Hendriks, Kasper P., Kiefer, Christiane, Al-Shehbaz, Ihsan A., Bailey, C. Donovan, Hooft van Huysduynen, Alex, Nikolov, Lachezar A., Nauheimer, Lars, Zuntini, Alexandre R., German, Dmitry A., Franzke, Andreas, Koch, Marcus A., Lysak, Martin A., Toro-Núñez, Óscar, Özüdoğru, Barış, Invernón, Vanessa R., Walden, Nora, Maurin, Olivier, Hay, Nikolai M., Shushkov, Philip, Mandáková, Terezie, Schranz, M. Eric, Thulin, Mats, Windham, Michael D., Rešetnik, Ivana, Španiel, Stanislav, Ly, Elfy, Pires, J. Chris, Harkess, Alex, Neuffer, Barbara, Vogt, Robert, Bräuchler, Christian, Rainer, Heimo, Janssens, Steven B., Schmull, Michaela, Forrest, Alan, Guggisberg, Alessia, Zmarzty, Sue, Lepschi, Brendan J., Scarlett, Neville, Stauffer, Fred W., Schönberger, Ines, Heenan, Peter, Baker, William J., Forest, Félix, Mummenhoff, Klaus, and Lens, Frederic (2023) Global Brassicaceae phylogeny based on filtering of 1,000-gene dataset. Current Biology, 33 (19). 4052-4068.e6.

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Abstract

The mustard family (Brassicaceae) is a scientifically and economically important family, containing the model plant Arabidopsis thaliana and numerous crop species that feed billions worldwide. Despite its relevance, most phylogenetic trees of the family are incompletely sampled and often contain poorly supported branches. Here, we present the most complete Brassicaceae genus-level family phylogenies to date (Brassicaceae Tree of Life or BrassiToL) based on nuclear (1,081 genes, 319 of the 349 genera; 57 of the 58 tribes) and plastome (60 genes, 265 genera; all tribes) data. We found cytonuclear discordance between the two, which is likely a result of rampant hybridization among closely and more distantly related lineages. To evaluate the impact of such hybridization on the nuclear phylogeny reconstruction, we performed five different gene sampling routines, which increasingly removed putatively paralog genes. Our cleaned subset of 297 genes revealed high support for the tribes, whereas support for the main lineages (supertribes) was moderate. Calibration based on the 20 most clock-like nuclear genes suggests a late Eocene to late Oligocene origin of the family. Finally, our results strongly support a recently published new family classification, dividing the family into two subfamilies (one with five supertribes), together representing 58 tribes. This includes five recently described or re-established tribes, including Arabidopsideae, a monogeneric tribe accommodating Arabidopsis without any close relatives. With a worldwide community of thousands of researchers working on Brassicaceae and its diverse members, our new genus-level family phylogeny will be an indispensable tool for studies on biodiversity and plant biology.

Item ID:	82686
Item Type:	Article (Research - C1)
ISSN:	1879-0445
Copyright Information:	© 2023 The Authors. Published by Elsevier Inc. Attribution-NonCommercial-NoDerivs 4.0 International.
Date Deposited:	15 May 2024 05:00
FoR Codes:	31 BIOLOGICAL SCIENCES > 3108 Plant biology > 310806 Plant physiology @ 100%
SEO Codes:	26 PLANT PRODUCTION AND PLANT PRIMARY PRODUCTS > 2605 Horticultural crops > 260512 Protected vegetable crops @ 100%
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