Publications of M. Mutwil

Journal Article (35)

1.
Journal Article
Shivhare, D., Musialak-Lange, M., Julca, I., Gluza, P. & Mutwil, M. Removing auto-activators from yeast-two-hybrid assays by conditional negative selection. Scientific Reports 11, (2021).
2.
Journal Article
Ferrari, C., Shivhare, D., Hansen, B. O., Pasha, A., Esteban, E., Provart, N. J., Kragler, F., Fernie, A. R., Tohge, T. & Mutwil, M. Expression Atlas of Selaginella moellendorffii Provides Insights into the Evolution of Vasculature, Secondary Metabolism, and Roots. The Plant Cell 32, 853–870 (2020).
3.
Journal Article
Ferrari, C. & Mutwil, M. Gene expression analysis of Cyanophora paradoxa reveals conserved abiotic stress responses between basal algae and flowering plants. New Phytologist 225, 1562–1577 (2020).
4.
Journal Article
Ferrari, C., Proost, S., Janowski, M., Becker, J., Nikoloski, Z., Bhattacharya, D., Price, D., Tohge, T., Bar-Even, A., Fernie, A. R., Stitt, M. & Mutwil, M. Kingdom-wide comparison reveals the evolution of diurnal gene expression in Archaeplastida. Nature Communications 10, (2019).
5.
Journal Article
Flores-Tornero, M., Proost, S., Mutwil, M., Scutt, C. P., Dresselhaus, T. & Sprunck, S. Transcriptomics of manually isolated Amborella trichopoda egg apparatus cells. Plant Reproduction 32, 15–27 (2019).
6.
Journal Article
Price, D. C., Goodenough, U. W., Roth, R., Lee, J.-H., Kariyawasam, T., Mutwil, M., Ferrari, C., Facchinelli, F., Ball, S. G., Cenci, U., Chan, C. X., Wagner, N. E., Yoon, H. S., Weber, A. P. M. & Bhattacharya, D. Analysis of an improved Cyanophora paradoxa genome assembly. DNA research: an international journal for rapid publication of reports on genes and genomes 26, 287–299 (2019).
7.
Journal Article
Rosado-Souza, L., Proost, S., Moulin, M., Bergmann, S., Bocobza, S. E., Aharoni, A., Fitzpatrick, T. B., Mutwil, M., Fernie, A. R. & Obata, T. Appropriate Thiamin Pyrophosphate Levels Are Required for Acclimation to Changes in Photoperiod. Plant Physiology 180, 185–197 (2019).
8.
Journal Article
Janowski, M., Zoschke, R., Scharff, L. B., Martinez-Jaime, S., Ferrari, C., Proost, S., Ng Wei Xiong, J., Omranian, N., Musialak-Lange, M., Nikoloski, Z., Graf, A., Schöttler, M. A., Sampathkumar, A., Vaid, N. & Mutwil, M. AtRsgA from Arabidopsis thaliana is important for maturation of the small subunit of the chloroplast ribosome. The Plant Journal 96, 404–420 (2018).
9.
Journal Article
Ferrari, C., Proost, S., Ruprecht, C. & Mutwil, M. PhytoNet: comparative co-expression network analyses across phytoplankton and land plants. Nucleic Acids Research 46, W76–W83 (2018).
10.
Journal Article
Hansen, B. O., Meyer, E. H., Ferrari, C., Vaid, N., Movahedi, S., Vandepoele, K., Nikoloski, Z. & Mutwil, M. Ensemble gene function prediction database reveals genes important for complex I formation in Arabidopsis thaliana. New Phytologist 217, 1521–1534 (2018).
11.
Journal Article
Proost, S. & Mutwil, M. CoNekT: an open-source framework for comparative genomic and transcriptomic network analyses. Nucleic Acids Research 46, W133–W140 (2018).
12.
Journal Article
Proost, S., Krawczyk, A. & Mutwil, M. LSTrAP: efficiently combining RNA sequencing data into co-expression networks. BMC Bioinformatics 18, (2017).
13.
Journal Article
Ruprecht, C., Lohaus, R., Vanneste, K., Mutwil, M., Nikoloski, Z., Van de Peer, Y. & Persson, S. Revisiting ancestral polyploidy in plants. Science Advances 3, (2017).
14.
Journal Article
Ruprecht, C., Proost, S., Hernandez-Coronado, M., Ortiz-Ramirez, C., Lang, D., Rensing, S. A., Becker, J. D., Vandepoele, K. & Mutwil, M. Phylogenomic analysis of gene co-expression networks reveals the evolution of functional modules. The Plant Journal 90, 447–465 (2017).
15.
Journal Article
Ruprecht, C., Vaid, N., Proost, S., Persson, S. & Mutwil, M. Beyond Genomics: Studying Evolution with Gene Coexpression Networks. Trends in Plant Science 22, 298–307 (2017).
16.
Journal Article
Sibout, R., Proost, S., Hansen, B. O., Vaid, N., Giorgi, F. M., Ho-Yue-Kuang, S., Legee, F., Cezart, L., Bouchabke-Coussa, O., Soulhat, C., Provart, N., Pasha, A., Le Bris, P., Roujol, D., Hofte, H., Jamet, E., Lapierre, C., Persson, S. & Mutwil, M. Expression atlas and comparative coexpression network analyses reveal important genes involved in the formation of lignified cell wall in Brachypodium distachyon. New Phytologist 215, 1009–1025 (2017).
17.
Journal Article
Proost, S. & Mutwil, M. Tools of the trade: studying molecular networks in plants. Current Opinion in Plant Biology 30, 143–150 (2016).
18.
Journal Article
Ruprecht, C., Mendrinna, A., Tohge, T., Sampathkumar, A., Klie, S., Fernie, A. R., Nikoloski, Z., Persson, S. & Mutwil, M. FamNet: A Framework to Identify Multiplied Modules Driving Pathway Expansion in Plants. Plant Physiology 170, 1878–1894 (2016).
19.
Journal Article
Wu, S., Alseekh, S., Cuadros-Inostroza, A. C., Fusari, C. M., Mutwil, M., Kooke, R., Keurentjes, J. B., Fernie, A. R., Willmitzer, L. & Brotman, Y. Combined Use of Genome-Wide Association Data and Correlation Networks Unravels Key Regulators of Primary Metabolism in Arabidopsis thaliana. PLoS Genetics 12, (2016).
20.
Journal Article
Wang, T., Tohge, T., Ivakov, A., Mueller-Roeber, B., Fernie, A. R., Mutwil, M., Schippers, J. H. M. & Persson, S. Salt-Related MYB1 Coordinates Abscisic Acid Biosynthesis and Signaling during Salt Stress in Arabidopsis. Plant Physiology 169, 1027–1041 (2015).
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