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Journal Article (84)

1.
Journal Article
Tohge, T., Scossa, F., Wendenburg, R., Frasse, P., Balbo, I., Watanabe, M., Alseekh, S., Jadha, S. S., Delfin, J. C., Lohse, M., Giavalisco, P., Usadel, B., Zhang, Y. J., Luo, J., Bouzayen, M. & Fernie, A. R. Exploiting natural variation in tomato to define pathway structure and metabolic regulation of fruit polyphenolics in the lycopersicum complex. Molecular Plant 13, 1027–1046 (2020).
2.
Journal Article
Cookson, S. J., Yadav, U. P., Klie, S., Morcuende, R., Usadel, B., Lunn, J. E. & Stitt, M. Temporal kinetics of the transcriptional response to carbon depletion and sucrose readdition in Arabidopsis seedlings. Plant, Cell and Environment 39, 768–786 (2016).
3.
Journal Article
Bolger, A. M., Scossa, F., Bolger, A. M., Lanz, C., Maumus, F., Tohge, T., Quesneville, H., Alseekh, S., Sorensen, I., Lichtenstein, G., Fich, E. A., Conte, M., Keller, H., Schneeberger, K., Schwacke, R., Ofner, I., Vrebalov, J., Xu, Y., Osorio, S., Aflitos, S. A., Schijlen, E., Jimenez-Gomez, J. M., Ryngajllo, M., Kimura, S., Kumar, R., Koenig, D., Headland, L. R., Maloof, J. N., Sinha, N., van Ham, R. C. H. J., Lankhorst, R. K., Mao, L., Vogel, A., Arsova, B., Panstruga, R., Fei, Z., Rose, J. K. C., Zamir, D., Carrari, F. F., Giovannoni, J. J., Weigel, D., Usadel, B. & Fernie, A. R. The genome of the stress-tolerant wild tomato species Solanum pennellii. Nature Genetics 46, 1034–1038 (2014).
4.
Journal Article
Bolger, M. E., Weisshaar, B., Scholz, U., Stein, N., Usadel, B. & Mayer, K. F. X. Plant genome sequencing — applications for crop improvement. Current Opinion in Biotechnology 26, 31–37 (2014).
5.
Journal Article
Ito, J., Herter, T., Baidoo, E. E., Lao, J., Vega-Sánchez, M. E., Smith-Moritz, M. A., Adams, P. D., Keasling, J. D., Usadel, B., Petzold, C. J. & Heazlewood, J. L. Analysis of plant nucleotide sugars by hydrophilic interaction liquid chromatography and tandem mass spectrometry. Analytical Biochemistry 448, 14–22 (2014).
6.
Journal Article
Ramšak, Ž., Baebler, Š., Rotter, A., Korbar, M., Mozetič, I., Usadel, B. & Gruden, K. GoMapMan: integration, consolidation and visualization of plant gene annotations within the MapMan ontology. Nucleic Acids Research 42, D1167–D1175 (2014).
7.
Journal Article
Lee, Y. P., Giorgi, F. M., Lohse, M., Kvederaviciute, K., Klages, S., Usadel, B., Meskiene, I., Reinhardt, R. & Hincha, D. K. Transcriptome sequencing and microarray design for functional genomics in the extremophile Arabidopsis relative Thellungiella salsuginea (Eutrema salsugineum). BMC Genomics 14, 793–793 (2013).
8.
Journal Article
Li, J.-W., Bolser, D., Manske, M., Giorgi, F., Vyahhi, N., Usadel, B., Clavijo, B. J., Chan, T.-F., Wong, N., Zerbino, D. & Schneider, M. V. The NGS WikiBook: a dynamic collaborative online training effort with long-term sustainability. Briefings in Bioinformatics 14, 548–555 (2013).
9.
Journal Article
Matsuba, Y., Nguyen, T. T. H., Wiegert, K., Falar, V., Gonzales-Vigil, E., Leong, B., Schaefer, P., Kudrna, D., Wing, R. A., Bolger, A. M., Usadel, B., Tissier, A., Fernie, A. R., Barry, C. S. & Pichersky, E. Evolution of a Complex Locus for Terpene Biosynthesis in Solanum. The Plant Cell 25, 2022–2036 (2013).
10.
Journal Article
Fernie, A. R. & Usadel, B. The plant transcriptome – from integrating observations to models. Frontiers in Plant Science 4, 48 (2013).
11.
Journal Article
Koenig, D., Jimenez-Gomez, J. M., Kimura, S., Fulop, D., Chitwood, D. H., Headland, L. R., Kumar, R., Covington, M. F., Devisetty, U. K., Tat, A. V., Tohge, T., Bolger, A. M., Schneeberger, K., Ossowski, S., Lanz, C., Xiong, G., Taylor-Teeples, M., Brady, S. M., Pauly, M., Weigel, D., Usadel, B., Fernie, A. R., Peng, J., Sinha, N. R. & Maloof, J. N. Comparative transcriptomics reveals patterns of selection in domesticated and wild tomato. Proceedings of the National Academy of Sciences of the United States of America 110, E2655–E2662 (2013).
12.
Journal Article
Müller, K., Levesque-Tremblay, G., Bartels, S., Weitbrecht, K., Wormit, A., Usadel, B., Haughn, G. & Kermode, A. R. Demethylesterification of Cell Wall Pectins in Arabidopsis Plays a Role in Seed Germination1[W][OA]. Plant Physiology 161, 305–316 (2013).
13.
Journal Article
Muller, K., Levesque-Tremblay, G., Fernandes, A., Wormit, A., Bartels, S., Usadel, B. & Kermode, A. Overexpression of a pectin methylesterase inhibitor in Arabidopsis thaliana leads to altered growth morphology of the stem and defective organ separation. Plant Signaling & Behavior 8, (2013).
14.
Journal Article
Pal, S. K., Liput, M., Piques, M., Ishihara, H., Obata, T., Martins, M. C., Sulpice, R., van Dongen, J. T., Fernie, A. R., Yadav, U. P., Lunn, J. E., Usadel, B. & Stitt, M. Diurnal changes of polysome loading track sucrose content in the rosette of wildtype Arabidopsis and the starchless pgm mutant. Plant Physiology 162, 1246–1265 (2013).
15.
Journal Article
Usadel, B., Schwacke, R., Nagel, A. & Kersten, B. GabiPD – The GABI Primary Database integrates plant proteomic data with gene-centric information. Frontiers in Plant Science 3, (2012).
16.
Journal Article
Araujo, W. L., Tohge, T., Osorio, S., Lohse, M., Balbo, I., Krahnert, I., Sienkiewicz-Porzucek, A., Usadel, B., Nunes-Nesi, A. & Fernie, A. R. Antisense Inhibition of the 2-Oxoglutarate Dehydrogenase Complex in Tomato Demonstrates Its Importance for Plant Respiration and during Leaf Senescence and Fruit Maturation. The Plant Cell 24, 2328–2351 (2012).
17.
Journal Article
Gouws, L. M., Botes, E., Wiese, A. J., Trenkamp, S., Torres-Jerez, I., Tang, Y., Hills, P. N., Usadel, B., Lloyd, J. R., Fernie, A. R., Kossmann, J. & van der Merwe, M. J. The plant growth promoting substance, lumichrome, mimics starch, and ethylene-associated symbiotic responses in lotus and tomato roots. Frontiers in Plant Science 3, 120 (2012).
18.
Journal Article
Li, J. W., Robison, K., Martin, M., Sjodin, A., Usadel, B., Young, M., Olivares, E. C. & Bolser, D. M. The SEQanswers wiki: a wiki database of tools for high-throughput sequencing analysis. Nucleic Acids Research 40, D1313–D1317 (2012).
19.
Journal Article
Lohse, M., Bolger, A. M., Nagel, A., Fernie, A. R., Lunn, J. E., Stitt, M. & Usadel, B. RobiNA: a user-friendly, integrated software solution for RNA-Seq-based transcriptomics. Nucleic Acids Research 40, W622–W627 (2012).
20.
Journal Article
Neumetzler, L., Humphrey, T., Lumba, S., Snyder, S., Yeats, T. H., Usadel, B., Vasilevski, A., Patel, J., Rose, J. K. C., Persson, S. & Bonetta, D. The FRIABLE1 Gene Product Affects Cell Adhesion in Arabidopsis. PLoS One 7, e42914 (2012).
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