16) 845-861
• Angoulvant A. , Guitard J., Hennequin C.. (2016) Old and new pathogenic Nakaseomyces species: epidemiology, biology, identification, pathogenicity and antifungal resistance. FEMS Yeast Res, 2 (16)
• Berthouly‐Salazar C., Thuillet AC., Rhoné B., Mariac C., Ousseini IS., Couderc M., Tenaillon M. , Vigouroux Y.. (2016) Genome scan reveals selection acting on genes linked to stress response in wild pearl millet. Molecular Ecology, 21 (25) 5500-5512
• Blein-Nicolas M. , Zivy M.. (2016) Thousand and one ways to quantify and compare protein abundances in label-free bottom-up proteomics. Biochimica et Biophysica Acta (BBA) - Proteins and Proteomics, 8 (1864) 883-895
• Bolotin-Fukuhara M., Fairhead C. . (2016) Editorial: Candida glabrata, the other yeast pathogen. FEMS Yeast Res, 2 (16)
• Bougnoux ME., 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 JP., 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, 8 (60) 5088-5091
• Boutet G., Alves Carvalho S., Falque M. , Peterlongo P., Lhuillier E., Bouchez O., Lavaud C., Pilet-Nayel ML., Rivière 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)
• Cossard G., Sannier J., Sauquet H., Damerval C. , de Craene LR., Jabbour F., Nadot S.. (2016) Subfamilial and tribal relationships of Ranunculaceae: evidence from eight molecular markers. Plant Syst Evol, 4 (302) 419-431
• Desclée de Maredsous C., Oozeer R., Barbillon P., Mary-Huard T. , Delteil C., Blachier F., Tomé D., van der Beek EM., Davila AM.. (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., 1 (146) 21-29
• Dobrenel T., Mancera-Martínez E., Forzani C., Azzopardi M., Davanture M. , Moreau L. , Schepetilnikov M., Chicher J., Langella O. , Zivy M., Robaglia C., Ryabova LA., Hanson J., Meyer C.. (2016) The Arabidopsis TOR Kinase Specifically Regulates the Expression of Nuclear Genes Coding for Plastidic Ribosomal Proteins and the Phosphorylation of the Cytosolic Ribosomal Protein S6. Front Plant Sci, (7)
• Durand JL., Andrieu B., Barillot R., Barre P., Combes V. , 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
• Enjalbert J. , 2016-01-13 13/01/16, De la génétique des clones à l'agroécologie, HDR, Université Paris-Sud
• Enjalbert J. , Allard V., Andrieu B., Barot S., Borg J., Cantarel A., Feret M., Cervek C., Coleno FC., Pope De Vallavieille C., Descoureaux D., Dubs F., Galic N. , Gauffreteau A., Gilet JD., Goldringer I. , Hannachi M., Houivet G., Pin S. , Jeuffroy MH., Kerbiriou C., Labarthe P., LATA JC., LeCarpentier C., Lejars L., Lemain B., Lemarié S., Leny F., Le Roux X., Le Viol I., Montagnier C., NIBOYET A., Omon B., Piaud S., Poly F., Pommier T., Porcher E., Saint-Jean S., Salmon S., Tropée D., Vidal T.. (2016) Increasing species richness and genetic diversity in agriculture: results of the Wheatamix project. HAL Archives Ouvertes, 40 p.
• Fernandez O., Urrutia M., Bernillon S., Giauffret C., Tardieu F., Le Gouis J., Langlade N., Charcosset A. , Moing A., Gibon Y.. (2016) Fortune telling: metabolic markers of plant performance. Metabolomics, 10 (12) 158
• Fiume E., Guyon V., Remoué C. , Magnani E., Miquel M., Grain D., Lepiniec L.. (2016) TWS1, a Novel Small Protein, Regulates Various Aspects of Seed and Plant Development1[OPEN]. Plant Physiol, 3 (172) 1732-1745
• Friggens NC., Duvaux-Ponter C., Etienne MP., Mary-Huard T. , Schmidely P.. (2016) Characterizing individual differences in animal responses to a nutritional challenge: Toward improved robustness measures. Journal of Dairy Science, 4 (99) 2704-2718
• Fustier MA., 2016-06, Adaptation locale des téosintes Zea mays ssp. parviglumis et Zea mays ssp. mexicana le long de gradients altitudinaux, Theses, Université Paris Saclay (COmUE)
• Giraud H., 2016-01, Genetic analysis of hybrid value for silage maize in multiparental designs : QTL detection and genomic selection, Theses, Université Paris Saclay (COmUE)
• Hazard L., Gauffreteau A., Borg J., Charron MH., 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 OC.. (2016) Short relaxation times but long transient times in both simple and complex reaction networks. Journal of the Royal Society, Interface / the Royal Society, 120 (13)
• Herve V., Durufle H., San Clemente H., Albenne C., Balliau T. , Zivy M., Dunand C., Jamet E.. (2016) An enlarged cell wall proteome of Arabidopsis thaliana rosettes. Proteomics, 24 (16) 3183-3187
• Hosseini SR., Martin OC., Wagner A.. (2016) Phenotypic innovation through recombination in genome-scale metabolic networks. Proceedings. Biological sciences, 1839 (283)
• Jacques N., Sarilar V., Urien C., Lopes MR., Morais CG., Uetanabaro AP., Tinsley CR., Rosa CA., Sicard D., Casaregola S.. (2016) Three novel ascomycetous yeast species of the Kazachstania clade, Kazachstania saulgeensis sp. nov., Kazachstania serrabonitensis sp. nov. and Kazachstania australis sp. nov. Reassignment of Candida humilis to Kazachstania humilis f.a. comb. nov. and Candida pseudohumilis to Kazachstania pseudohumilis f.a. comb. nov. International journal of systematic and evolutionary microbiology, 12 (66) 5192-5200
• Labeyrie V., Thomas M., Muthamia ZK., Leclerc A. . (2016) Seed exchange networks, ethnicity, and sorghum diversity. Proceedings of the National Academy of Sciences of the United States of America, 1 (113) 98-103
• 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 research, 2 (16) fov112
• Levy M., Pham LL., Faye A., de Suremain N., Rambaud J., Angoulvant A. , Miatello J., Dauger S., Naudin J.. (2016) Parenteral Artesunate for Severe Imported Plasmodium falciparum Malaria in Children. The Pediatric infectious disease journal, 9 (35) 1053-4
• 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 Microbiology, Pt A (53) 41-50
• Martin OC., Krzywicki A., Zagorski M.. (2016) Drivers of structural features in gene regulatory networks: From biophysical constraints to biological function. Physics of life reviews, (17) 124-58
• Martinez-Ainsworth NE., Tenaillon M. . (2016) Superheroes and masterminds of plant domestication. Comptes rendus biologies, 7-8 (339) 268-73
• Millet E., Welcker C., Kruijer W., Negro S., Nicolas S. , Coupel-Ledru A., Bauland C. , 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 physiology, 2 (172) 749-764
• Moreau L. , Charmet G., Charcosset A. , Le Gouis J., Deretz S.. (2016) Quelle place pour la selection génomique chez les espèces de grande culture ?. ,
• Mori M., Hwa T., Martin OC., De Martino A., Marinari E.. (2016) Constrained Allocation Flux Balance Analysis. PLoS computational biology, 6 (12) 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, 3 (16) 491-503
• Nicolas S. , Peros JP., Lacombe T., Launay A., Le Paslier MC., Berard A., Mangin B., Valiere 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 biology, 1 (16) 74
• Perronne R., Hannachi M., Lemarié S., Fugeray-Scarbel A., Goldringer I. . (2016) L’évolution de la filière blé tendre en France entre 1980 et 2006: quelle influence sur la diversité cultivée ?. Notes et Etudes Socio-Economiques (NESE), (41) 83-113
• Reboud X., Sicard D., Bataillon T., Bedhomme S., Dillmann C. , Gaba S., Gallet R., Guidot A., Goldringer I. , Jasmin JN., Kaltz O., Méry F., Nidelet T., Schneider D., Spor A., Thomas F., Raymond M., Lefevre T.. (2016) Évolution expérimentale. , 755-790
• Revilla P., Rodriguez VM., Ordas A., Rincent R. , Charcosset A. , Giauffret C., Melchinger AE., Schon CC., Bauer E., Altmann T., Brunel D., Moreno-Gonzalez J., Campo L., Ouzunova M., Alvarez A., Ruiz de Galarreta JI., Laborde J., Malvar RA.. (2016) Association mapping for cold tolerance in two large maize inbred panels. BMC plant biology, 1 (16) 127
• Roux F., Mary-Huard T. , Barillot E., Wenes E., Botran L., Durand S., Villoutreix R., Martin-Magniette ML., Camilleri C., Budar F.. (2016) Cytonuclear interactions affect adaptive traits of the annual plant Arabidopsis thaliana in the field. Proceedings of the National Academy of Sciences of the United States of America, 13 (113) 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. Environmental microbiology, 1 (18) 100-17
• Solano J., Acuña I., Chauvin JE., Brabant P.. (2016) In-Vitro Evaluation of Resistance to Late Blight (Phytophthora infestans Mont. De Bary.) in Solanum Accessions Native to Chile, by Inoculation of Detached Leaflets. Am J Pl Sci, 3 (7) 581-589
• Tenaillon M. , Manicacci D. , Nicolas S. , Tardieu F., Welcker C.. (2016) Testing the link between genome size and growth rate in maize. PeerJ, (4) e2408
• Thomas M., Caillon S.. (2016) Effects of farmer social status and plant biocultural value on seed circulation networks in Vanuatu. Ecol Soc, 2 (21) 13
• Violon C., Thomas M., Garine E.. (2016) Good year, bad year: changing strategies, changing networks? A two-year study on seed acquisition in northern Cameroon. Ecol Soc, 2 (21) 34
• Walter S., Ali B. , Kemen E., Nazari K., Bahri BA., Enjalbert J. , Hansen JG., Brown JK., Sicheritz-Ponten T., Jones J., de Vallavieille-Pope C., Hovmoller MS., Justesen AF.. (2016) Molecular markers for tracking the origin and worldwide distribution of invasive strains of Puccinia striiformis. Ecology and evolution, 9 (6) 2790-804
• Wencélius J., Thomas M., Barbillon P., Garine E.. (2016) Interhousehold variability and its effects on seed circulation networks: a case study from northern Cameroon. Ecol Soc, 1 (21) 44

2015

• Angoulvant A. , Stern JB., Wittnebel S., Bourhis JH., Gachot B., Vittecoq D., Wyplosz B.. (2015) Photo quiz. Dyspnea and fever in an allogeneic stem cell recipient. Clin. Infect. Dis., 1 (60) 100, 157-158
• Badouin H., Hood ME., Gouzy J., Aguileta G., Siguenza S., Perlin MH., Cuomo CA., Fairhead C. , Branca A., Giraud T.. (2015) Chaos of Rearrangements in the Mating-Type Chromosomes of the Anther-Smut Fungus Microbotryum lychnidis-dioicae. Genetics, 4 (200) 1275-1284
• 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., 10 (14) 4432-4439
• 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) 365-376
• Bel L., Daudin JJ., Etienne M., Lebarbier E., Mary-Huard T. , Robin S., Vuillet C., Daudin JJ.. (2015) Modèle mixte, modélisation de la variance. , 162-189
• Bel L., Daudin JJ., Etienne M., Lebarbier E., Mary-Huard T. , Robin S., Vuillet C., Daudin JJ.. (2015) Plans d’expérience. , 218-246
• Blein-Nicolas M. , Albertin W., da Silva T., Valot B., Balliau T. , Masneuf-Pomarède 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, 8 (14) 2056-2071
• 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
• Chapeland-Leclerc F., Dilmaghani A., Ez-Zaki L., Boisnard S., Da Silva B., Gaslonde T., Poree FH., Ruprich-Robert G.. (2015) Systematic gene deletion and functional characterization of histidine kinase phosphorelay receptors (HKRs) in the human pathogenic fungus Aspergillus fumigatus. Fungal Genet. Biol., (84) 1-11
• Deroin T., Damerval C. , Le Guilloux M., Jabbour F.. (2015) Floral vascular patterns of the double-flowered and wild-type morphs of Nigella damascena L. (Ranunculaceae). Modern Phytomorphology, (7) 13-20
• Desclée de Maredsous C., Oosting A., Delteil C., Blachier F., Barbillon P., Mary-Huard T. , Tome D., Oozeer R., Davila AM.. (2015) High-Protein Diet during Gestation Promotes Adiposity and Food Intake in Female Rat Pups in the Longer Term. Faseb J., 1 (29)
• Durand E., Tenaillon M. , Raffoux X., Thépot 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, 1 (15) 103
• Falque M. , 2015-10-15 15/10/15, Sur les traces de la recombinaison méiotique, source de biodiversité et outil génétique, HDR, Université Paris-Sud
• Gaba S., Lescourret F., Boudsocq S., Enjalbert J. , Hinsinger P., Journet EP., Navas ML., 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, 2 (35) 607-623
• Gallais A., Editions Quae .. (2015) Pour comprendre l'amélioration des plantes. Enjeux, méthodes, objectifs et critères de sélection. ,
• Grigolon S., Sollich P., Martin OC.. (2015) Modelling the emergence of polarity patterns for the intercellular transport of auxin in plants. Journal of the Royal Society, Interface / the Royal Society, 106 (12)
• Guitard J., Atanasova R., Brossas JY., 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. Journal of clinical microbiology, 5 (53) 1655-61
• Henry A., 2015-12-17 17/12/15, Modélisation cinétique du métabolisme : construction du modèle, analyse et applications biotechnologiques, PhD thesis, Université Paris Diderot - Paris 7
• Hummel M., Dobrenel T., Cordewener JJ., Davanture M. , Meyer C., Smeekens SJ., Bailey-Serres J., America TA., Hanson J.. (2015) Proteomic LC-MS analysis of Arabidopsis cytosolic ribosomes: Identification of ribosomal protein paralogs and re-annotation of the ribosomal protein genes. Journal of proteomics, (128) 436-49
• 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, 4 (178) 608-619
• 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
• Jaureguiberry S., Thellier M., Ndour PA., 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. Emerging infectious diseases, 5 (21) 804-12
• Lanternier F., Barbati E., Meinzer U., Liu L., Pedergnana V., Migaud M., Heritier S., Chomton M., Fremond ML., Gonzales E., Galeotti C., Romana S., Jacquemin E., Angoulvant A. , Bidault V., Canioni D., Lachenaud J., Mansouri D., Mahdaviani SA., Adimi P., Mansouri N., Jamshidi M., Bougnoux ME., Abel L., Lortholary O., Blanche S., Casanova JL., Picard C., Puel A.. (2015) Inherited CARD9 deficiency in 2 unrelated patients with invasive Exophiala infection. The Journal of infectious diseases, 8 (211) 1241-50
• Legrand J. , Temime L., Lawrence C., Herrmann JL., Boelle PY., Guillemot D.. (2015) Occupational Determinants of Methicillin-Resistant Staphylococcus aureus Colonization Among Healthcare Workers: A Longitudinal Study in a Rehabilitation Center. Infect. Control Hosp. Epidemiol., 7 (36) 767-776
• Obadia T., Silhol R., Opatowski L., Temime L., Legrand J. , Thiebaut AC., Herrmann JL., Fleury E., Guillemot D., Boelle PY.. (2015) Detailed Contact Data and the Dissemination of Staphylococcus aureus in Hospitals. PLoS computational biology, 3 (11) e1004170
• Osborne AJ., Pearson J., Negro SS., Chilvers BL., Kennedy MA., Gemmell NJ.. (2015) Heterozygote advantage at MHC DRB may influence response to infectious disease epizootics. Molecular ecology, 7 (24) 1419-32
• Oury FX., 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, 5 (128) 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. Frontiers in plant science, (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 biology and evolution, 10 (7) 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. The Journal of infection, 5 (70) 499-503
• Rivière P., Dawson JC., Goldringer I. , David O.. (2015) Hierarchical Bayesian Modeling for Flexible Experiments in Decentralized Participatory Plant Breeding. Crop Science, 3 (55) 1053-1067
• Rivière P., Goldringer I. , Berthellot JF., Galic N. , Pin S. , Kochko PD., Dawson JC.. (2015) Response to farmer mass selection in early generation progeny of bread wheat landrace crosses. Renewable Agriculture and Food Systems, 2 (30) 190-201
• Rousselle Y., Jones E., Charcosset A. , Moreau L. , Robbins K., Stich B., Knaak C., Flament P., Karaman Z., Martinant JP., Fourneau M., Taillardat A., Romestant M., Tabel C., Bertran J., Ranc N., Lespinasse D., Blanchard P., Kahler A., Chen X. , 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 Science, 3 (55) 1170-1180
• Samal A., Martin OC.. (2015) Statistical Physics Methods Provide the Exact Solution to a Long-Standing Problem of Genetics. Phys. Rev. Lett., 23 (114) 238101
• 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, 6 (115) 895-914
• Sidhu GK., Fang C., Olson MA., Falque M. , Martin OC., Pawlowski WP.. (2015) Recombination patterns in maize reveal limits to crossover homeostasis. PNAS, 52 (112) 15982-15987
• Tayeh N., Aluome C., Falque M. , Jacquin F., Klein A., Chauveau A., Bérard A., Houtin H., Rond C., Kreplak J., Boucherot K., Martin C., Baranger A., Pilet‐Nayel ML., Warkentin TD., Brunel D., Marget P., Paslier MCL., 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. The Plant Journal, 6 (84) 1257-1273
• Thomas M., Verzelen N., Barbillon P., Coomes OT., Caillon S., McKey D., Elias M., Garine E., Raimond C., Dounias E., Jarvis D., Wencélius J., Leclerc A. , Labeyrie V., Cuong PH., Hue Ngoc NT., Sthapit B., Rana RB., Barnaud A., Violon C., Arias RE., Latournerie Moreno L., De Santis P., Massol F., Woodward G., Bohan DA.. (2015) A Network-Based Method to Detect Patterns of Local Crop Biodiversity: Validation at the Species and Infra-Species Levels. , (53) 259–320
• Thomas M., Thépot S., Galic N. , Jouanne‐Pin S., Remoué C. , Goldringer I. . (2015) Diversifying mechanisms in the on-farm evolution of crop mixtures. Molecular Ecology, 12 (24) 2937-2954
• Thépot 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, 2 (199) 609-623
• Thépot S., Restoux G., Hospital F., Gouache D., Mackay I., Goldringer I. , Enjalbert J. , Ogihara Y., Takumi S., Handa H.. (2015) Interest of a Multiparental and Outcrossing Wheat Population for Fine Mapping. , 331-8
• Urien C., 2015-01, Diversité des espèces de levures dans des levains naturels français produits à partir de farine issue de l'Agriculture Biologique : une étude pilote pour analyser les pratiques boulangères et les patterns des communautés microbiennes, Theses, Université Paris Sud - Paris XI
• Zaag R., Tamby JP., Guichard C., Tariq Z., Rigaill G., Delannoy E., Renou JP., Balzergue S., Mary-Huard T. , Aubourg S., Martin-Magniette ML., 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, D1 (43) D1010-D1017
• 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)
• 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, 5 (10) e0123834
• de Brevern AG., Meyniel JP., 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 research international, (2015) 904541