Chin Bull Bot ›› 2017, Vol. 52 ›› Issue (6): 699-712.doi: 10.11983/CBB16244

• EXPERIMENTAL COMMUNICATIONS • Previous Articles     Next Articles

Genome-wide Survey and Phylogenetic Analysis of MADS-box Gene Family in Brassica napus

Gao Huhu, Zhang Yunxiao, Hu Shengwu, Guo Yuan*()   

  1. State Key Laboratory of Crop Stress Biology for Arid Areas, College of Agronomy, Northwest A&F University, Yangling 712100, China
  • Received:2016-12-12 Accepted:2017-05-22 Online:2017-11-22 Published:2017-11-01
  • Contact: Guo Yuan


The MADS-box gene family is involved in many processes during plant growth and development, such as flowering time, floral organ differentiation, root growth, meristem differentiation, ovary and gamete development, fruit enlargement and senescence. In this study, we used rape (Brassica napus) genome sequencing data with bioinformatics methods to identify and annotate the MADS-box genes. Rape contains 307 members of MADS-box gene family. According to the evolutionary relationships, these genes can be divided into two subfamilies: I-type, also known as M-type, containing three subclades, α, β, and γ; II type, also known as MIKC-type containing two subclades, MIKCC and MIKC*. MIKCC can be further divided into 13 groups. The number of MADS-box genes is greater in the A than C subgenome chromosome of B. napus. For the gene structure, the sequence is longer for MIKC-type than M-type genes and contains more exons. The number of motifs in M-type genes is about 2-5, and MIKC-type genes contain an average of 7 motifs. Synteny analysis revealed that whole-genome duplication played a major role in the expansion of the BnaMADS gene family, especially the MIKC-type subfamily. The selection pressure of the MIKC-type subfamily was about 2 times that for the M-type, which resulted in the selective preservation of MIKC-type subfamily genes during evolution.

Key words: Brassica napus, MADS-box, gene structure, evolution, synteny

Figure 1

Phylogenetic analysis of rapeseed, Arabidopsis and rice MADS-box genes(A) M-type; (B) MIKC-type"

Figure 2

Chromosomal location of MADS-box genes in Brassica napus"

Figure 3

Statistics of MADS-box genes in chromosome of Brassica napus"

Table 1

Distribution of MADS-box genes in subgenome of Brassica napus"

Subgenome M-type MIKC-type Total
A 55 85 140
C 52 77 129

Figure 4

Motif patterns of different MADS-box gene families in Brassica napus(A) MIKCC subfamily; (B) MIKC* subfamily; (C) M-type subfamily"

Figure 5

Distribution of MADS-box genes synteny with Arabidopsis thaliana in Brassica napus"

Figure 6

Syntenic relationship of MADS-box genes between Arabidopsis thaliana and Brassica napus"

Figure 7

Copy number of Arabidopsis thaliana MADS-box genes in Brassica napus"

Table 2

Select pressure of MADS-box gene subfamily in Brassica napus"

Subfamily Arabidopsis Brassica napus Average copy number Average Ka/Ks
M-type 20 34 1.7 0.43
MIKC-type 29 95 3.27 0.22
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