Beyond genomic variation - comparison and functional annotation of three Brassica rapagenomes: a turnip, a rapid cycling and a Chinese cabbage

Table 5 Retained and lost genes in Chiifu, turnip and rapid cycling

	Chiifu	Turnip	Rapid cycling
Genes with copy number changes	1,151	1,053	932
Retained genes	265	180	156
Lost genes	886	873	906
Retained\|lost gene assigned to gene families	40\|23	35\|19	33\|20
Genes present in unique and dispensable gene set, without at or th orthologs*	231	280	336

Dispensable and unique genes having orthologs in A. thaliana or T. halophila were included to determine the retained and lost genes. The latest curated gene family assignment of A. thaliana genes from TAIR was used.
* The number of B. rapa unique and dispensable genes without A. thaliana (“at”) or T. halophile (“th”) orthologous genes.

ISSN: 1471-2164