Plant Biology Division: Publications (Last 12 months)

See a complete list of publications in the Noble Publication Listing.

Tzin, V., Malitsky, S., Moyal Ben Zvi, M., Bedair, M., Sumner, L. W., Aharoni, A., & Galili, G. (2012). Expression of a bacterial feedback-insensitive 3-deoxy-D-arabinoheptulosonate 7-phosphate synthase of the shikimate pathway in Arabidopsis elucidates potential metabolic bottlenecks between primary and secondary metabolism. New Phytologist, February, doi: 10.1111/j.1469-8137.2012.04052.x.

Bhamidimarri, S., Saha, M. C., Payton, M., & Hopkins, A. A. (2012). Phenotyping summer dormancy in tall fescue. Crop Science, 52 (January–February), doi:10.2135/cropsci2010.11.0660.

Fu, C-X., Sunkar, R., Zhou, C. , Shen, H., Zhang, J - Y., Matts, J., Wolf, J., Mann, D.G.J., Stewart, C.N., Tang, Y., & Wang, Z - Y. (2012). Overexpression of miR156 in switchgrass (Panicum virgatum L.) results in various morphological alterations and leads to improved biomass production. Plant Biotechnology Journal, January, 1-10 doi:10.1111/j.1467-7652.2011.00677.x.

Li, J., Dai, X., Liu, T., & Zhao, P. X. (2012). LegumeIP: an integrative database for comparative genomics and transcriptomics of model legumes. Nucleic Acids Research, 40 (D1), D1221–D1229 doi:10.1093/nar/gkr939.

Shen, H., He, X-Z., Poovaiah, C.R., Wuddineh, W.A., Ma, W., Mann, D.G.J., Abercrombie, L., Wang, H., Jackson, L. A., Tang, Y., Stewart, C.N., Chen, F., & Dixon, R. A. (2012). Functional characterization of the switchgrass (Panicum virgatum) R2R3-MYB transcription factor PvMYB4 for improvement of lignocellulosic feedstocks. New Phytologist, 193, 121-136.

Dixon, R. A. (2011). Chris Lamb: A visionary leader in plant science. Annual Review of Phytopathology, 49, 31-45.

Dien, B. S., Miller, D. J., Hector, R. E., Dixon, R. A., Chen, F., McCaslin, M., Reisen, P., Sarath, G., & Cotta, M. L. (2011). Enhancing alfalfa conversion efficiencies for production of sugars and ethanol by altering lignin composition. Bioresource Technology, 102, 6479-6486.

Mann, D.G.J., LaFayette, P.R., Abercrombie, L., King, Z.R., Mazarei, M., Halter, M.C., Poovaiah, C.R., Baxter, H., Shen, H., Dixon, R. A., Parrott, W., & Stewart, C.N. (2011). Gateway-compatible vectors for high-throughput gene functional analysis in switchgrass and other monocot species. Plant Biotechnology Journal, 10, 226-236.

Lee, Y., Chen, F., Dixon, R. A., & Voit, E.O. (2011). Integrative analysis of transgenic alfalfa (Medicago sativa L.) suggests new metabolic control mechanisms for monolignol biosynthesis. PloS Computational Biology, May, doi:10.1371/journal.pcbi.1002047.

Ahmed, F., Benedito, V. A., & Zhao, P. X. (2011). Mining functional elements in messenger RNAs: overview, challenges, and perspectives. Frontiers in Technical Advances in Plant Science, 2, 84 doi:10.3389/fpls.2011.00084.

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.

Tadege, M., Lin, J., Niu, L., & Mysore, K. S. (2011). Control of dicot leaf blade expansion by a WOX gene, STF (Addendum). Plant Signaling & Behavior, 6 (11), 1861-1864.

Wang, H., Zhao, Q., Chen, F., & Dixon, R. A. (2011). NAC domain function and transcriptional control of a secondary cell wall master switch. Plant Journal, 68, 1104-1114.

Peng, J., Yu, J., Wang, H., Li, G., Bai, G, & Chen, R. (2011). Regulation of compound leaf development in Medicago truncatula by Fused Compound Leaf1, a class M KNOX gene. Plant Cell, Advance online, tpc.111.089128 10.1105/tpc.111.089128.

Escamilla-Trevino , L. L. (2011). Potential of plants from the genus Agave as bioenergy crops. BioEnergy Research, October, doi:10.1007/s12155-011-9159-x.

Ishiga, Y., Ishiga, T., Uppalapati, S. R., & Mysore, K. S. (2011). Arabidopsis seedling flood-inoculation technique: A rapid and reliable assay for studying plant-bacterial interactions. Plant Methods, 7 (32), doi:10.1186/1746-4811-7-32.

Peng, J., & Chen, R. (2011). Auxin efflux transporter MtPIN10 regulates compound leaf and flower development in Medicago truncatula . Plant Signaling & Behavior, 6 (10), 1537-1544 10.4161/psb.6.10.17326.

Ghimire, S. R., & Craven, K. D. (2011). Enhancement of switchgrass (Panicum virgatum L.) biomass production under drought conditions by the ectomycorrhizal fungus Sebacina vermifera. Applied and Environmental Microbiology, 77 (19), 7063-7067 doi:10.1128/?AEM.05225-11.

Dyachok, J. , Zhu, L., Liao, F., He, J., Huq, E. , & Blancaflor, E. B. (2011). SCAR mediates light-induced root elongation in Arabidopsis through photoreceptors and proteasomes. Plant Cell, October, doi:10.1105/tpc.111.088823.

Ma, X-F., Tudor, S., Butler, T. J., Ge, Y. X., Xi, Y., Bouton, J. H., Harrison, M. J., & Wang, Z - Y. (2011). Transgenic expression of phytase and acid phosphatase genes in alfalfa (Medicago sativa) leads to improved phosphate uptake in natural soils. Molecular Breeding, September, doi:10.1007/s11032-011-9628-0.

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.

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.

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.

Schoelz, J. E., Harries, P. A. , & Nelson, R. S. (2011). Intracellular transport of plant viruses:Finding the door out of the cell. Molecular Plant, September, doi:10.1093/mp/ssr070.

Puckette, M., Iyer, N. J., Tang, Y., Dai, X., Zhao, P. X., & Mahalingam, R. (2011). Differential mRNA translation in Medicago truncatula accessions with contrasting responses to ozone-induced oxidative stress. Molecular Plant, August 25, doi: 10.1093/mp/ssr069.

Ghimire, S. R., & Craven, K. D. (2011). The ectomycorrhizal fungus Sebacina vermifera, enhances biomass production of switchgrass (Panicum virgatum L.) under drought conditions. Applied and Environmental Microbiology, August, doi:10.1128/AEM.05225-11.

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.

Xu, B., Escamilla-Trevino , L. L. , Sathitsuksanoh, N., Shen, H., Shen, Z., & Dixon, A. (2011). Silencing of 4-coumarate: Coenzyme A ligase in switchgrass leads to reduced lignin content and improved fermentable sugar yields for biofuel production. New Phytologist, 92 (3), 611-625 doi:10.1111/j.1469-8137.2011.03830.x.

Roossinck, M. J., Sabanadzovic, S., Okada, M., & Valverde, R. (In Press).The remarkable evolutionary history of endornaviruses. Journal of General Virology. 92, doi:10.1099/vir.0.034702-0.

Okada, R., Kiyota, E., Sabanadzovic, S., Moriyama, H., Fukuhara, T., Saha, P., Roossinck, M. J., Severin, A., & Valverde, R. (2011). Bell pepper endornavirus: molecular and biological properties and occurrence in the genus Capsicum. Journal of General Virology, 92 (11), 2664-2673 doi:10.1099/vir.0.034686-0.

Shoji, J., & Craven, K. D. (2011). Autophagy in basal hyphal compartments: A green strategy of great recyclers. Fungal Biology Reviews, 25 (2), 79-83 doi:10.1016/j.fbr.2011.04.001.

Ruiz-May, E., De-la-Pena, C., Galaz-Ávalos, R. M, Lei, Z., Watson, B. S., Sumner, L. W., & Loyola-Vargas, V. M. (2011). Methyl jasmonate induces ATP biosynthesis deficiency and accumulation of proteins related to secondary metabolism in Catharanthus roseus (L.) G. hairy roots. Plant Cell & Physiology, , doi:10.1093/pcp/pcr086.

Tadege, M., Lin, H., Bedair, M., Berbel, A., Wen, J. Q., Rojas, C. M. , Niu, L., Tang, Y., Sumner, L. W., Ratet, P., McHale, N. A. , Madueno, F, & Mysore, K. S. (2011). STENOFOLIA regulates blade outgrowth and leaf vascular patterning in Medicago truncatula and Nicotiana sylvestris. Plant Cell, 23 (6), 2125-2142 doi:10.1105/tpc.111.085340.

Roossinck, M. J. (2011). The big unknown: plant virus biodiversity. Current Opinion in Virology, 1 (1), 63-67 doi:10.1016/j.coviro.2011.05.022.

Horvath, B., Yeun, L.H., Domonkos, A., Halasz, A., Gobbato, E., Ayaydin, F., Miró , K., Hirsch, S., Sun, J., Tadege, M., Ratet, P., Mysore, K. S., Ane', J.M., Oldroyd, G., & Kalo, P. (2011). Medicago truncatula IPD3 is a member of the common symbiotic signaling pathway required for rhizobial and mycorrhizal symbioses. Molecular Plant-Microbe Interactions, June, doi:10.1094/MPMI-01-11-0015.

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.

Ghimire, S. R., Richardson, P.A., Kong, P., Hu, J., Lea-Cox, J. D., Ross, D. S. , Moorman, G.W., & Hong, C. (2011). Distribution and diversity of Phytophthora species in nursery irrigation reservoir adopting water recycling system during winter months. Journal of Phytopathology, 159, 713-719 doi:10.1111/j.1439-0434.2011.01831.x.

Zhou, C. , Han, L., Hou, C., Metelli, A. , Qi, L., Tadege, M., Mysore, K. S., & Wang, Z - Y. (2011). Developmental analysis of a Medicago truncatula smooth leaf margin1 mutant reveals context-dependent effects on compound leaf development. Plant Cell, 23 (6), 2106-2124 doi:10.1105/tpc.111.085464 .

Dien, B. S., Miller, D. J., Hector, R. E., Dixon, R. A., Chen, F., McCaslin, M., Reisen, P., Sarath, G., & Cotta, M. L. (2011). Enhancing alfalfa conversion efficiencies for sugar recovery and ethanol production by altering lignin composition. Bioresource Technology, 102 (11), 6479-6486 doi:10.1016/j.biortech.2011.03.022.

Lei, Z., Huhman, D. V., & Sumner, L. W. (2011). Mass spectrometry strategies in metabolomics. Journal of Biological Chemistry, 286 (29), 25435-42 doi:10.1074/jbc.R111.238691.

Laurie, R. E., Diwadkar, P., Jaudal, M., Zhang, L., Hecht, V. , Wen, J. Q., Tadege, M., Mysore, K. S., Putterill, J., Weller, J. W., & Macknight, R.C. (2011). The Medicago truncatula FLOWERING LOCUST homologue, MtFTa1, is a key regulator of flowering time. Plant Physiology, 156 (4), 2207-2224 doi:10.1104/pp.111.180182.

Muthappa, S-K., & Mysore, K. S. (2011). Virus-induced gene silencing can persist for more than 2 years and also be transmitted to progeny seedlings in Nicotiana benthamiana and tomato. Plant Biotechnology Journal, 9 (7), 1-10 doi:10.1111/j.1467-7652.2011.00589.x.

Lei, Z., Dai, X., Watson, T., Zhao, P. X., & Sumner, L. W. (2011). A legume specific protein database (LegProt) improves the number of identified peptides, confidence scores and overall protein identification success rates for legume proteomics. Phytochemistry, , doi:10.1016/j.phytochem.2011.01.026 .

Dai, X., & Zhao, P. X. (2011). psRNATarget: a plant small RNA target analysis server. Nucleic Acids Research, 39, W155–W159 doi:10.1093/nar/gkr319.

Cotter, M. Q., Teaster, N. D., Blancaflor, E. B. , & Chapman, K. D. (2011). N-Acylethanolamine (NAE) inhibits growth in Arabidopsis thaliana seedlings via ABI3-dependent and -independent pathways. Plant Signaling & Behavior, 6 (5), 671-679 doi:10.4161/psb.6.514704.

Srivastava, A. C., Tang, Y., Diaz Garza, R. I., & Blancaflor, E. B. (2011). The plastidial folylpolyglutamate synthetase and root apical meristem maintenance . Plant Signaling & Behavior, 6 (5), 751 - 754 doi:10.1104/pp.110.138278.

Zhao, J., Huhman, D. V., Shadle, G., He, X-Z., Sumner, L. W., Tang, Y., & Dixon, R. A. (2011). MATE2 mediates vacuolar sequestration of flavonoid glycosides and glycoside malonates in Medicago truncatula. Plant Cell, 23, doi:10.1105/tpc.110.080804.

Zhao, Q., & Dixon, R. A. (2011). Transcriptional networks for lignin biosynthesis: more complex than we thought? Trends in Plant Science, 16 (4), 227-233 doi:10.1016/j.tplants.2010.12.005.

Ishiga, Y., Uppalapati, S. R., Ishiga, T., & Mysore, K. S. (2011). Involvement of SGT1 in COR-mediated signal transduction pathway leading to disease symptom development. Plant Signaling & Behavior, 6 (7), 1072-1073 doi:10.4161/psb.6.7.15652.

Ward, C. L., Kleinhart, A., Scortecci, K. C. , Benedito, V. A., & Valentine, A. J. (2011). Phosphorus-deficiency reduces aluminium toxicity by altering uptake and metabolism of root zone carbon dioxide. Journal of Plant Physiology, 168 (5), 459-465 doi:10.1016/j.jplph.2010.08.005.

Ge, L., Gou, X., Nakashima, J., Blancaflor, E. B., Yuan, T., & Russell, S. D. (2011). Migration of sperm cells during pollen tube elongation in Arabidopsis thaliana: behavior during transport, maturation and upon dissociation of male germ unit associations. Planta, 233, 325–332 doi:10.1007/s00425-010-1305-8.

Fu, C-X., Mielenz, J. R., Xiao, X., Ge, Y. X., Hamilton, C. Y., Rodriguez, Jr., M. , Chen, F., Foston, M., Ragauskas, A. J., Bouton, J. H., Dixon, R. A., & Wang, Z - Y. (2011). Genetic manipulation of lignin synthesis in switchgrass reduces recalcitrance and improves ethanol production. PNAS (Proceedings of the National Academy of Sciences), 108 (9), 3803-3808 doi:10.1073/pnas.1100310108.

Zhao, Q., & Meier, I. (2011). Identification and characterization of the Arabidopsis FG-repeat nucleoporin Nup62 . Plant Signaling & Behavior, 6 (3), 330–334 doi:10.4161/psb.6.3.13402.

Li, H., Barker, M., Grahl, N., Puttikamonkul, S., Bell, J., Craven, K. D., & Cramer, Jr, A. (2011). The small GTPase RacA mediates intracellular reactive oxygen species production, polarized growth, and virulence in the human fungal pathogen Aspergillus fumigatus. Eukaryotic Cell, 10 (2), 174–186 doi:10.1128/EC.00288-10.

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.

Bi, C., Chen, F., Jackson, L. A., Gill, B. S., & Li, W. (2011). Expression of lignin biosynthetic genes in wheat during development and upon infection by fungal pathogens. Plant Molecular Biology Reporter, 29, 149-161 doi:10.1007/s11105-010-0219-8.

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.

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.

Roossinck, M. J. (2011). The good viruses: viral mutualistic symbioses . Nature Reviews Microbiology, 9, 99-108 DOI:10.1038/nrmicro2491 .