Publications of the MPI

101.

Journal Article

Küken, A.; Eloundou-Mbebi, J. M. O.; Basler, G.; Nikoloski, Z.: Cellular determinants of metabolite concentration ranges. PLoS Computational Biology 15 (1), e1006687 (2019)

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102.

Journal Article

Küken, A.; Nikoloski, Z.: Computational Approaches to Design and Test Plant Synthetic Metabolic Pathways. Plant Physiology 179 (3), pp. 894 - 906 (2019)

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103.

Journal Article

Kurochkin, I.; Khrameeva, E.; Tkachev, A.; Stepanova, V.; Vanyushkina, A.; Stekolshchikova, E.; Li, Q.; Zubkov, D.; Shichkova, P.; Halene, T. et al.; Willmitzer, L.; Giavalisco, P.; Akbarian, S.; Khaitovich, P.: Metabolome signature of autism in the human prefrontal cortex. Communications Biology 2 (1), 234 (2019)

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104.

Journal Article

Laitinen, R.; Nikoloski, Z.: Genetic basis of plasticity in plants. Journal of Experimental Botany 70 (3), pp. 739 - 745 (2019)

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105.

Journal Article

Langary, D.; Nikoloski, Z.: Inference of chemical reaction networks based on concentration profiles using an optimization framework. Chaos: An Interdisciplinary Journal of Nonlinear Science 29 (11), 113121, p. 113121 (2019)

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106.

Journal Article

Lazare, S.; Bechar, D.; Fernie, A. R.; Brotman, Y.; Zaccai, M.: The proof is in the bulb: glycerol influences key stages of lily development. The Plant Journal 97 (2), pp. 321 - 340 (2019)

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107.

Journal Article

Leebens-Mack, J. H.; Barker, M. S.; Carpenter, E. J.; Deyholos, M. K.; Gitzendanner, M. A.; Graham, S. W.; Grosse, I.; Li, Z.; Melkonian, M.; Mirarab, S. et al.; Porsch, M.; Quint, M.; Rensing, S. A.; Soltis, D. E.; Soltis, P. S.; Stevenson, D. W.; Ullrich, K. K.; Wickett, N. J.; DeGironimo, L.; Edger, P. P.; Jordon-Thaden, I. E.; Joya, S.; Liu, T.; Melkonian, B.; Miles, N. W.; Pokorny, L.; Quigley, C.; Thomas, P.; Villarreal, J. C.; Augustin, M. M.; Barrett, M. D.; Baucom, R. S.; Beerling, D. J.; Benstein, R. M.; Biffin, E.; Brockington, S. F.; Burge, D. O.; Burris, J. N.; Burris, K. P.; Burtet-Sarramegna, V.; Caicedo, A. L.; Cannon, S. B.; Çebi, Z.; Chang, Y.; Chater, C.; Cheeseman, J. M.; Chen, T.; Clarke, N. D.; Clayton, H.; Covshoff, S.; Crandall-Stotler, B. J.; Cross, H.; dePamphilis, C. W.; Der, J. P.; Determann, R.; Dickson, R. C.; Stilio, D.; S., V.; Ellis, S.; Fast, E.; Feja, N.; Field, K. J.; Filatov, D. A.; Finnegan, P. M.; Floyd, S. K.; Fogliani, B.; García, N.; Gâteblé, G.; Godden, G. T.; Goh, F. (. Y.; Greiner, S.; Harkess, A.; Heaney, J. M.; Helliwell, K. E.; Heyduk, K.; Hibberd, J. M.; Hodel, R. G. J.; Hollingsworth, P. M.; Johnson, M. T. J.; Jost, R.; Joyce, B.; Kapralov, M. V.; Kazamia, E.; Kellogg, E. A.; Koch, M. A.; Von Konrat, M.; Könyves, K.; Kutchan, T. M.; Lam, V.; Larsson, A.; Leitch, A. R.; Lentz, R.; Li, F.-W.; Lowe, A. J.; Ludwig, M.; Manos, P. S.; Mavrodiev, E.; McCormick, M. K.; McKain, M.; McLellan, T.; McNeal, J. R.; Miller, R. E.; Nelson, M. N.; Peng, Y.; Ralph, P.; Real, D.; Riggins, C. W.; Ruhsam, M.; Sage, R. F.; Sakai, A. K.; Scascitella, M.; Schilling, E. E.; Schlösser, E.-M.; Sederoff, H.; Servick, S.; Sessa, E. B.; Shaw, A. J.; Shaw, S. W.; Sigel, E. M.; Skema, C.; Smith, A. G.; Smithson, A.; Stewart, C. N.; Stinchcombe, J. R.; Szövényi, P.; Tate, J. A.; Tiebel, H.; Trapnell, D.; Villegente, M.; Wang, C.-N.; Weller, S. G.; Wenzel, M.; Weststrand, S.; Westwood, J. H.; Whigham, D. F.; Wu, S.; Wulff, A. S.; Yang, Y.; Zhu, D.; Zhuang, C.; Zuidof, J.; Chase, M. W.; Pires, J. C.; Rothfels, C. J.; Yu, J.; Chen, C.; Chen, L.; Cheng, S.; Li, J.; Li, R.; Li, X.; Lu, H.; Ou, Y.; Sun, X.; Tan, X.; Tang, J.; Tian, Z.; Wang, F.; Wang, J.; Wei, X.; Xu, X.; Yan, Z.; Yang, F.; Zhong, X.; Zhou, F.; Zhu, Y.; Zhang, Y.; Ayyampalayam, S.; Barkman, T. J.; Nguyen, N.-p.; Matasci, N.; Nelson, D. R.; Sayyari, E.; Wafula, E. K.; Walls, R. L.; Warnow, T.; An, H.; Arrigo, N.; Baniaga, A. E.; Galuska, S.; Jorgensen, S. A.; Kidder, T. I.; Kong, H.; Lu-Irving, P.; Marx, H. E.; Qi, X.; Reardon, C. R.; Sutherland, B. L.; Tiley, G. P.; Welles, S. R.; Yu, R.; Zhan, S.; Gramzow, L.; Theißen, G.; Wong, G. K.-S.; Initiative, O. T. P. T.: One thousand plant transcriptomes and the phylogenomics of green plants. Nature 574 (7780), pp. 679 - 685 (2019)

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108.

Journal Article

Lehwark, P.; Greiner, S.: GB2sequin-A file converter preparing custom GenBank files for database submission. Genomics 111 (4), pp. 759 - 761 (2019)

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109.

Journal Article

Levey, M.; Timm, S.; Mettler-Altmann, T.; Borghi, G.L.; Koczor, M.; Arrivault, S.; Pm Weber, A.; Bauwe, H.; Gowik, U.; Westhoff, P.: Efficient 2-phosphoglycolate degradation is required to maintain carbon assimilation and allocation in the C4 plant Flaveria bidentis. Journal of Experimental Botany 70 (2), pp. 575 - 587 (2019)

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110.

Journal Article

Li, J.; Tietz, S.; Cruz, J. A.; Strand, D.; Xu, Y.; Chen, J.; Kramer, D. M.; Hu, J.: Photometric screens identified Arabidopsis peroxisome proteins that impact photosynthesis under dynamic light conditions. The Plant Journal 97 (3), pp. 460 - 474 (2019)

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111.

Journal Article

Li, L.; Krznar, P.; Erban, A.; Agazzi, A.; Martin-Levilain, J.; Supale, S.; Kopka, J.; Zamboni, N.; Maechler, P.: Metabolomics identifies a biomarker revealing in vivo loss of functional β-cell mass before diabetes onset. Diabetes 68 (12), pp. 2272 - 2286 (2019)

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112.

Journal Article

Li, M.; Keenan, C. R.; Lopez-Campos, G.; Mangum, J. E.; Chen, Q.; Prodanovic, D.; Xia, Y. C.; Langenbach, S. Y.; Harris, T.; Hofferek, V. et al.; Reid, G. E.; Stewart, A. G.: A Non-canonical Pathway with Potential for Safer Modulation of Transforming Growth Factor-beta 1 in Steroid-Resistant Airway Diseases. iScience 12, pp. 232 - 246 (2019)

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113.

Journal Article

Li, Y.; Lu, Y.; Li, L.; Chu, Z.; Zhang, H.; Li, H.; Fernie, A. R.; Ouyang, B.: Impairment of hormone pathways results in a general disturbance of fruit primary metabolism in tomato. Food Chemistry 274, pp. 170 - 179 (2019)

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114.

Journal Article

Li, Z.; Bock, R.: Rapid functional activation of a horizontally transferred eukaryotic gene in a bacterial genome in the absence of selection. Nucleic Acids Research 47 (12), pp. 6351 - 6359 (2019)

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115.

Journal Article

Ligas, J.; Pineau, E.; Bock, R.; Huynen, M. A.; Meyer, E. H.: The assembly pathway of complex I in Arabidopsis thaliana. The Plant Journal 97 (3), pp. 447 - 459 (2019)

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116.

Journal Article

Lima, V. F.; Anjos, L. d.; Medeiros, D.B.; Cândido-Sobrinho, S. A.; de Souza, L. P.; Gago, J.; Fernie, A. R.; Daloso, D. M.: The sucrose-to-malate ratio correlates with the faster CO2 and light stomatal responses of angiosperms compared to ferns. New Phytologist 223 (4), pp. 1873 - 1887 (2019)

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117.

Journal Article

Liu, M.-Y.; Tang, D.; Shi, Y.; Ma, L.; Li, Y.; Zhang, Q.; Ruan, J.: Short-term inhibition of glutamine synthetase leads to reprogramming of amino acid and lipid metabolism in roots and leaves of tea plant (Camellia sinensis L.). BMC Plant Biology 19 (1), 425 (2019)

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118.

Journal Article

Loiacono, F.V.; Thiele, W.; Schöttler, M. A.; Tillich, M.; Bock, R.: Establishment of a Heterologous RNA Editing Event in Chloroplasts. Plant Physiology 181 (3), pp. 891 - 900 (2019)

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119.

Journal Article

Lortzing, V.; Oberlaender, J.; Lortzing, T.; Tohge, T.; Steppuhn, A.; Kunze, R.; Hilker, M.: Insect egg deposition renders plant defence against hatching larvae more effective in a salicylic acid-dependent manner. Plant, Cell and Environment 42 (3 - SI), pp. 1019 - 1032 (2019)

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120.

Journal Article

Luzarowski, M.; Skirycz, A.: Emerging strategies for the identification of protein-metabolite interactions. Journal of Experimental Botany 70 (18), pp. 4605 - 4618 (2019)

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121.

Journal Article

Ma, X.; Balazadeh, S.; Mueller-Roeber, B.: Tomato fruit ripening factor NOR controls leaf senescence. Journal of Experimental Botany 70 (10), pp. 2727 - 2740 (2019)

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122.

Journal Article

Machin, F. Q.; Beckers, M.; Tian, X.; Fairnie, A.; Cheng, T.; Scheible, W.-R.; Doerner, P.: Inducible reporter/driver lines for the Arabidopsis root with intrinsic reporting of activity state. The Plant Journal 98 (1), pp. 153 - 164 (2019)

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123.

Journal Article

Madhavan, S.; Paranidharan, V.; Erban, A.; Al-Sadi, A.M.; Kopka, J.; Velazhahan, R.: The metabolic response of suspension-cultured cells from blast-resistant and -susceptible rice (Oryza sativa L.) genotypes to a Pyricularia oryzae elicitor. Indian Phytopathology 72 (2), pp. 195 - 202 (2019)

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124.

Journal Article

Mangel, N.; Fudge, J. B.; Li, K.-T.; Wu, T.-Y.; Tohge, T.; Fernie, A. R.; Szurek, B.; Fitzpatrick, T. B.; Gruissem, W.; Vanderschuren, H.: Enhancement of vitamin B-6 levels in rice expressing Arabidopsis vitamin B-6 biosynthesis de novo genes. The Plant Journal 99 (6), pp. 1047 - 1065 (2019)

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125.

Journal Article

Martins, A. O.; Omena-Garcia, R. P.; Oliveira, F. S.; Silva, W. A.; Hajirezaei, M.-R.; Vallarino, J. G.; Ribeiro, D. M.; Fernie, A. R.; Nunes-Nesi, A.; Araujo, W. L.: Differential root and shoot responses in the metabolism of tomato plants exhibiting reduced levels of gibberellin. Environmental and Experimental Botany 157, pp. 331 - 343 (2019)

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126.

Journal Article

Matz, J. M.; Watanabe, M.; Falade, M.; Tohge, T.; Hoefgen, R.; Matuschewski, K.: Plasmodium Para-Aminobenzoate Synthesis and Salvage Resolve Avoidance of Folate Competition and Adaptation to Host Diet. Cell Reports 26 (2), pp. 356 - 363 (2019)

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127.

Journal Article

McFarlane, C.R.; Shah, N.R.; Kabasakal, B.V.; Echeverria, B.; Cotton, C. A. R.; Bubeck, D.; Murray, J.W.: Structural basis of light-induced redox regulation in the Calvin–Benson cycle in cyanobacteria. Proceedings of the National Academy of Sciences of the United States of America 116 (42), pp. 20984 - 20990 (2019)

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128.

Journal Article

Medeiros, D.B.; Arrivault, S.; Alpers, J.; Fernie, A. R.; Aarabi, F.: Non-aqueous Fractionation (NAF) for Metabolite Analysis in Subcellular Compartments of Arabidopsis Leaf Tissues. Bio-protocol 9 (20), UNSP e3399 (2019)

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129.

Journal Article

Medeiros, D.B.; da Luz, L.M.; de Oliveira, H.O.; Araújo, W.L.; Daloso, D.M.; Fernie, A. R.: Metabolomics for understanding stomatal movements. Theoretical and Experimental Plant Physiology 31 (1), pp. 91 - 102 (2019)

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130.

Journal Article

Meyer, E. H.; Welchen, E.; Carrie, C.: Assembly of the Complexes of the Oxidative Phosphorylation System in Land Plant Mitochondria. Annual Review of Plant Biology 70, pp. 23 - 50 (2019)

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131.

Journal Article

Meyer, R. C.; Gryczka, C.; Neitsch, C.; Mueller, M.; Braeutigam, A.; Schlereth, A.; Schoen, H.; Weigelt-Fischer, K.; Altmann, T.: Genetic diversity for nitrogen use efficiency in Arabidopsis thaliana. Planta 250 (1), pp. 41 - 57 (2019)

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132.

Journal Article

Moreno, J.C.: The proteOMIC era: a useful tool to gain deeper insights into plastid physiology. Theoretical and Experimental Plant Physiology 31 (1), pp. 157 - 171 (2019)

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133.

Journal Article

Moreno-Romero, J.; Del Toro-De Leon, G.; Yadav, V. K.; Santos-Gonzalez, J.; Köhler, C.: Epigenetic signatures associated with imprinted paternally expressed genes in the Arabidopsis endosperm. Genome Biology: Biology for the Post-Genomic Era 20, 41 (2019)

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134.

Journal Article

Moschen, S.; Marino, J.; Nicosia, S.; Higgins, J.; Alseekh, S.; Astigueta, F.; Bengoa Luoni, S.; Rivarola, M.; Fernie, A. R.; Blanchet, N. et al.; Langlade, N.B.; Paniego, N.; Fernández, P.; Heinz, R.A.: Exploring gene networks in two sunflower lines with contrasting leaf senescence phenotype using a system biology approach. BMC Plant Biology 19 (1), p. 446 (2019)

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135.

Journal Article

Mubeen, U.; Giavalisco, P.; Caldana, C.: TOR inhibition interrupts the metabolic homeostasis by shifting the carbon-nitrogen balance in Chlamydomonas reinhardtii. Plant Signaling & Behavior 14 (11), 1670595, p. 1670595 (2019)

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136.

Journal Article

Mur, L.A.J.; Kumari, A.; Brotman, Y.; Zeier, J.; Mandon, J.; Cristescu, S.M.; Harren, F.; Kaiser, W.M.; Fernie, A. R.; Gupta, K.J.: Nitrite and nitric oxide are important in the adjustment of primary metabolism during the hypersensitive response in tobacco. Journal of Experimental Botany 70 (17), pp. 4571 - 4582 (2019)

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137.

Journal Article

Murik, O.; Tirichine, L.; Prihoda, J.; Thomas, Y.; Araujo, W. L.; Allen, A. E.; Fernie, A. R.; Bowler, C.: Downregulation of mitochondrial alternative oxidase affects chloroplast function, redox status and stress response in a marine diatom. New Phytologist 221 (3), pp. 1303 - 1316 (2019)

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138.

Journal Article

Naake, T.; Fernie, A. R.: MetNet: Metabolite Network Prediction from High-Resolution Mass Spectrometry Data in R Aiding Metabolite Annotation. Analytical Chemistry 91 (3), pp. 1768 - 1772 (2019)

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139.

Journal Article

Naseri, G.; Behrend, J.; Rieper, L.; Mueller-Roeber, B.: COMPASS for rapid combinatorial optimization of biochemical pathways based on artificial transcription factors. Nature Communications 10, 2615 (2019)

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140.

Journal Article

Nieuwkoop, T.; Claassens, N. J.; van der Oost, J.: Improved protein production and codon optimization analyses in Escherichia coli by bicistronic design. Microbial Biotechnology 12 (1), pp. 173 - 179 (2019)

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141.

Journal Article

Nieva, A.S.; Vilas, J.M.; Gárriz, A.; Maiale, S.J.; Menéndez, A.B.; Erban, A.; Kopka, J.; Ruiz, O.A.: The fungal endophyte Fusarium solani provokes differential effects on the fitness of two Lotus species. Plant Physiology and Biochemistry 144, pp. 100 - 109 (2019)

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142.

Journal Article

Nunes-Nesi, A.; Alseekh, S.; de Silva, O.; Magnum, F.; Omranian, N.; Lichtenstein, G.; Mirnezhad, M.; González, R. R. R.; Garcia, J. S. y.; Conte, M. et al.; Leiss, K. A.; Klinkhamer, P. G. L.; Nikoloski, Z.; Carrari, F.; Fernie, A. R.: Identification and characterization of metabolite quantitative trait loci in tomato leaves and comparison with those reported for fruits and seeds. Metabolomics 15 (4), 46 (2019)

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143.

Journal Article

Olas, J. J.; Van Dingenen, J.; Abel, C.; Dzialo, M.; Feil, R.; Krapp, A.; Schlereth, A.; Wahl, V.: Nitrate acts at the Arabidopsis thaliana shoot apical meristem to regulate flowering time. New Phytologist 223 (2), pp. 814 - 827 (2019)

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144.

Journal Article

Olas, J. J.; Wahl, V.: Tissue-specific NIA1 and NIA2 expression in Arabidopsis thaliana. Plant Signaling & Behavior 14 (11), 1656035 (2019)

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145.

Journal Article

Omena-Garcia, R. P.; Martins, A. O.; Medeiros, D.B.; Vallarino, J. G.; Ribeiro, D. M.; Fernie, A. R.; Araújo, W. L.; Nunes-Nesi, A.: Growth and metabolic adjustments in response to gibberellin deficiency in drought stressed tomato plants. Environmental and Experimental Botany 159, pp. 95 - 107 (2019)

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146.

Journal Article

Pandey, P. K.; Quilichini, T. D.; Vaid, N.; Gao, P.; Xiang, D.; Datla, R.: Versatile and multifaceted CRISPR/Cas gene editing tool for plant research. Seminars in Cell & Developmental Biology 96, pp. 107 - 114 (2019)

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147.

Journal Article

Pandey, P. K.; Yu, J.; Omranian, N.; Alseekh, S.; Vaid, N.; Fernie, A. R.; Nikoloski, Z.; Laitinen, R.: Plasticity in metabolism underpins local responses to nitrogen in Arabidopsis thaliana populations. Plant Direct 3 (11), e00186 (2019)

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148.

Journal Article

Patzke, K.; Prananingrum, P.; Klemens, P. A. W.; Trentmann, O.; Rodrigues, C. M.; Keller, I.; Fernie, A. R.; Geigenberger, P.; Boelter, B.; Lehmann, M. et al.; Schmitz-Esser, S.; Pommerrenig, B.; Haferkamp, I.; Neuhaus, H. E.: The Plastidic Sugar Transporter pSuT Influences Flowering and Affects Cold Responses. Plant Physiology 179 (2), pp. 569 - 587 (2019)

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149.

Journal Article

Pérez-Díaz, J.; Pérez-Díaz, J.R.; Medeiros, D.B.; Zuther, E.; Hong, C.-Y.; Nunes-Nesi, A.; Hincha, D. K.; Ruiz-Lara, S.; Casaretto, J.A.: Transcriptome analysis reveals potential roles of a barley ASR gene that confers stress tolerance in transgenic rice. Journal of Plant Physiology 238, pp. 29 - 39 (2019)

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150.

Journal Article

Perlikowski, D.; Augustyniak, A.; Masajada, K.; Skirycz, A.; Soja, A. M.; Eckhardt, Ä.; Wolter, G.; Kosmala, A.: Structural and metabolic alterations in root systems under limited water conditions in forage grasses of Lolium-Festuca complex. Plant Science 283, pp. 211 - 223 (2019)

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Journal Article (211)