Capilla-Pérez L, Solier V, Gilbault E, Lian Q, Goel M, Huettel B, Keurentjes JJ, Loudet O, Mercier R (2024). Enhanced recombination empowers the detection and mapping of Quantitative Trait Loci. Commun Biol, 7(1):829. PubMed | DOI

Xue Z, Ferrand M, Gilbault E, Zurfluh O, Clément G, Marmagne A, Huguet S, Jiménez-Gómez JM, Krapp A, Meyer C, Loudet O (2024). Natural variation in response to combined water and nitrogen deficiencies in Arabidopsis. Plant Cell, koae173. PubMed | DOI

Goelzer A, Rajjou L, Chardon F, Loudet O, Fromion V (2024). Resource allocation modeling for autonomous prediction of plant cell phenotypes. Metab Eng, 83:86-101. PubMed | DOI

Liehrmann A, Delannoy E, Launay-Avon A, Gilbault E, Loudet O, Castandet B, Rigaill G (2023). DiffSegR: an RNA-seq data driven method for differential expression analysis using changepoint detection. NAR Genom Bioinform, 5(4):lqad098. PubMed | DOI

Shahzad Z, Tournaire-Roux C, Canut M, Adamo M, Roeder J, Verdoucq L, Martiniere A, Amtmann A, Santoni V, Grill E, Loudet O, Maurel C (2023). Protein kinase SnRK2.4 is a key regulator of aquaporins and root hydraulics in Arabidopsis. Plant J, 117: 264-279. PubMed | DOI

Elfarargi AF, Gilbault E, Döring N, Neto C, Fulgione A, Weber APM, Loudet O, Hancock AM (2023). Genomic basis of adaptation to a novel precipitation regime. Mol Biol Evol, msad031. PubMed | DOI

Baduel P, Leduque B, Ignace A, Gy I, Gil J Jr, Loudet O, Colot V, Quadrana L (2021). Genetic and environmental modulation of transposition shapes the evolutionary potential of Arabidopsis thaliana. Genome Biol, 22(1):138. PubMed | DOI

Jiao WB, Patel V, Klasen J, Liu F, Pecinkova P, Ferrand M, Gy I, Camilleri C, Effgen S, Koornneef M, Pecinka A, Loudet O, Schneeberger K (2021). The Evolutionary Dynamics of Genetic Incompatibilities Introduced by Duplicated Genes in Arabidopsis thaliana. Mol Biol Evol, 38(4):1225-1240. PubMed | DOI

Hanemian M, Vasseur F, Marchadier E, 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, 11(1):4140. PubMed | DOI

Van Dooren TJM, Silveira AB, Gilbault E, Jiménez-Gómez JM, Martin A, Bach L, Tisne S, Quadrana L, Loudet O, Colot V (2020). Mild drought in the vegetative stage induces phenotypic, gene expression, and DNA methylation plasticity in Arabidopsis but no transgenerational effects. J Exp Bot, 71:3588-3602. PubMed | DOI

Marchadier E, Hanemian M, Tisne 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, 15:e1007954. PubMed | DOI

Michael TP, Jupe F, Bemm F, Motley ST, Sandoval JP, Lanz C, Loudet O, Weigel D, Ecker JR (2018). High contiguity Arabidopsis thaliana genome assembly with a single nanopore flow cell. Nat Commun, 9:541. PubMed | DOI

Tang N, Shahzad Z, Lonjon F, Loudet O, Vailleau F, Maurel C (2018). Natural variation at XND1 impacts root hydraulics and trade-off for stress responses in Arabidopsis. Nat Commun, 9:3884. PubMed | DOI

Agorio A, Durand S, Fiume E, Brousse C, Gy I, Simon M, Anava S, Rechavi O, Loudet O, Camilleri C, Bouché N (2017). An Arabidopsis Natural Epiallele Maintained by a Feed-Forward Silencing Loop between Histone and DNA. PLoS Genet, 13:e1006551. PubMed | DOI

Bazakos C, Hanemian M, Trontin C, Jiménez-Gómez JM, Loudet O (2017). New Strategies and Tools in Quantitative Genetics: How to Go from the Phenotype to the Genotype. Annu Rev Plant Biol, 68:435-455. PubMed | DOI

Nijveen H, Ligterink W, Keurentjes JJ, Loudet O, Long J, Sterken MG, Prins P, Hilhorst HW, De Ridder D, Kammenga JE, Snoek BL (2017). AraQTL - workbench and archive for systems genetics in Arabidopsis thaliana. Plant J, 89:1225-1235. PubMed | DOI

Shahzad Z, Canut M, Tournaire-Roux C, Martiniere A, Boursiac Y, Loudet O, Maurel C (2016). A Potassium-Dependent Oxygen Sensing Pathway Regulates Plant Root Hydraulics. Cell, 167:87-98 e14. PubMed | DOI

Viaud G, Loudet O, Cournede PH (2016). Leaf Segmentation and Tracking in Arabidopsis thaliana Combined to an Organ-Scale Plant Model for Genotypic Differentiation. Front Plant Sci, 7:2057. PubMed | DOI

Bomblies K, Loudet O (2014). Genome studies and molecular genetics: Genomic approaches to understanding evolution, development and the plant phenome. Curr Opin Plant Biol, 18:v-vi. PubMed | DOI

Coustham V, Vlad D, Deremetz A, Gy I, Cubillos FA, Kerdaffrec E, Loudet O, Bouché N (2014). SHOOT GROWTH1 maintains Arabidopsis epigenomes by regulating IBM1. PLoS One, 9:e84687. PubMed | DOI

Cubillos FA, Stegle O, Grondin C, Canut M, Tisne S, Gy I, Loudet O (2014). Extensive cis-regulatory variation robust to environmental perturbation in Arabidopsis. Plant Cell, 26:4298-4310. PubMed | DOI

Saez-Aguayo S, Rondeau-Mouro C, Macquet A, Kronholm I, Ralet MC, Berger A, Sallé C, Poulain D, Granier F, Botran L, Loudet O, De Meaux J, Marion-Poll A, North HM (2014). Local evolution of seed flotation in Arabidopsis. PLoS Genet, 10:e1004221. PubMed | DOI

Trontin C, Kiani S, Corwin JA, Hématy K, Yansouni J, Kliebenstein DJ, Loudet O (2014). A pair of receptor-like kinases is responsible for natural variation in shoot growth response to mannitol treatment in Arabidopsis thaliana. Plant J, 78:121-133. PubMed | DOI

Chardon F, Bedu M, Calenge F, Klemens PA, Spinner L, Clément G, Chietera G, Leran S, Ferrand M, Lacombe B, Loudet O, Dinant S, Bellini C, Neuhaus HE, Daniel-Vedele F, Krapp A (2013). Leaf fructose content is controlled by the vacuolar transporter SWEET17 in Arabidopsis. Curr Biol, 23:697-702. PubMed | DOI

Koprivova A, Giovannetti M, Baraniecka P, Lee BR, Grondin C, Loudet O, Kopriva S (2013). Natural variation in the ATPS1 isoform of ATP sulfurylase contributes to the control of sulfate levels in Arabidopsis. Plant Physiol, 163:1133-1141. PubMed | DOI

Silveira AB, Trontin C, Cortijo S, Barau J, Del Bem LE, Loudet O, Colot V, Vincentz M (2013). Extensive natural epigenetic variation at a de novo originated gene. PLoS Genet, 9:e1003437. PubMed | DOI

Tisne S, Serrand Y, Bach L, Gilbault E, Ben Ameur R, Balasse H, Voisin R, Bouchez D, Durand-Tardif M, Guerche P, Chareyron G, Da Rugna J, Camilleri C, Loudet O (2013). Phenoscope: an automated large-scale phenotyping platform offering high spatial homogeneity. Plant J, 74:534-544. PubMed | DOI

Bouteille M, Rolland G, Balsera C, Loudet O, Muller B (2012). Disentangling the intertwined genetic bases of root and shoot growth in Arabidopsis. PLoS One, 7:e32319. PubMed | DOI

Cubillos FA, Coustham V, Loudet O (2012). Lessons from eQTL mapping studies: non-coding regions and their role behind natural phenotypic variation in plants. Curr Opin Plant Biol, 15:192-198. PubMed | DOI

Cubillos FA, Yansouni J, Khalili H, Balzergue S, Elftieh S, Martin-Magniette ML, Serrand Y, Lepiniec L, Baud S, Dubreucq B, Renou JP, Camilleri C, Loudet O (2012). Expression variation in connected recombinant populations of Arabidopsis thaliana highlights distinct transcriptome architectures. BMC Genomics, 13:117. PubMed | DOI

Durand S, Bouché N, Perez Strand E, Loudet O, Camilleri C (2012). Rapid establishment of genetic incompatibility through natural epigenetic variation. Curr Biol, 22:326-331. PubMed | DOI

Jasinski S, Lécureuil A, Miquel M, Loudet O, Raffaele S, Froissard M, Guerche P (2012). Natural variation in seed very long chain fatty acid content is controlled by a new isoform of KCS18 in Arabidopsis thaliana. PLoS One, 7:e49261. PubMed | DOI

Pineau C, Loubet S, Lefoulon C, Chalies C, Fizames C, Lacombe B, Ferrand M, Loudet O, Berthomieu P, Richard O (2012). Natural variation at the FRD3 MATE transporter locus reveals cross-talk between Fe homeostasis and Zn tolerance in Arabidopsis thaliana. PLoS Genet, 8:e1003120. PubMed | DOI

Poormohammad Kiani S, Trontin C, Andreatta M, Simon M, Robert T, Salt DE, Loudet O (2012). Allelic heterogeneity and trade-off shape natural variation for response to soil micronutrient. PLoS Genet, 8:e1002814. PubMed | DOI

Routaboul JM, Dubos C, Beck G, Marquis C, Bidzinski P, Loudet O, Lepiniec L (2012). Metabolite profiling and quantitative genetics of natural variation for flavonoids in Arabidopsis. J Exp Bot, 63:3749-3764. PubMed | DOI

Simon M, Simon A, Martins F, Botran L, Tisne S, Granier F, Loudet O, Camilleri C (2012). DNA fingerprinting and new tools for fine-scale discrimination of Arabidopsis thaliana accessions. Plant J, 69:1094-1101. PubMed | DOI

Trontin C, Tisne S, Bach L, Loudet O (2011). What does Arabidopsis natural variation teach us (and does not teach us) about adaptation in plants?. Curr Opin Plant Biol, 14:225-231. PubMed | DOI

Kronholm I, Loudet O, De Meaux J (2010). Influence of mutation rate on estimators of genetic differentiation--lessons from Arabidopsis thaliana. BMC Genet, 11:33. PubMed | DOI

Platt A, Horton M, Huang YS, Li Y, Anastasio AE, Mulyati NW, Agren J, Bossdorf O, Byers D, Donohue K, Dunning M, Holub EB, Hudson A, Le Corre V, Loudet O, Roux F, Warthmann N, Weigel D, Rivero L, Scholl R, Nordborg M, Bergelson J, Borevitz JO (2010). The scale of population structure in Arabidopsis thaliana. PLoS Genet, 6:e1000843. PubMed | DOI

Vlad D, Rappaport F, Simon M, Loudet O (2010). Gene transposition causing natural variation for growth in Arabidopsis thaliana. PLoS Genet, 6:e1000945. PubMed | DOI

Balasubramanian S, Schwartz C, Singh A, Warthmann N, Kim MC, Maloof JN, Loudet O, Trainer GT, Dabi T, Borevitz JO, Chory J, Weigel D (2009). QTL mapping in new Arabidopsis thaliana advanced intercross-recombinant inbred lines. PLoS One, 4:e4318. PubMed | DOI

Bikard D, Patel D, Le Mette C, Giorgi V, Camilleri C, Bennett MJ, Loudet O (2009). Divergent evolution of duplicate genes leads to genetic incompatibilities within A. thaliana. Science, 323:623-626. PubMed | DOI

Loudet O, Michael TP, Burger BT, Le Mette C, Mockler TC, Weigel D, Chory J (2008). A zinc knuckle protein that negatively controls morning-specific growth in Arabidopsis thaliana. Proc Natl Acad Sci U S A, 105:17193-17198. PubMed | DOI

Meng PH, Macquet A, Loudet O, Marion-Poll A, North HM (2008). Analysis of natural allelic variation controlling Arabidopsis thaliana seed germinability in response to cold and dark: identification of three major quantitative trait loci. Mol Plant, 1:145-154. PubMed | DOI

Sicard O, Loudet O, Keurentjes JJ, Candresse T, Le Gall O, Revers F, Decroocq V (2008). Identification of quantitative trait loci controlling symptom development during viral infection in Arabidopsis thaliana. Mol Plant Microbe Interact, 21:198-207. PubMed | DOI

Simon M, Loudet O, Durand S, Bérard A, Brunel D, Sennesal FX, Durand-Tardif M, Pelletier G, Camilleri C (2008). Quantitative trait loci mapping in five new large recombinant inbred line populations of Arabidopsis thaliana genotyped with consensus single-nucleotide polymorphism markers. Genetics, 178:2253-2264. PubMed | DOI

Loudet O, Saliba-Colombani V, Camilleri C, Calenge F, Gaudon V, Koprivova A, North KA, Kopriva S, Daniel-Vedele F (2007). Natural variation for sulfate content in Arabidopsis thaliana is highly controlled by APR2. Nat Genet, 39:896-900. PubMed | DOI

Macquet A, Ralet MC, Loudet O, Kronenberger J, Mouille G, Marion-Poll A, North HM (2007). A naturally occurring mutation in an Arabidopsis accession affects a beta-D-galactosidase that increases the hydrophilic potential of rhamnogalacturonan I in seed mucilage. Plant Cell, 19:3990-4006. PubMed | DOI

Calenge F, Saliba-Colombani V, Mahieu S, Loudet O, Daniel-Vedele F, Krapp A (2006). Natural variation for carbohydrate content in Arabidopsis. Interaction with complex traits dissected by quantitative genetics. Plant Physiol, 141:1630-1643. PubMed | DOI

Diaz C, Saliba-Colombani V, Loudet O, Belluomo P, Moreau L, Daniel-Vedele F, Morot-Gaudry JF, Masclaux-Daubresse C (2006). Leaf yellowing and anthocyanin accumulation are two genetically independent strategies in response to nitrogen limitation in Arabidopsis thaliana. Plant Cell Physiol, 47:74-83. PubMed | DOI