2024

• Brault C., Segura V., Roques M., Lamblin P., Bouckenooghe V., Pouzalgues N., Cunty C., Breil M., Frouin M., Garcin L., Camps L., Ducasse MA., Romieu C., Masson G., Julliard S., Flutre T. , Le Cunff L., Wisser R.. (2024) Enhancing grapevine breeding efficiency through genomic prediction and selection index. G3: Genes, Genomes, Genetics, jkae038
• 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
• Coupel‐Ledru A., Westgeest AJ., Albasha R., Millan M., Pallas B., Doligez A., Flutre T. , Segura V., This P., Torregrosa L., Simonneau T., Pantin F.. (2024) Clusters of grapevine genes for a burning world. New Phytologist, 1 (242) 10-18
• 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
• 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
• Stone K., Platig J., Quackenbush J., Fagny M. . (2024) Complex Traits Heritability is Highly Clustered in the eQTL Bipartite Network. bioRxiv, 2024.02.27.582063
• 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
• 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
• Arca M., Gouesnard B., Mary‐Huard T., Le Paslier MC., Bauland C., Combes V., Madur D., Charcosset A. , Nicolas SD.. (2023) Genotyping of DNA pools identifies untapped landraces and genomic regions to develop next‐generation varieties. Plant Biotechnology Journal, 6 (21) 1123-1139
• Bacela-Spychalska K., Wattier R., Teixeira M., Cordaux R. , Quiles A., Grabowski M., Wroblewski P., Ovcharenko M., Grabner D., Weber D., Weigand AM., Rigaud T., Dillman AR.. (2023) Widespread infection, diversification and old host associations of Nosema Microsporidia in European freshwater gammarids (Amphipoda). PLoS Pathog, 8 (19) e1011560
• Bastide H. , Saenko SV., Chouteau M., Joron M., Llaurens V.. (2023) Dominance mechanisms in supergene alleles controlling butterfly wing pattern variation: insights from gene expression in Heliconius numata. Heredity, 2 (130) 92-98
• Beugnot A., 07/02/2023, Hybrid performance in maize: from study of complementary between heterotic groups to genomic prediction, PhD, Université Paris Saclay
• Blanc E., Enjalbert J. , Flutre T. , Barbillon P.. (2023) Efficient Bayesian automatic calibration of a functional-structural wheat model using an adaptive design and a metamodeling approach. Journal of Experimental Botany, erad339
• Carcaud J. , Sandoz JC. . (2023) Editorial overview: Insect neuroethology: More than behavior and neurons. Curr Opin Insect Sci, (57) 101037
• Carcaud J. , Otte M., Grünewald B., Haase A., Sandoz JC. , Beye M., Chittka L.. (2023) Multisite imaging of neural activity using a genetically encoded calcium sensor in the honey bee. PLoS Biol, 1 (21) e3001984
• 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
• 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
• Crequer E., Ropars J. , Jany JL., Caron T., Coton M., Snirc A. , Vernadet JP., Branca A. , Giraud T. , Coton E.. (2023) A new cheese population in Penicillium roqueforti and adaptation of the five populations to their ecological niche. Evolutionary Applications, 8 (16) 1438-1457
• De Walsche A., Vergne A., Rincent R., Roux F., Nicolas S., Welcker C., Mezmouk S., Charcosset A. , Mary-Huard T. . (2023) metaGE: Investigating Genotype × Environment interactions through meta-analysis. ,
• Decourtye A., Rollin O., Requier F. , Allier F., Rüger C., Vidau C., Henry M.. (2023) Decision-making criteria for pesticide spraying considering the bees’ presence on crops to reduce their exposure risk. Front. Ecol. Evol., (11) 1062441
• Desbiez-Piat A., Ressayre A. , Marchadier Élodie. , 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
• Desbiez-Piat A., Ressayre A. , Marchadier Élodie. , Noly A., Bourgais A., Galic N., Le Guilloux M. , Tenaillon M. , Dillmann C. . (2023) The coupling between mutations effects and environment guides the exploration of phenotypic space as evidenced in artificial selection experiments. ,
• 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
• Filée J. , Becker HF., Mellottee L., Eddine RZ., Li Z., Yin W., Lambry JC., Liebl U., Myllykallio H.. (2023) Bacterial origins of thymidylate metabolism in Asgard archaea and Eukarya. Nat Commun, 1 (14) 838
• 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-Saclay
• Gilbert C. , Maumus F.. (2023) Sidestepping Darwin: horizontal gene transfer from plants to insects. Current Opinion in Insect Science, (57) 101035
• 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
• Heisserer C., Muller H., Jouan V., Musset K., Periquet G., Drezen JM., Volkoff AN., Gilbert C. , O’Connell M.. (2023) Massive Somatic and Germline Chromosomal Integrations of Polydnaviruses in Lepidopterans. Molecular Biology and Evolution, 3 (40) msad050
• Jamet E., Esquerré-Tugayé MT., Gallardo-Guerrero K., Rolland N., Zivy M., Blein-Nicolas M. , Vincent G. , Gontero B., Rajjou L.. (2023) Obituary: Dominique Job (1947-2022). Front. Plant Sci., (14) 1188766
• Jendritzki I., Tonnang HEZ., Calatayud PA. , Borgemeister C., Johansson T., Biber-Freudenberger L.. (2023) Uncertainties in the effectiveness of biological control of stem borers under different climate change scenarios in Eastern Africa. Climatic Change, 5 (176) 56
• 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
• Mariette J., Noël A., Louis T., Montagné N., Chertemps T., Jacquin-Joly E., Marion-Poll F. , Sandoz JC. . (2023) Transcuticular calcium imaging as a tool for the functional study of insect odorant receptors. Front. Mol. Neurosci., (16) 1182361
• 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
• Monnot S., Desaint H., Mary-Huard T. , Moreau L. , Schurdi-Levraud V., Boissot N.. (2023) Deciphering the Genetic Architecture of Plant Virus Resistance by GWAS, State of the Art and Potential Advances. Cells, 11 (10) 3080
• Nuambote-Yobila O., Bruce AY., Okuku GO., Marangu C., Makumbi D., Beyene Y., Mahungu NM., Maruthi Prasanna B., Marion-Poll F. , Calatayud PA. . (2023) Assessment of Resistance Mechanisms to Fall Armyworm, Spodoptera frugiperda in Tropical Maize Inbred Lines. Agronomy, 1 (13) 203
• 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
• Petit AJR., Guez J., Le Rouzic A. , Martin G.. (2023) Correlated stabilizing selection shapes the topology of gene regulatory networks. GENETICS, 2 (224) iyad065
• Piqueret B., Montaudon Élodie., Devienne P., Leroy C., Marangoni E., Sandoz JC. , d'Ettorre P.. (2023) Ants act as olfactory bio-detectors of tumours in patient-derived xenograft mice. Proc. R. Soc. B., 1991 (290) 20221962
• Piqueret B., Sandoz JC. , d’Ettorre P.. (2023) The neglected potential of invertebrates in detecting disease via olfaction. Front. Ecol. Evol., (10) 960757
• Plancade S., Marchadier Élodie. , 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
• Poidatz J., Chiron G., Kennedy P., Osborne J., Requier F. . (2023) Density of predating Asian hornets at hives disturbs the 3D flight performance of honey bees and decreases predation success. Ecology and Evolution, 3 (13) e9902
• 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
• Rebaudo F. , Soulard T., Condori B., Quispe‐Tarqui R., Calatayud PA. , Chavez Vino S., Tonnang HEZ., Bessière L.. (2023) A low‐cost IoT network to monitor microclimate variables in ecosystems. Methods Ecol Evol, 4 (14) 1025-1034
• 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, kiad213
• 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 SD., 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. ,
• 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
• Syed AS., Sharma K., Policarpo M., Ferrando S., Casane D. , Korsching SI., Yang G.. (2023) Ancient and Nonuniform Loss of Olfactory Receptor Expression Renders the Shark Nose a De Facto Vomeronasal Organ. Molecular Biology and Evolution, 4 (40) msad076
• 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
• Tomar SS., Hua-Van A. , Le Rouzic A. . (2023) A population genetics theory for piRNA-regulated transposable elements. Theoretical Population Biology, (150) 1-13
• 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. , (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. , (2467) 245-283
• Ahmadi N., Bartholomé J., Robert T. , Brault C., Rincent R., Segura V.. (2022) Phenomic Selection: A New and Efficient Alternative to Genomic Selection. , (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
• Becker C., Berthomé R., Delavault P., Flutre T. , Fréville H., Gibot-Leclerc S., Le Corre V., Morel JB., Moutier N., Muños S., Richard-Molard C., Westwood J., Courty PE., de Saint Germain A., Louarn G., Roux F.. (2022) The ecologically relevant genetics of plant–plant interactions. Trends in Plant Science, S1360138522002205
• 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
• Ben Salah E., Barrera C., Sakly W., Mosbahi S., Balliau T., Franche N., Gottstein B., Ben Youssef S., Mekki M., Babba H., Millon L.. (2022) Novel biomarkers for the early prediction of pediatric cystic echinococcosis post-surgical outcomes. J Infect, S0163-4453(21)00494-1
• Bestea L., Briard E., Carcaud J. , Sandoz JC. , Velarde R., Giurfa M., de Brito Sanchez MG.. (2022) The short neuropeptide F (sNPF) promotes the formation of appetitive visual memories in honey bees. Biol Lett, 2 (18) 20210520
• Bestea L., Paoli M., Arrufat P., Ronsin B., Carcaud J. , Sandoz JC. , Velarde R., Giurfa M., Gabriela de Brito Sanchez M.. (2022) Unraveling the motivational secrets of honey bee foraging during the COVID pandemic. iScience, 4 (25) 104116
• 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
• Brault C., Segura V., This P., Le Cunff L., Flutre T. , François P., Pons T., Péros JP., Doligez A.. (2022) Across-population genomic prediction in grapevine opens up promising prospects for breeding. Horticulture Research, (9) uhac041
• Burban E., Tenaillon M. , Le Rouzic A. . (2022) Gene network simulations provide testable predictions for the molecular domestication syndrome. Genetics, 2 (220) iyab214
• Chen X., Cornille A. , An N., Xing L., Ma J., Zhao C., Wang S. , Han M., Zhang D.. (2022) 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
• Chevin LM., Leung C., Le Rouzic A. , Uller T.. (2022) Using phenotypic plasticity to understand the structure and evolution of the genotype–phenotype map. Genetica, 3-4 (150) 209-221
• Cholé H., Merlin A., Henderson N., Paupy E., Mahé P., Arnold G., Sandoz JC. . (2022) Antenna movements as a function of odorants' biological value in honeybees (Apis mellifera L.). Sci Rep, 1 (12) 11674
• Colombo M., Roumet P., Salon C., Jeudy C., Lamboeuf M., Lafarge S., Dumas AV., 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
• Conde E Silva N. , Leguilloux M., Bellec A., Rodde N., Aubert J., Manicacci D., Damerval C. , Berges H., Deveaux Y. , Bartlett M.. (2022) 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
• 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
• Coureaud G., Thomas-Danguin T., Sandoz JC. , Wilson DA.. (2022) Biological constraints on configural odour mixture perception. J Exp Biol, 6 (225) jeb242274
• 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
• 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
• Filée J. , Merle M. , Bastide H. , Mougel F. , Bérenger JM., Folly-Ramos E., Almeida CE., Harry M. . (2022) Phylogenomics for Chagas Disease Vectors of the Rhodnius Genus (Hemiptera, Triatominae): What We Learn From Mito-Nuclear Conflicts and Recommendations. Front. Ecol. Evol., (9) 750317
• Flutre T. , Le Cunff L., Fodor A., Launay A., Romieu C., Berger G., Bertrand Y., Terrier N., Beccavin I., Bouckenooghe V., Roques M., Pinasseau L., Verbaere A., Sommerer N., Cheynier V., Bacilieri R., Boursiquot JM., Lacombe T., Laucou V., This P., Péros JP., Doligez A., Paterson A.. (2022) A genome-wide association and prediction study in grapevine deciphers the genetic architecture of multiple traits and identifies genes under many new QTLs. G3 Genes|Genomes|Genetics, 7 (12) jkac103
• Fréville H., Montazeaud G., Forst E., David J., Papa R., Tenaillon M. . (2022) Shift in beneficial interactions during crop evolution. Evolutionary Applications, 6 (15) 905-918
• 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
• Guilliet J., Baudouin G., Pollet N. , Filée J. . (2022) What complete mitochondrial genomes tell us about the evolutionary history of the black soldier fly, Hermetia illucens. BMC Ecol Evol, 1 (22) 72
• 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
• Hebra T., Pollet N. , Touboul D., Eparvier V.. (2022) Combining OSMAC, metabolomic and genomic methods for the production and annotation of halogenated azaphilones and ilicicolins in termite symbiotic fungi. Sci Rep, 1 (12) 17310
• 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
• Huber M., Bienvenut WV. , Linster E., Stephan I., Armbruster L., Sticht C., Layer D., Lapouge K., Meinnel T., Sinning I., Giglione C., Hell R., Wirtz M.. (2022) NatB-Mediated N-Terminal Acetylation Affects Growth and Biotic Stress Responses. Plant Physiol., 2 (182) 792-806
• 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
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• Kolkas H., Balliau T., Chourré J., Zivy M., Canut H., Jamet E.. (2022) The Cell Wall Proteome of Marchantia polymorpha Reveals Specificities Compared to Those of Flowering Plants. Front Plant Sci, (12) 765846
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2021

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• 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., 20 janvier 2020, Contributions to genetic diversity management in maize breeding programs using genomic selection, PhD Thesis, 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., Mary-Huard T. , Gouesnard B., Bérard A., Bauland C., Combes V., Madur D., Charcosset A. , Nicolas SD.. (2020) 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
• Arca M., Gouesnard B., Mary-Huard T. , Le Paslier MC., Bauland C., Combes V., Madur D., Charcosset A. , Nicolas SD.. (2020) Genome-wide SNP genotyping of DNA pools identifies untapped landraces and genomic regions that could enrich the maize breeding pool. ,
• Armbruster L., Linster E., Boyer JB., Brünje A., Eirich J., Stephan I., Bienvenut WV. , Weidenhausen J., Meinnel T., Hell R., Sinning I., Finkemeier I., Giglione C., Wirtz M.. (2020) NAA50 Is an Enzymatically Active N ^α -Acetyltransferase That Is Crucial for Development and Regulation of Stress Responses. Plant Physiol., 4 (183) 1502-1516
• Badouin H., Velt A., Gindraud F., Flutre T. , Dumas V., Vautrin S., Marande W., Corbi J., Sallet E., Ganofsky J., Santoni S., Guyot D., Ricciardelli E., Jepsen K., Käfer J., Berges H., Duchêne E., Picard F., Hugueney P., Tavares R., Bacilieri R., Rustenholz C., Marais GAB.. (2020) The wild grape genome sequence provides insights into the transition from dioecy to hermaphroditism during grape domestication. Genome Biol, 1 (21) 223
• 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
• Bienvenut WV. , Brünje A., Boyer JB., Mühlenbeck JS., Bernal G., Lassowskat I., Dian C., Linster E., Dinh TV., Koskela MM., Jung V., Seidel J., Schyrba LK., Ivanauskaite A., Eirich J., Hell R., Schwarzer D., Mulo P., Wirtz M., Meinnel T., Giglione C., Finkemeier I.. (2020) Dual lysine and N‐terminal acetyltransferases reveal the complexity underpinning protein acetylation. Mol Syst Biol, 7 (16)
• Blein-Nicolas M. , Negro SS., Balliau T., Welcker C., Cabrera-Bosquet L., Nicolas SD., 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
• Bouffartigue C., Debille S., Fabreguettes O., Cabrer AR., Pereira-Lorenzo S., Flutre T. , Harvengt L.. (2020) Two main genetic clusters with high admixture between forest and cultivated chestnut (Castanea sativa Mill.) in France. Annals of Forest Science, 3 (77) 74
• Calatayud PA. , Rebaudo F. , Ahuya P., Le Ru B.. (2020) Light and dark rhythms of pupal eclosion and egg hatching in tropical stem borers’ moths. Phytoparasitica, 3 (48) 415-425
• 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 SD., 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
• Chalvin C., Drevensek S., Chollet C., Gilard F., Šolić EM., Dron M., Bendahmane A., Boualem A., Cornille A. . (2020) Study of the genetic and phenotypic variation among wild and cultivated clary sages provides interesting avenues for breeding programs of a perfume, medicinal and aromatic plant. bioRxiv, 2020.11.22.393264
• 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
• Cornille A. , Tiret M., Salcedo A., Huang H., Orsucci M., Milesi P., Kryvokhyzha D., Holm K., Ge XJ., Stinchcombe JR., Glemin S., Wright SI., Lascoux M.. (2020) Phenotypic plasticity, population structure and adaptation in a young weed species with a worldwide distribution. bioRxiv,
• 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
• Dhorne-Pollet S., Barrey E., Pollet N. . (2020) A new method for long-read sequencing of animal mitochondrial genomes: application to the identification of equine mitochondrial DNA variants. BMC Genomics, 1 (21) 785
• 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 S. , 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 Élodie. , 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
• Hartmann FE., Snirc A. , Cornille A. , Godé C., Touzet P., Van Rossum F., Fournier E., Le Prieur S., Shykoff J. , Giraud T. . (2020) Congruent population genetic structures and divergence histories in anther-smut fungi and their host plants Silene italica and the S. nutans species complex. Molecular Ecology, n/a (n/a)
• Henry V., Saïs F., Inizan O., Marchadier Élodie. , 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
• Huber M., Bienvenut WV. , Linster E., Stephan I., Armbruster L., Sticht C., Layer D., Lapouge K., Meinnel T., Sinning I., Giglione C., Hell R., Wirtz M.. (2020) NatB-Mediated N-Terminal Acetylation Affects Growth and Biotic Stress Responses. Plant Physiol., 2 (182) 792-806
• Jabbour F., Pasquier PED., Chazalviel L., Guilloux ML., Condee Silva N., Deveaux Y. , Manicacci D., Galipot P., Heiss AG., Damerval C. . (2020) Evolution of the distribution area of the Mediterranean Nigella damascena and a likely multiple molecular origin of its perianth dimorphism. Flora, 151735
• Jallet AJ., Le Rouzic A. , Genissel A.. (2020) Evolution and Plasticity of the Transcriptome Under Temperature Fluctuations in the Fungal Plant Pathogen Zymoseptoria tritici. Front. Microbiol., (11) 573829
• 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
• Lai Y., Despouy E., Sandoz JC. , Su S., de Brito Sanchez MG., Giurfa M.. (2020) Degradation of an appetitive olfactory memory via devaluation of sugar reward is mediated by 5-HT signaling in the honey bee. Neurobiol Learn Mem, (173) 107278
• Le Rouzic A. , Renneville C., Millot A., Agostini S., Carmignac D., Édeline Éric.. (2020) Unidirectional response to bidirectional selection on body size II. Quantitative genetics. Ecology and Evolution, 20 (10) 11453-11466
• Linster E., Layer D., Bienvenut WV. , Dinh TV., Weyer FA., Leemhuis W., Brünje A., Hoffrichter M., Miklankova P., Kopp J., Lapouge K., Sindlinger J., Schwarzer D., Meinnel T., Finkemeier I., Giglione C., Hell R., Sinning I., Wirtz M.. (2020) The Arabidopsis N ^α ‐acetyltransferase NAA60 locates to the plasma membrane and is vital for the high salt stress response. New Phytol, nph.16747
• 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. , 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. . (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,
• Nsibi M., Gouble B., Bureau S., Flutre T. , Sauvage C., Audergon JM., Regnard JL.. (2020) Adoption and Optimization of Genomic Selection To Sustain Breeding for Apricot Fruit Quality. G3, g3.401452.2020
• Renneville C., Millot A., Agostini S., Carmignac D., Maugars G., Dufour S., Le Rouzic A. , Edeline E.. (2020) Unidirectional response to bidirectional selection on body size. I. Phenotypic, life‐history, and endocrine responses. Ecol Evol, 19 (10) 10571-10592
• Requier F. , Henry M., Decourtye A., Brun F., Aupinel P., Rebaudo F. , Bretagnolle V., Street G.. (2020) Measuring ontogenetic shifts in central‐place foragers: A case study with honeybees. J Anim Ecol, 8 (89) 1860-1871
• 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
• Saint-Leandre B., Capy P., Hua-Van A. , Filée J. , Gonzalez J.. (2020) piRNA and Transposon Dynamics in Drosophila: A Female Story. Genome Biology and Evolution, 6 (12) 931-947
• Sanane I., Legrand J. , Dillmann C. , Marion-Poll F. . (2020) A semi-automated design for high-throughput Lepidoptera larvae feeding bioassays. bioRxiv, 2020.08.02.232256
• 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
• Scalvenzi T., Clavereau I. , Pollet N. . (2020) Insights on the evolution of vertebrate microbiomes from the analysis of the Xenopus frog microbiota across life stages. bioRxiv, 2020.05.25.110734
• 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
• Sokame BM., Rebaudo F. , Malusi P., Subramanian S., Kilalo DC., Juma G., Calatayud PA. . (2020) Influence of Temperature on the Interaction for Resource Utilization between Fall Armyworm, Spodoptera frugiperda (Lepidoptera: Noctuidae), and a Community of Lepidopteran Maize Stemborers Larvae. Insects, 2 (11) 73
• 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
• Tello J., Torres-Pérez R., Flutre T. , Grimplet J., Ibáñez J.. (2020) VviUCC1 Nucleotide Diversity, Linkage Disequilibrium and Association with Rachis Architecture Traits in Grapevine. Genes, 6 (11) 598
• Tsafack N., Fattorini S., Benavides Frias C., Xie Y., Wang S. , Rebaudo F. . (2020) Competing Vegetation Structure Indices for Estimating Spatial Constrains in Carabid Abundance Patterns in Chinese Grasslands Reveal Complex Scale and Habitat Patterns. Insects, 4 (11) 249
• Wycke MA., Coureaud G., Thomas-Danguin T., Sandoz JC. . (2020) Configural perception of a binary olfactory mixture in honey bees, as in humans, rodents and newborn rabbits. J Exp Biol, Pt 21 (223) jeb227611
• Yubuki N., Galindo LJ., Reboul G., López-García P., Brown MW., Pollet N. , Moreira D. . (2020) Ancient Adaptive Lateral Gene Transfers in the Symbiotic Opalina-Blastocystis Stramenopile Lineage. Mol Biol Evol, 3 (37) 651-659
• Zattera ML., Gazolla CB., Soares AA., Gazoni T., Pollet N. , Recco-Pimentel SM., Bruschi DP.. (2020) Evolutionary Dynamics of the Repetitive DNA in the Karyotypes of Pipa carvalhoi and Xenopus tropicalis (Anura, Pipidae). Front Genet, (11) 637
• 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
• Attardo GM., Abd-Alla AMM., Acosta-Serrano A., Allen JE., Bateta R., Benoit JB., Bourtzis K., Caers J., Caljon G., Christensen MB., Farrow DW., Friedrich M., Hua-Van A. , Jennings EC., Larkin DM., Lawson D., Lehane MJ., Lenis VP., Lowy-Gallego E., Macharia RW., Malacrida AR., Marco HG., Masiga D., Maslen GL., Matetovici I., Meisel RP., Meki I., Michalkova V., Miller WJ., Minx P., Mireji PO., Ometto L., Parker AG., Rio R., Rose C., Rosendale AJ., Rota-Stabelli O., Savini G., Schoofs L., Scolari F., Swain MT., Takáč P., Tomlinson C., Tsiamis G., Van Den Abbeele J., Vigneron A., Wang S. , Warren WC., Waterhouse RM., Weirauch MT., Weiss BL., Wilson RK., Zhao X., Aksoy S.. (2019) Comparative genomic analysis of six Glossina genomes, vectors of African trypanosomes. Genome Biol, 1 (20) 187
• 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 WV. , 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 F. . (2019) Multi-omics Analysis Reveals Sequential Roles for ABA during Seed Maturation. Plant Physiol., 2 (180) 1198-1218
• Cholé H., Carcaud J. , Mazeau H., Famié S., Arnold G., Sandoz JC. . (2019) Social Contact Acts as Appetitive Reinforcement and Supports Associative Learning in Honeybees. Curr Biol, 8 (29) 1407-1413.e3
• 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
• 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
• Debat V., Le Rouzic A. . (2019) Canalization, a central concept in biology. Seminars in Cell & Developmental Biology, (88) 1-3
• 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
• Flutre T. , Bacilieri R., Bécavin I., Berger G., Bertrand Y., Boursiquot JM., Fodor A., Lacombe T., Laucou V., Launay A., Le Cunff L., Romieu C., This P., Péros JP., Doligez A.. (2019) Genome-wide association study of a diverse grapevine panel: example of berry weight. Acta Hortic., 1248 227-234
• Flutre T. , Diot J., David J.. (2019) PlantBreedGame: A Serious Game that Puts Students in the Breeder’s Seat. Crop Science, 0 (52) 1-2
• 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
• Grigolon S., Bravi B., Martin O. C.. (2019) Responses to auxin signals: an operating principle for dynamical sensitivity yet high resilience. Royal Society Open Science, 1 (5) 172098
• 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
• Helleu Q., Courret C., Ogereau D. , Burnham K., Chaminade N., Chakir M., Aulard S., Montchamp-Moreau C. . (2019) Sex-Ratio Meiotic Drive Shapes the Evolution of the Y Chromosome in Drosophila simulans. Molecular Biology and Evolution,
• 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., 2019-04-23 23/04/19, Contribution des variations structurales de type insertions/délétions à l'adaptation, la variation des caractères et les performances hybrides chez le maïs, PhD Thesis, Université Paris-Saclay
• 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 SD.. (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
• Marchadier Élodie. , Hanemian M., Tisné S., Bach L., Bazakos C., Gilbault E., Haddadi P., Virlouvet L., Loudet O.. (2019) The complex genetic architecture of shoot growth natural variation in Arabidopsis thaliana. PLoS Genet., 4 (15) e1007954
• 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 N., 25/10/2019, Characterizing the genomic determinants and phenotypic responses to altitudinal adaptation in teosintes (Zea mays ssp. parviglumis and ssp. mexicana), PhD thesis, Université Paris-Saclay
• 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
• 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 SD.. (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., 8 juillet 2019, Mathematical modelling and integration of complex biological data: analysis of the heterosis phenomenon in yeas, PhD Thesis, Université Paris-Saclay
• Rebaudo F. , Benoist R.. (2019) Low-cost automatic temperature monitoring system with alerts for laboratory rearing units. MethodsX, (6) 2127-2133
• Rio S., 2019-04-26 26/04/19, Contributions to genomic selection and association mapping in structured and admixed populations : application to maize, PhD Thesis, Université Paris-Saclay
• 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
• Schneider DI., Ehrman L., Engl T., Kaltenpoth M., Hua-Van A. , Le Rouzic A. , Miller WJ.. (2019) Symbiont-Driven Male Mating Success in the Neotropical Drosophila paulistorum Superspecies. Behav Genet, 1 (49) 83-98
• Seye A., 2019-03-21 21/03/19, Prédiction assistée par marqueurs de la performance hybride dans un schéma de sélection réciproque : simulations et évaluation expérimentale pour le maïs ensilage, PhD Thesis, Université Paris-Saclay
• Seye AI., Bauland C., Giraud T. , 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
• Sokame BM., Rebaudo F. , Musyoka B., Obonyo J., Mailafiya DM., Le Ru BP., Kilalo DC., Juma G., Calatayud PA. . (2019) Carry-Over Niches for Lepidopteran Maize Stemborers and Associated Parasitoids during Non-Cropping Season. Insects, 7 (10) 191
• 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
• Tello J., Roux C., Chouiki H., Laucou V., Sarah G., Weber A., Santoni S., Flutre T. , Pons T., This P., Péros JP., Doligez A.. (2019) A novel high-density grapevine (Vitis vinifera L.) integrated linkage map using GBS in a half-diallel population. Theor Appl Genet, 8 (132) 2237-2252
• 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
• Tsafack N., Rebaudo F. , Wang S. , Nagy DD., Xie Y., Wang S. , Fattorini S.. (2019) Carabid community structure in northern China grassland ecosystems: Effects of local habitat on species richness, species composition and functional diversity. PeerJ, (6) e6197
• 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. , 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

• Achour Z., 2018-05-15 15/05/18, Réponse du méthylome suite à l’exposition au froid chez une espèce à génome complexe : le maïs (Zea mays ssp. mays), PhD thesis, Université Paris-Saclay
• 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 S., 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
• Amirchakhmaghi N., Yousefzadeh H., Hosseinpour B., Espahbodi K., Aldaghi M., Cornille A. . (2018) First insight into genetic diversity and population structure of the Caucasian wild apple (Malus orientalis Uglitzk.) in the Hyrcanian forest (Iran) and its resistance to apple scab and powdery mildew. Genet Resour Crop Evol, 4 (65) 1255-1268
• 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
• Barry JD., Fagny M. , Paulson JN., Aerts HJWL., Platig J., Quackenbush J.. (2018) Histopathological Image QTL Discovery of Immune Infiltration Variants. iScience, (5) 80-89
• 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
• Besnard G., Terral JF., Cornille A. . (2018) On the origins and domestication of the olive: a review and perspectives. Annals of botany, 3 (121) 385-403
• 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
• Carcaud J. , Giurfa M., Sandoz JC. . (2018) Differential Processing by Two Olfactory Subsystems in the Honeybee Brain. Neuroscience, (374) 33-48
• 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
• Celisse A., Mary-Huard T. . (2018) Theoretical Analysis of Cross-Validation for Estimating the Risk of the $k$-Nearest Neighbor Classifier. Journal of Machine Learning Research, 58 (19) 1-54
• 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., 2018-03-29 29/03/18, 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, PhD thesis, Université Paris-Saclay
• Grigolon S., Bravi B., Martin O. C.. (2018) Responses to auxin signals: an operating principle for dynamical sensitivity yet high resilience. Royal Society Open Science, 1 (5) 172098
• Guyeux C., Couchot JF., Le Rouzic A. , Bahi J., Marangio L.. (2018) Theoretical Study of the One Self-Regulating Gene in the Modified Wagner Model. Mathematics, 4 (6) 58
• 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
• Joets J. , Vitte C. , Charcosset A. , Bennetzen J., Flint-Garcia S., Hirsch C., Tuberosa R.. (2018) Draft assembly of the F2 European maize genome sequence and its comparison to the B73 genome sequence: a characterization of genotype-specific regions.. , In Press
• Käfer J., Betancourt A., Villain AS., Fernandez J. , 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., 2018-03-28 28/03/18, Plasticité et adaptation génétique comme contributeurs de l'histoire évolutive du maïs cultivé et des formes sauvages apparentées, PhD thesis, Université Paris-Saclay
• Odonkor S., Choi S., Chakraborty D., Martinez-Bello L., Wang S. , 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)
• Odorico A., Rünneburger E., Le Rouzic A. . (2018) Modelling the influence of parental effects on gene‐network evolution. J. Evol. Biol., 5 (31) 687-700
• Oury FX., Heumez E., Rolland B., Auzanneau J., Bérard P., Brancourt-Hulmel M., Charrier X., Chiron H., Depatureaux C., Falchetto L., Gardet O., Gilles S., Giraud T. , Lecomte C., Jean-Yves Morlais ., Pluchard P., Tropée D., Trottet M., Walczak P., Doussinault G., Rousset M., Charmet G., Oury FX., Charmet G., Pommier C.. (2018) Winter wheat (Triticum aestivum L) phenotypic data from the multiannual, multilocal field trials of the INRA Small Grain Cereals Network. ,
• Pereira CM., Stoffel TJR., Callegari-Jacques SM., Hua-Van A. , Capy P., Loreto ELS.. (2018) The somatic mobilization of transposable element mariner-Mos1 during the Drosophila lifespan and its biological consequences. Gene, (679) 65-72
• 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. , 2018-06-11 06/11/18, Diversité et déterminisme génétique de la recombinaison méiotique chez Saccharomyces cerevisiae, PhD thesis, Université Paris-Saclay
• 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
• Rebaudo F. , Rabhi VB.. (2018) Modeling temperature-dependent development rate and phenology in insects: review of major developments, challenges, and future directions. Entomol Exp Appl, 8 (166) 607-617
• Rebaudo F. , Struelens Q., Dangles O., Price S.. (2018) Modelling temperature‐dependent development rate and phenology in arthropods: The devRate package for r. Methods Ecol Evol, 4 (9) 1144-1150
• 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
• Struelens Q., Rebaudo F. , Quispe R., Dangles O.. (2018) Thermal pace-of-life strategies improve phenological predictions in ectotherms. Sci Rep, 1 (8) 15891
• Tenaillon M. , Sedikki K., Mollion M., Guilloux ML., Marchadier Élodie. , Ressayre A. , Dillmann C. . (2018) Transcriptomic response to divergent selection for flowering time in maize reveals convergence and key players of the underlying gene regulatory network. bioRxiv, 461947
• Van Frank G., 2018-06-12 06/12/18, Gestion participative de la diversité cultivée et création de mélanges diversifiés de blé tendre à la ferme, PhD Thesis, Université Paris-Saclay
• Weber A., Schwarz SC., Tost J., Trümbach D., Winter P., Busato F., Tacik P., Windhorst AC., Fagny M. , Arzberger T., McLean C., van Swieten JC., Schwarz J., Vogt Weisenhorn D., Wurst W., Adhikary T., Dickson DW., Höglinger GU., Müller U.. (2018) Epigenome-wide DNA methylation profiling in Progressive Supranuclear Palsy reveals major changes at DLX1. Nature Communications, 1 (9)

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
• Bouallègue M., Rouault JD., Hua-Van A. , Makni M., Capy P.. (2017) Molecular Evolution of piggyBac Superfamily: From Selfishness to Domestication. Genome Biol Evol, 2 (9) 323-339
• 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 SD., 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
• Bronchain OJ., Chesneau A., Monsoro-Burq AH., Jolivet P., Paillard E., Scanlan TS., Demeneix BA., Sachs LM., Pollet N. . (2017) Implication of thyroid hormone signaling in neural crest cells migration: Evidence from thyroid hormone receptor beta knockdown and NH3 antagonist studies. Mol Cell Endocrinol, (439) 233-246
• 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
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2016

• Abadie C., Mainguet S., Davanture M., Hodges M., Zivy M., Tcherkez G.. (2016) Concerted Changes in the Phosphoproteome and Metabolome Under Different CO2/O2 Gaseous Conditions in Arabidopsis Rosettes. Plant Cell Physiol, 7 (57) 1544-1556
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• 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
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• 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)
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• 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
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• 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)
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• Bougerol M., Auradé F., Lambert FM., Le Ray D., Combes D., Thoby-Brisson M., Relaix F., Pollet N. , Tostivint H.. (2015) Generation of BAC Transgenic Tadpoles Enabling Live Imaging of Motoneurons by Using the Urotensin II-Related Peptide (ust2b) Gene as a Driver. PLoS ONE, 2 (10) e0117370
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• Gasmi L., Boulain H., Gauthier J., Hua-Van A. , Musset K., Jakubowska AK., Aury JM., Volkoff AN., Huguet E., Herrero S., Drezen JM.. (2015) Recurrent Domestication by Lepidoptera of Genes from Their Parasites Mediated by Bracoviruses. PLoS Genet, 9 (11) e1005470
• Hoen DR., Hickey G., Bourque G., Casacuberta J., Cordaux R. , Feschotte C., Fiston-Lavier AS., Hua-Van A. , Hubley R., Kapusta A., Lerat E., Maumus F., Pollock DD., Quesneville H., Smit A., Wheeler TJ., Bureau TE., Blanchette M.. (2015) A call for benchmarking transposable element annotation methods. Mobile DNA, 1 (6) 13