Udvardi Lab Publications

Young, N. D. , Debellé, F., Oldroyd, G., Geurts, R., Cannon, S. B. , Udvardi, M. K., Benedito, V. A., Mayer, K.F.X., Gouzy, J., Schoof, H., Van de Peer, Y., Proost, S., Cook, D. R. , Meyers, B.C., Spannagl, M., Cheung, F., De Mita, S., Krishnakumar, V., Gundlach, H., Zhou, S., Mudge, J., Bharti, A.K., Murray, J., Naoumkina, M., Rosen, B., Silverstein, K.A.T., Tang, H., Rombauts, S., Zhao, P. X., Zhou, P., Barbe, V., Bardou, P., Bechner, M., Bellec, A., Berger, A., Bergès, H., Bidwell, T. G., Bisseling, T., Choisne, N., Couloux, A., Denny, R., Deshpande, S., Dai, X., Doyle, J.J., Dudez, A-M., Farmer, A. D., Fouteau, S., Franken, C., Gibelin, C., Gish, J., Goldstein, S., González, A.J., Green, P.J., Hallab, A., Hartog, M., Hua, A., Humphray, S.J., Jeong, D-H., Jing, Y., Jöcker, A., Kenton, S., Kim, D-J., Klee, K., Lai, H., Lang, C., Lin, S., Macmil, S.L., Magdelenat, G., Matthews, L., McCorrison, J., Monaghan, E.L., Mun, J-H., Najar, F.Z. , Nicholson, C., Noirot, C., O’Bleness, M., Paule, C.R., Poulain, J., Prion, F., Qin, B., Qu, C., Retzel, E. F. , Riddle, C., Sallet, E., Samain, S., Samson, N., Sanders, I., Saurat, O., Scarpelli, C., Schiex, T., Segurens, B., Severin, A.J., Sherrier, D. J., Shi, R., Sims, S., Singer, S.R. , Sinharoy, S. , Sterck, L., Viollet, A., Wang, B-B., Wang, K., Wang, M., Wang, X-H., Warfsmann, J., Weissenbach, J., White, D.D., White, J. D., Wiley, G. B., Wincker, P., Xing, Y., Yang, L., Yao, Z., Ying, F., Zhai, J., Zhou, L., Zuber, A., Dénarié, J., Dixon, R. A., May, G. D., Schwartz, D.C., Rogers, J., Quétier, F., Town, C. D., & Roe, B. A. (2011). The Medicago genome provides insight into the evolution of rhizobial symbioses. Nature, November 16, Published online doi:10.1038/nature10625.

Kang, Y., Han, Y., Torres-Jerez, I., Wang, M., Tang, Y., Monteros, M. J., & Udvardi, M. K. (2011). System responses to long-term drought and re-watering of two contrasting alfalfa varieties. Plant Journal, August, doi:10.1111/j.1365-313X.2011.04738.x.

Sanchez, D.H., Schwabe, F., Erban, A., Udvardi, M. K., & Kopka, J. (2011). Comparative metabolomics of drought acclimation in model and forage legumes. Plant Cell and Environment, September, doi:10.1111/j.1365-3040.2011.02423.x.

Sanchez, D.H., Pieckenstain, F. L. , Erban, A., Escaray, F., Kraemer, P.M., Udvardi, M. K., & Kopa, K. (2011). Comparative ionomics and metabolomics in extremophile and glycophytic Lotus species under salt stress challenge the metabolic pre-adaptation hypothesis. Plant Cell and Environment, 34, 605-617 doi/10.1111/j.1365-3040.2010.02266.

Zhou, C. , Han, L., Pislariu, C., Nakashima, J., Fu, C-X., Jiang, Q., Quan, L., Blancaflor, E. B., Tang, Y., Bouton, J. H., Udvardi, M. K., Xia, G., & Wang, Z - Y. (2011). From model to crop: identification of a STAY-GREEN gene from the model legume Medicago truncatula and effective use of gene in improving quality of alfalfa (M. sativa). Plant Physiology, September, doi:10.1104/pp.111.185140.

Han, Y., Kang, Y., Torres-Jerez, I., Cheung, F., Town, C. D., Zhao, P. X., Udvardi, M. K., & Monteros, M. J. (2011). Genome-wide SNP discovery in tetraploid alfalfa using 454 sequencing and high resolution melting analysis. Genomics, 12 (350), doi:10.1186/1471-2164-12-350.

Murray, J., Reddy, R., Duvvuru Muni , R. R., Torres-Jerez, I., Tang, Y., Allen, N. S., Andriankaja, M., Li, G., Laxmi, A., Cheng, X., Wen, J. Q., Vaughn, D., Schultze, M. , Sun, J., Charpentier, M., Oldroyd, G., Tadege, M., Ratet, P., Mysore, K. S., Chen, R., & Udvardi, M. K. (2011). Vapyrin, a gene essential for intracellular progression of arbuscular mycorrhizal symbiosis, is also essential for infection by rhizobia in the nodule symbiosis of Medicago truncatula . Plant Journal, 65 (2), 244-252 doi:10.1111/j.1365-313X.2010.04415.x .

Sanchez, D.H., Pieckenstain, F. L. , Szymanski, J., Erban, A., Bromke, M. , Hannah, M., Kraemer, P.M., Kopka, J., & Udvardi, M. K. (2011). Comparative functional genomics of salt stress in related model and cultivated plants identifies and overcomes limitations to translational genomics. PLoS One, 6 (2), doi:10.1371/journal.pone.0017094.

Tsikou, D., Stedel, C., Kouri, E. D., Udvardi, M. K., Wang, T. L. , Katinakis, P., Labrou, N. E., & Flemetakis, E. (2011). Characterization of two novel nodule-enhanced a-type carbonic anhydrases from Lotus japonicus. BBA - Biochimica et Biophysica Acta - Proteins and Proteomics, 1814 (4), 496-504 doi:10.1016/j.bbapap.2011.01.007.

Fotelli, M. N., Tsikou, D., Kolliopoulou, A., Aivalakis, G., Katinakis, P., Udvardi, M. K., Rennenberg, H., & Flemetakis, E. (2011). Nodulation enhances dark CO2 fixation and recycling in the model legume Lotus japonicus. Journal of Experimental Botany, February 9, doi:10.1093/jxb/err009.

Kalliampakou, K. I. , Kouri, E. D., Boleti, H., Pavli, O., Maurousset, L., Udvardi, M. K., Katinakis, P., Lemoine, R., & Flemetakis, E. (2011). Cloning and functional characterization of LjPLT4, a plasma membrane xylitol H+- symporter from Lotus japonicus. Molecular Membrane Biology , 28 (1), 1-13 DOI:10.3109/09687688.2010.500626.

Becana, M., Matamoros, M. , Udvardi, M. K., & Dalton, D. A. (2010). Recent insights into antioxidant defenses of legume root nodules. New Phytologist, 188 (4), 960-976 DOI:10.1111/j.1469-8137.2010.03512.x.

Diaz, P., Betti, M., Sanchez, D.H., Udvardi, M. K., Monza, J. , & Marquez, A. J. (2010). Deficiency in plastidic glutamine synthetase alters proline metabolism and transcriptomic response in Lotus japonicus under drought stress. New Phytologist, , DOI: 10.1111/j.1469-8137.2010.03440.x.

Barrero, J. M., Millar, A.A., Griffiths, J. , Czechowski, T., Scheible, W-R., Udvardi, M. K., Reid, J. B., Ross, J. J. , Jacobsen, J. V. , & Gubler, F. (2010). Gene expression profiling identifies two regulatory genes controlling dormancy and ABA sensitivity in Arabidopsis seeds. Plant Journal, 61, 611-622 DOI:10.1111/j.1365-313X.2009.04088.x.

Gao, L-L., Kamphuis, L. G., Kakar, K., Edwards, O. R. , Udvardi, M. K., & Singh, K. B. (2010). Identification of potential early regulators of aphid resistance in Medicago truncatula via transcription factor expression profiling. New Phytologist, 186, 980-994 DOI: 10.1111/j.1469-8137.2010.03229.x .

Sanchez, D.H., Szymanski, J., Erban, A., Udvardi, M. K., & Kopka, J. (2010). Mining for robust transcriptional and metabolic responses to long-term salt stress: a case study on the model legume Lotus japonicus. Plant Cell and Environment, 33 (4), 468-480 DOI: 10.1111/j.1365-3040.2009.02047.x .

Wang, M., Benedito, V. A., Zhao, P. X., & Udvardi, M. K. (2010). Inferring large-scale gene regulatory networks using a low-order constraint-based algorithm. Molecular Biosystems, 6 (6), 988-998 DOI: 10.1039/b917571g.

Lefebvre, B., Timmers, T., Mbengue, M., Moreau, S., Hervé, C., Tóth, K., Bittencourt-Silvestre, J., Klaus, D., Deslandes, L., Godiard, L., Murray, J., Udvardi, M. K., Raffaele, S., Mongrand, S., Cullimore, J., Gamas, P., Niebel, A., & Ott, T. (2010). A remorin protein interacts with symbiotic receptors and regulates bacterial infection. PNAS (Proceedings of the National Academy of Sciences), 107 (5), 2343-2348 DOI:10.1073/pnas.0913320107.

Benedito, V. A., Li, H., Dai, X., Wandrey, M., He, J., Kaundal, R., Torres-Jerez, I., Gomez, S. K. , Harrison, M. J., Tang, Y., Zhao, P. X., & Udvardi, M. K. (2010). Genomic inventory and transcriptional analysis of Medicago truncatula transporters. Plant Physiology, 152, 1716-1730 DOI: 10.1104/pp.109.148684.

Li, H., Benedito, V. A., Udvardi, M. K., & Zhao, P. X. (2009). TransportTP: A two-phase classification approach for membrane transporter prediction and characterization. BMC Bioinformatics, 10 (418), DOI:10.1186/1471-2105-10-418.

Hernandez, G., Valdes-Lopez, O., Ramirez, M., Goffard, N., Weiller, G., Aparicio-Fabre, R., Fuentes, S. I. , Erban, A., Kopka, J., Udvardi, M. K., & Vance, C.P. (2009). Global changes in the transcript and metabolic profiles during symbiotic nitrogen fixation in phosphorus-stressed common bean plants. Plant Physiology, 151 (3), 1221-1238 DOI:10.1104/pp.109.143842.

Hogslund, N., Radutoiu, S., Krusell, L., Voroshilova, V., Hannah, M., Goffard, N., Sanchez, D.H., Lippold, F., Ott, T., Sato, S., Tabata, S., Liboriussen, P., Lohmann, G., Schauser, L. , Weiller, G., Udvardi, M. K., & Stougaard, J. (2009). Dissection of symbiosis and organ development by integrated transcriptome analysis of Lotus japonicus mutant and wild-type plants. PLoS One, 4 (8), e6556 DOI:10.1371/journal.pone.0006556.

Libault, M., Joshi, T., Benedito, V. A., Xu, D. , Udvardi, M. K., & Stacey, G. (2009). Legume transcription factor genes: what makes legumes so special? Plant Physiology, 151, 991-1001 DOI:10.1104/pp.109.144105.

Kouri, E. D., Labrou, N. E., Garbis, S. D., Kalliampakou, K. I. , Stedel, C., Dimou, M., Udvardi, M. K., & Flemetakis, M. (2009). Molecular and biochemical characterization of the parvulin-type PPIases in Lotus japonicus. Plant Physiology, 150 (3), 1160-1173 DOI:10.1104/pp.108.132415 .

Van der Ent, S., Van Hulten, M., Pozo, M. J. , Czechowski, T., Udvardi, M. K., Pieterse, C. M. , & Ton, J. (2009). Priming of plant innate immunity by rhizobacteria and B-aminobutyric acid: differences and similarities in regulation. New Phytologist, 183, 419–431 DOI: 10.1111/j.1469-8137.2009.02851.x.

Ott, T., Sullivan, J., James, E. K., Flemetakis, M., Gunthur, C., Gibon, Y., Ronson, C., & Udvardi, M. K. (2009). Absence of symbiotic leghemoglobins alters bacteroid and plant cell differentiation during development of Lotus japonicus root nodules. Molecular Plant-Microbe Interactions, 22 (7), 800-808 DOI:10.1094/MPMI-22-7-0800.

Guether, M., Balestrini, R., Hannah, M., He, J., Udvardi, M. K., & Bonfante, P. (2009). Genome-wide reprogramming of regulatory networks, transport, cell wall and membrane biogenesis during arbuscular mycorrhizal symbiosis in Lotus japonicus. New Phytologist, 182, 200-212 DOI:10.1111/j.1469-8137.2008.02725.x.

Gruber, V., Blanchet, S., Diet, A., Zahaf, O., Boulem, A., Kakar, K., Alunni, B., Udvardi, M. K., Frugier, F., & Crespi, M. (2009). Identification of transcription factors involved in root apex responses to salt stress in Medicago truncatula. Molecular Genetics and Genomics, 281 (1), 55-66 DOI:10.1007/s00438-008-0392-8.

Andreadeli, A., Flemetakis, M., Axarli, I., Dimou, M., Udvardi, M. K., Katinakis, P., & Labrou, N. E. (2009). Cloning and characterization of Lotus japonicus formate dehydrogenase: A possible correlation with hypoxia. BBA - Biochimica et Biophysica Acta - Proteins and Proteomics, 1794 (6), 976-984 DOI:10.1016/j.bbapap.2009.02.009.

Gutjahr, C., Novero, M., Guether, M., Montanari, O., Udvardi, M. K., & Bonfante, P. (2009). Presymbiotic factors released by the arbuscular mycorrhizal fungus Gigaspora margarita induce starch accumulation in Lotus japonicus roots. New Phytologist, 183 (1), 53-61, DOI:10.1111/j.1469-8137.2009.02871.x.

Young, N. D., & Udvardi, M. K. (2009). Translating Medicago truncatula genomics to crop legumes. Current Opinion in Plant Biology, 12 (2), 193-201 DOI:10.1016/j.pbi.2008.11.005.

Lippold, F., Sanchez, D.H., Musialak, M., Schlereth, A, Scheible, W-R., Hincha, D. K., & Udvardi, M. K. (2009). AtMyb41 regulates transcriptional and metabolic responses to osmotic stress in Arabidopsis thaliana. Plant Physiology, 149 (4), 1761-1772 DOI:10.1104/pp.108.134874.

Gomez, S. K. , Javot, H. , Deewatthanawong, P., Torres-Jerez, I., Tang, Y., Blancaflor, E. B. , Udvardi, M. K., & Harrison, M. J. (2009). Medicago truncatula and Glomus intraradices gene expression in cortical cells harboring arbuscules in the arbuscular mycorrhizal symbiosis. BMC Plant Biology, 9 (10), DOI:10.1186/1471-2229-9-10.

Rogato, A., D'Apuzzo, E., Barbulova, A., Omrane, S., Stedel, C., Simon-Rosin, U., Katinakis, P., Flemetakis, M., Udvardi, M. K., & Chiurazzi, M. (2008). Tissue-specific down-regulation of LjAMT1;1 compromises nodule function and enhances nodulation in Lotus japonicus. Plant Molecular Biology, 68, 585-595 DOI:10.1007/s11103-008-9394-5.

Kakar, K., Wandrey, M., Czechowski, T., Gaertner, T., Scheible, W-R., Stitt, M., Torres-Jerez, I., Xiao, X., Redman, J., Wu, H., Cheung, F., Town, C. D., & Udvardi, M. K. (2008). A community resource for high-throughput quantitative RT-PCR analysis of transcription factor gene expression in Medicago truncatula. Plant Methods, 4 (18), 1-12 DOI:10.1186/1746-4811-4-18.

Verdier, J., Kakar, K., Gallardo, K., Le Signor, C., Aubert, G., Schlereth, A, Town, C. D., Udvardi, M. K., & Thompson, R. D. (2008). Gene expression profiling of M. truncatula transcription factors identifies putative regulators of grain legume seed filling. Plant Molecular Biology, 67 (6), 567-580 DOI:10.1007/s11103-008-9320-x.

Ruffel, S., Freixes, S., Balzergue, S., Tillard, P., Jeudy, C., Martin-Magniette, M. L., van der Merwe, M. J., Kakar, K., Gouzy, J., Fernie, A. R., Udvardi, M. K., Salon, C., Gojon, A., & Lepetit, A. (2008). Systemic signaling of the plant nitrogen status triggers specific transcriptome responses depending on the N source in Medicago truncatula. Plant Physiology, 146 (4), 2020-2035 DOI:107.115667v1.

Benedito, V. A., Torres-Jerez, I., Murray, J., Andriankaja, A., Allen, N. S., Kakar, K., Wandrey, M., Verdier, J., Zuber, H., Ott, T., Moreau, S., Niebel, A., Frickey, T., Weiller, G., He, J., Dai, X., Zhao, P. X., Tang, Y., & Udvardi, M. K. (2008). A gene expression atlas of the model legume Medicago truncatula. Plant Journal, 55 (3), 504-513 DOI:10.111/j.1365-313X.2008.03519.x.

Sanchez, D.H., Siahpoosh, M. R., Roessner-Tunali, U., Udvardi, M. K., & Kopka, J. (2008). Plant metabolomics reveals conserved and divergent metabolic responses to salinity. Physiologia Plantarum, 132 (2), 209-219 DOI:10.1111/j.1399-3054.2007.00993.x.

Sanchez, D.H., Lippold, F., Redestig, H., Hannah, M., Erban, A., Kramer, K., Kopka, J., & Udvardi, M. K. (2008). Integrative functional genomics of salt acclimatization in the model legume Lotus japonicus. Plant Journal, 53 (6), 973-987 DOI:10.1111/j.1365-313X.2007.03381.x.

Frickey, T., Benedito, V. A., Udvardi, M. K., & Weiller, G. (2008). AffyTrees: Facilitating comparative analysis of Affymetrix plant microarray chips. Plant Physiology, 146, 377-386 DOI:10.1104/pp.107.109603.

D'Antuono, A.L., Ott, T., Krusell, L., Voroshilova, V., Ugalde, R.A., Udvardi, M. K., & Lepek, V.C. (2008). Defects in rhizobial cyclic glucan and lipopolysaccharide synthesis alter legume gene expression during nodule development. MPMI - Molecular Plant-Microbe Interactions, 21 (1), 50-60 DOI:10.1094/MPMI -21-1-0050.

Libault, M., Wan, J., Czechowski, T., Udvardi, M. K., & Stacey, G. (2007). Identification of 118 Arabidopsis transcription factor and 30 ubiquitin-ligase genes responding to chitin, a plant-defense elicitor. Molecular Plant-Microbe Interactions, 20, 900-911.

Udvardi, M. K., Kakar, K., Wandrey, M., Montanari, O., Murray, J., Andriankaja, A., Zhang, J., Benedito, V. A., Hofer, J., Cheung, F., & Town, C.D. (2007). Legume transcription factors: Global regulators of plant development and response to the environment. Plant Physiology, 144, 538-549.

Hernandez, G., Ramirez, M., Valdes-Lopez, O., Tesfaye, M., Graham, M. A., Czechowski, T., Schlereth, A, Wandrey, M., Erban, A., Cheung, F., Wu, H., Lara, M., Kopka, J., Udvardi, M. K., Vance, C.P., & Town, C.D. (2007). Phosphorus stress in common bean: Root transcript and metabolic responses. Plant Physiology, 144, 752-767.

Morcuende, R., Bari, R, Gibon, Y., Zheng, W., Datt Pant, B., Blasing, O., Usadel, B., Czechowski, T., Udvardi, M. K., Stitt, M., & Scheible, W-R. (2007). Genome-wide reprogramming of metabolism and regulatory networks of Arabidopsis in response to phosphorous. Plant Cell and Environment, 30, 85-112.

Gunther, C., Schlereth, A, Udvardi, M. K., & Ott, T. (2007). Metabolism of reactive oxygen species is attenuated in leghemoglobin-deficient nodules of Lotus japonicus. MPMI - Molecular Plant-Microbe Interactions, 20 (12), 1596-1603.

Benedito, V. A., Dai, X., He, J., Zhao, P. X., & Udvardi, M. K. (2006). Functional genomics of plant transporters in legume nodules. Functional Plant Biology, 33, 731-736.

Wood, C. C., Porée, F., Dreyer, I., Koehler, G. J., & Udvardi, M. K. (2006). Mechanisms of ammonium transport, accumulation, and retention in ooyctes and yeast cells expressing Arabidopsis. FEBS Letters, 580 (16), 3931-3936.

Domoney, C., Duc, G., Ellis, J. S., Ferrandiz, C., Firnhaber, C., Gallardo, K., Mayer, K., Thompson, R. D., Udvardi, M. K., & Salon, C. (2006). Genetic and genomic analysis of legume flowers and seeds. Current Opinion in Plant Biology, 9 (April), 133-141.