ITS Phylogenetics Tool
As currently delimited, the Brassicaceae comprise 52 tribes, 341 genera, and 3977 species. Of these, 11 genera and 19 species remain to be assigned to tribes. These figures differ substantially from those estimated five years ago, in which 49 tribes, 321 genera, and 3660 species were recognized, of which 20 genera and 34 species were lacking tribal assignment (Al-Shehbaz, 2012).
BrassiBase's phylogenetic visualizations are based on a ”synoptic diagram” of phylogenetic relationships“ presented by Franzke et al. (2011) and continuously updated with most recent findings (e.g. Huang et al., 2016).
BrassiBase provides the opportunity to run your own “ITS barcode sequence” (internal transcribed spacers 1 and 2 of nuclear ribosomal DNA, including the 5.8 S gene) as query against the database.
A putative phylogenetic position will be indicated. However, the presented results cannot replace any detailed phylogenetic analysis! This tool is intended only to provide reference points for subsequent own analyses. It should be kept in mind that the presented trees are based on ITS sequences only, and they are also not constraint in their topology by evidence given from other phylogenetic studies. For the pros and cons of ITS sequences as marker in phylogenetic studies please refer to Kiefer et al. (2014).
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- Al-Shehbaz, IA. 2012. A generic and tribal synopsis of the Brassicaceae (Cruciferae). Taxon 61(5): 931 – 954.
- Franzke A, Lysak MA, Al-Shehbaz IA, Koch MA, Mummenhoff K. 2011. Cabbage family affairs: the evolutionary history of Brassicaceae. Trends Plant Sci. 16(2): 108 – 116. doi: 10.1016/j.tplants.2010.11.005
- Huang CH, Sun R, Zeng YH, Zhang N, Cai L, Zhang Q, Koch MA, Al-Shehbaz IA, Edger PP, Pires JC, Tan DY, Zhong Y, Ma H. 2016. Resolution of Brassicaceae phylogeny using nuclear genes uncovers nested radiations and supports convergent morphological evolution. Molecular Biology and Evolution 33(2): 394 – 412. doi: 10.1093/molbev/msv226.
- Kiefer M, Schmickl R, German DA, Lysak M, Al-Shehbaz IA, Franzke A, Mummenhoff K, Stamatakis A, Koch MA. 2014. BrassiBase: Introdcution to a novel database on Brassicaceae evolution. Plant Cell Physiol., 55(1): e3, doi:10.1093/pcp/pct158.
All sequences used in creating the reference alignments for BrassiBase were taken from GenBank. Alignments were initially created using MUSCLE and edited extensively in a subsequent step. All alignments were checked for plausibility using phylogenetic analyses (using Maximum Likelihood methods). Alignments are available for the different Brassicaceae tribes on the corresponding summary pages (use search box to the right, e.g.).
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Brassicaceae tribe phylogeny and statistics
Collapsible tree of Brassicaceae tribes
Number of genera per tribe
Number of species per tribe
Percentage of synonyms in genera of a tribe
Standard phylogenetic diagram
Radial graph of Brassicaceae tribes