Current PhD Students

Publications of X. Gan

Journal Article (25)

2024
Journal Article
Emonet, A.; Awad, M.; Tikhomirov, N.; Vasilarou, M.; Pérez Antón, M.; Gan, X.; Novikova, P. Y.; Hay, A.: Polyploid genome assembly of Cardamine chenopodiifolia. bioRxiv: the preprint server for biology (2024)
Journal Article
Xuan, Y. H.; Wang, Y.; Gao, L.; Gan, X.: Editorial: Novel insights into the regulatory role of sugar and amino acids signaling in plant-microbe interactions. Frontiers in Plant Science 14, 1261186 (2024)
2023
Journal Article
Awad, M.; Gan, X.: GALA: a computational framework for de novo chromosome-by chromosome assembly with long reads. Nature Communications 14, 204 (2023)
Journal Article
Baumgarten, L.; Pieper, B.; Song, B.; Mane, S.; Lempe, J.; Lamb, J.; Cooke, E. L.; Srivastava, R.; Struett, S.; Zanko, D. et al.; Casimiro, P. G. P.; Hallab, A.; Cartolano, M.; Tattersall, A. D.; Huettel, B.; Filatov, D. A.; Pavlidis, P.; Neuffer, B.; Bazakos, C.; Schaefer, H.; Mott, R.; Gan, X.; Alonso-Blanco, C.; Laurent, S.; Tsiantis, M.: Pan-European study of genotypes and phenotypes in the Arabidopsis relative Cardamine hirsuta reveals how adaptation, demography, and development shape diversity patterns. PLoS Biology 21 (7), e3002191 (2023)
2021
Journal Article
Galstyan, A.; Sarchet, P.; Campos Martin, R.; Adibi, M.; Lachezar, N.; Pérez Antón, M.; Rambaud-Lavigne, L.; Gan, X.; Hay, A.: INDEHISCENT regulates explosive seed dispersal. bioRxive, 448014 (2021)
Journal Article
Winkelmueller, T. M.; Entila, F.; Anver, S.; Piasecka, A.; Song, B.; Dahms, E.; Sakakibara, H.; Gan, X.; Kułak, K.; Sawikowska, A. et al.; Krajewski, P.; Garrido-Oter, R.; Tsiantis, M.; Fukushima, K.; Schulze-Lefert, P.; Laurent, S.; Bednarek, P.; Tsuda, K.: Gene expression evolution in pattern-triggered immunity within Arabidopsis thaliana and across Brassicaceae species. The Plant Cell, koab073 (2021)
2020
Journal Article
Akiyama, R.; Sun, J.; Hatakeyama, M.; Lischer, H. E. L.; Briskine, R. V.; Hay, A.; Gan, X.; Tsiantis, M.; Kudoh, H.; Kanaoka, M. et al.; Sese, J.; Shimizu, K. K.; Shimizu-Inatsugi, R.: Fine-scale empirical data on niche divergence and homeolog expression patterns in an allopolyploid and its diploid progenitor species. New Phytologist 229, pp. 3587 - 3601 (2020)
Journal Article
Zhang, Z.; Runions, A.; Mentink, R. A.; Kierzkowski, D.; Karady, M.; Hashemi, B.; Huijser, P.; Strauß, S.; Gan, X.; Ljung, K. et al.; Tsiantis, M.: A WOX/Auxin Biosynthesis Module Controls Growth to Shape Leaf Form. Current Biology 30, pp. 4857 - 4868.e6 (2020)
Journal Article
Zhou, Y.; Gan, X.; Vinegra de la Torre, N.; Neumann, U.; Albani, M.: Beyond flowering time: diverse roles of an APETALA2-like transcription factor in shoot architecture and perennial traits. New Phytologist (2020)
2019
Journal Article
Chen, Q.; Jiang, T.; Liu, Y.-X.; Liu, H.; Zhao, T.; Liu, Z.; Gan, X.; Hallab, A.; Wang, X.; He, J. et al.; Ma, Y.; Zhang, F.; Jin, T.; Schranz, M. E.; Wang, Y.; Bai, Y.; Wang, G.: Recently duplicated sesterterpene (C25) gene clusters in Arabidopsis thaliana modulate root microbiota. SCIENCE CHINA-LIFE SCIENCES 62 (7), pp. 947 - 958 (2019)
Journal Article
Hajheidari, M.; Wang, Y.; Bhatia, N.; Vuolo, F.; Franco-Zorrilla, J. M.; Karady, M.; Mentink, R. A.; Wu, A.; Rilwan Oluwatobi, B. R.; Müller, B. et al.; Dello Ioio, R.; Laurent, S.; Ljung, K.; Huijser, P.; Gan, X.; Tsiantis, M.: Autoregulation of RCO by low-affinity binding modulates cytokinin action and shapes leaf diversity. Current Biology (2019)
Journal Article
Molina-Contreras, M. J.; Paulisic, S.; Then, C.; Moreno-Romero, J.; Pastor-Andreu, P.; Morelli, L.; Roig-Villanova, I.; Jenkins, H.; Hallab, A.; Gan, X. et al.; Gomez-Cadenas, A.; Tsiantis, M.; Rodriguez-Concepcion, M.; Martinez-Garcia, J. F.: Photoreceptor Activity Contributes to Contrasting Responses to Shade in Cardamine and Arabidopsis Seedlings. The Plant Cell 31 (11), pp. 2649 - 2663 (2019)
Journal Article
Nikolov, L. A.; Shushkov, P.; Nevado, B.; Gan, X.; Al-Shehbaz, I. A.; Filatov, D.; Bailey, C. D.; Tsiantis, M.: Resolving the backbone of the Brassicaceae phylogeny for investigating trait diversity. New Phytologist 222, pp. 1638 - 1651 (2019)
Journal Article
Song, B.; Sang, Q.; Wang, H.; Pei, H.; Gan, X.; Wang, F.: Complement Genome Annotation Lift Over Using a Weighted Sequence Alignment Strategy. Frontiers in Genetics 10, 1046 (2019)
2018
Journal Article
Song, B.; Mott, R.; Gan, X.: Recovery of novel association loci in Arabidopsis thaliana and Drosophila melanogaster through leveraging INDELs association and integrated burden test. PLoS Genetics 14 (10), e1007699 (2018)
Journal Article
Vuolo, F.; Kierzkowski, D.; Runions, A.; Hajheidari, M.; Mentink, R. A.; Das Gupta, M.; Zhang, Z.; Vlad, D.; Wang, Y.; Pecinka, A. et al.; Gan, X.; Hay, A.; Huijser, P.; Tsiantis, M.: LMI1 homeodomain protein regulates organ proportions by spatial modulation of endoreduplication. Genes and Development 32, pp. 1361 - 1366 (2018)
2017
Journal Article
Imprialou, M.; Kahles, A.; Steffen, J. G.; Osborne, E. J.; Gan, X.; Lempe, J.; Bhomra, A.; Belfield, E.; Visscher, A.; Greenhalgh, R. et al.; Harberd, N. P.; Goram, R.; Hein, J.; Robert-Seilaniantz, A.; Jones, J.; Stegle, O.; Kover, P.; Tsiantis, M.; Nordborg, M.; Rätsch , G.; Clark, R. M.; Mott, R.: Genomic Rearrangements in Arabidopsis Considered as Quantitative Traits. Genetics 205 (4), pp. 1425 - 1441 (2017)
2016
Journal Article
Alonso-Blanco, C.; Andrade, J.; Becker, C.; Bemm, F.; Bergelson, J.; Borgwardt, K. M.; Cao, J.; Chae, E.; Dezwaan, T. M.; Ding, W. et al.; Ecker, J. R.; Exposito-Alonso, M.; Farlow, A.; Fitz, J.; Gan, X.; Grimm, D. G.; Hancock, A. M.; Henz, S. R.; Holm, S.; Horton, M.; Jarsulic, M.; Kerstetter, R. A.; Korte, A.; Korte, P.; Lanz, C.; Lee, C.-R.; Meng, D.; Michael, T. P.; Mott, R.; Muliyati, N.W.; Nägele, T.; Nagler, M.; Nizhynska, V.; Nordborg, M.; Novikova, P. Y.; Picó, F. X.; Platzer, A.; Rabanal, F. A.; Rodriguez, A.; Rowan, B. A.; Salomé, P. A.; Schmid, K. J.; Schmitz, R. J.; Seren, Ü.; Sperone, F. G.; Sudkamp, M.; Svardal, H.; Tanzer, M. M.; Todd, D.; Volchenboum, S. L.; Wang, C.; Wang, G.; Wang, X.; Weckwerth, W.; Weigel, D.; Zhou, X.: 1,135 Genomes Reveal the Global Pattern of Polymorphism in Arabidopsis thaliana. Cell 166, pp. 481 - 491 (2016)
Journal Article
Gan, X.; Hay, A.; Kwantes, M.; Haberer, G.; Hallab, A.; Dello Ioio, R.; Hofhuis, H.; Pieper, B.; Cartolano, M.; Neumann, U. et al.; Nikolov, L. A.; Song, B.; Hajheidari, M.; Briskine, R.; Kougioumoutzi, E.; Vlad, D.; Broholm, S.; Hein, J.; Meksem, K.; Lightfoot, D.; Shimizu, K. K.; Shimizu-Inatsugi, R.; Imprialou, M.; Kudrna, D.; Wing, R.; Sato, S.; Huijser, P.; Filatov, D.; Mayer, K. F. X.; Mott, R.; Tsiantis, M.: The Cardamine hirsuta genome offers insight into the evolution of morphological diversity. Nature Plants 2 (10), 16167 (2016)
Journal Article
Hofhuis, H.; Moulton, D.; Lessinnes, T.; Routier-Kierzkowska, A.-L.; Bomphrey, R.J.; Mosca, G.; Reinhardt, H.; Sarchet, P.; Gan, X.; Tsiantis, M. et al.; Ventikos, Y.; Walker, S.; Goriely, A.; Smith, R. S.; Hay, A.: Morphomechanical Innovation Drives Explosive Seed Dispersal. Cell 166 (1), pp. 222 - 33 (2016)
2015
Journal Article
Cai, N.; Bigdeli, T. B.; Kretzschmar, W.; Li, Y.; Liang, J.; Song, L.; Hu, J.; Li, Q.; Jin, W.; Hu, Z. et al.; Wang, G.; Wang, L.; Qian, P.; Liu, Y.; Jiang, T.; Lu, Y.; Zhang, X.; Yin, Y.; Li, Y.; Xu, X.; Gao, J.; Reimers, M.; Webb, T.; Riley, B.; Bacanu, S.; Peterson, R. E.; Chen, Y.; Zhong, H.; Liu, Z.; Wang, G.; Sun, J.; Sang, H.; Jiang, G.; Zhou, X.; Li, Y.; Li, Y.; Zhang, W.; Wang, X.; Fang, X.; Pan, R.; Miao, G.; Zhang, Q.; Hu, J.; Yu, F.; Du, B.; Sang, W.; Li, K.; Chen, G.; Cai, M.; Yang, L.; Yang, D.; Ha, B.; Hong, X.; Deng, H.; Li, G.; Li, K.; Song, Y.; Gao, S.; Zhang, J.; Gan, Z.; Meng, H.; Pan, J.; Gao, C.; Zhang, K.; Sun, N.; Li, Y.; Niu, Q.; Zhang, Y.; Liu, T.; Hu, C.; Zhang, Z.; Lv, L.; Dong, J.; Wang, X.; Tao, M.; Wang, X.; Xia, J.; Rong, H.; He, Q.; Liu, T.; Huang, G.; Mei, Q.; Shen, Z.; Liu, Y.; Shen, J.; Tian, T.; Liu, X.; Wu, W.; Gu, D.; Fu, G.; Shi, J.; Chen, Y.; Gan, X.; Liu, L.; Wang, L.; Yang, F.; Cong, E.; Marchini, J.; Yang, H.; Wang, J.; Shi, S.; Mott, R.; Xu, Q.; Wang, J.; Kendler, K. S.; Flint, J.: Sparse whole-genome sequencing identifies two loci for major depressive disorder. Nature 523 (7562), pp. 588 - 591 (2015)
Journal Article
Cai, N.; Chang, S.; Li, Y.; Li, Q.; Hu, J.; Liang, J.; Song, L.; Kretzschmar, W.; Gan, X.; Nicod, J. et al.; Rivera, M.; Deng, H.; Du, B.; Li, K.; Sang, W.; Gao, J.; Gao, S.; Ha, B.; Ho, H.-Y.; Hu, C.; Hu, J.; Hu, Z.; Huang, G.; Jiang, G.; Jiang, T.; Jin, W.; Li, G.; Li, K.; Li, Y.; Li, Y.; Li, Y.; Lin, Y.-T.; Liu, L.; Liu, T.; Liu, Y.; Liu, Y.; Lu, Y.; Lv, L.; Meng, H.; Qian, P.; Sang, H.; Shen, J.; Shi, J.; Sun, J.; Tao, M.; Wang, G.; Wang, G.; Wang, J.; Wang, L.; Wang, X.; Wang, X.; Yang, H.; Yang, L.; Yin, Y.; Zhang, J.; Zhang, K.; Sun, N.; Zhang, W.; Zhang, X.; Zhang, Z.; Zhong, H.; Breen, G.; Wang, J.; Marchini, J.; Chen, Y.; Xu, Q.; Xu, X.; Mott, R.; Huang, G.-J.; Kendler, K.; Flintl, J.: Molecular Signatures of Major Depression. CURRENT BIOLOGY 25 (9), pp. 1146 - 1156 (2015)
2014
Journal Article
Hay, A.; Pieper, B.; Cooke, E.; Mandakova, T.; Cartolano, M.; Tattersall, A. D.; Ioio, R. D.; McGowan, S. J.; Barkoulas, M.; Galinha, C. et al.; Rast, M. I.; Hofhuis, H.; Then, C.; Plieske, J.; Ganal, M.; Mott, R.; Martinez-Garcia, J. F.; Carine, M. A.; Scotland, R. W.; Gan, X.; Filatov, D. A.; Lysak, M. A.; Tsiantis, M.: Cardamine hirsuta: a versatile genetic system for comparative studies. The Plant Journal 78 (1), pp. 1 - 15 (2014)
Journal Article
Nelson, A. D. L.; Forsythe, E. S.; Gan, X.; Tsiantis, M.; Beilstein, M. A.: Extending the model of Arabidopsis telomere length and composition across Brassicaceae. SI 22 (2), pp. 153 - 166 (2014)
Journal Article
Vlad, D.; Kierzkowski, D.; Rast, M. I.; Vuolo, F.; Dello Ioio, R.; Galinha, C.; Gan, X.; Hajheidari, M.; Hay, A.; Smith, R. S. et al.; Huijser, P.; Bailey, C. D.; Tsiantis, M.: Leaf Shape Evolution Through Duplication, Regulatory Diversification, and Loss of a Homeobox Gene. Science 343 (6172), pp. 780 - 783 (2014)
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