Nelumbo v. Amborella

Syntenic dotplot of Ambroella (x-axis) to Nelumbo (y-axis). Note that each region of Amborella is syntenic to two regions of Nelumbo. Results may be regenerated at: http://genomevolution.org/r/4pcd

Interestingly, SynFind's syntenic depth calculation shows:

Syntenic Depth:
Nelumbo nucifera (sacred lotus)
Depth 1	5222	of	18684	27.95%
Depth 2	11809	of	18684	63.20%
Depth 3	1217	of	18684	6.51%
Depth 4	406	of	18684	2.17%
Depth 5	24	of	18684	0.13%
Depth 6	6	of	18684	0.03%

Shows that there may be a 1:4 amborella to Nelumbo. This would mean that Nelumbo is a double tetraploidy. Results may be regenerated at: http://genomevolution.org/r/4pd9

GEvo Analyses of 1:4 syntenic depth regions

Ah. These are regions where there is a change in genome structure and the ambroella region is split across two "ancestral" (pre-duplicated) Nelumbo regions.

GEvo analysis of a 1xAmborella : 4xNelumbo syntenic regions. Note that the Amborella regions is divided between the two pairs of Nelumbo regions. Results may be regenerated at: http://genomevolution.org/r/4pdi

GEvo analysis of a 1xAmborella : 4xNelumbo syntenic regions. All four Nelumbo regions show intercalated synteny to Ambroella. Results may be regenerated at http://genomevolution.org/r/4pdt