Molecular and phylogenetic analysis of MADS-box genes of MIKC type and chromosome location of SEP-like genes in wheat (Triticum aestivum L.)

Abstract

Transcription factors encoded by MIKC-type MADS-box genes control many important functions in plants, including flower development and morphogenesis. The cloning and characterization of 45 MIKC-type MADS-box full-length cDNA sequences of common wheat is reported in the present paper. Wheat EST databases were searched by known sequences of MIKC-type genes and primers were designed for cDNA cloning by RT-PCR. Full-length cDNAs were obtained by 5' and 3' RACE extension. Southern analysis showed that three copies of the MIKC sequences, corresponding to the three homoeologous genes, were present. This genome organization was further confirmed by aneuploid analysis of six SEP-like genes, each showing three copies located in different homoeologous chromosomes. Phylogenetic analysis included the wheat MIKC cDNAs into 11 of the 13 MIKC subclasses identified in plants and corresponding to most genes controlling the floral homeotic functions. The expression patterns of the cDNAs corresponding to different homeotic classes was analysed in 18 wheat tissues and floral organs by RT-PCR, real time RT-PCR and northern hybridisation. Potential functions of the genes corresponding to the cloned wheat cDNAs were predicted on the basis of sequence homology and comparable expression pattern with functionally characterized MADS-box genes from Arabidopsis and monocot species.

Homoeologous copy-specific expression patterns of MADS-box genes for floral formation in allopolyploid wheat

“…WPI1 and WPI2 are also called TaPI-1 and TaPI-2/TaAGL26, respectively (Paolacci et al, 2007;Zhao, T. et al, 2006). Here, sequence and PCR analyses of genomic DNA from nulli-tetrasomics indicated that TaPI-2 was identical with WPI2, and that WPI2/TaPI-2 and TaAGL26 were homoeologous and located on chromosomes 3B and 3D, respectively (Fig.…”

“…A phylogenetic analysis using deduced amino acid sequences indicated that WPI1 and WPI2 are orthologs of the rice PI-type genes OsMADS4 and OsMADS2, respectively (Murai, 2013). WPI1 and WPI2 have also been called TaPI-1 and TaPI-2/TaAGL26, respectively (Zhao, T. et al, 2006;Paolacci et al, 2007). The AG orthologs of wheat, WAG1 (wheat AGAMOUS1) and WAG2, were identified as class C genes (Meguro et al, 2003;Hirabayashi and Murai, 2009).…”

“…A phylogenetic analysis using the deduced amino acid sequences showed that WAG1 and WAG2 are orthologs of the rice AG-type genes, OsMADS58 and OsMADS3, respectively (Murai, 2013). WAG1 and WAG2 are also known as TaAG-1 and TaAG-2/TaAGL39, respectively (Zhao, T. et al, 2006;Paolacci et al, 2007). Two studies in wheat identified five genes, TaAGL2, TaAGL9, TaAGL31, TaAG-3A and TaAG-3B, as candidate orthologs of the rice class D gene OsMADS13 (Zhao, T. et al, 2006;Paolacci et al, 2007).…”

“…WAG1 and WAG2 are also known as TaAG-1 and TaAG-2/TaAGL39, respectively (Zhao, T. et al, 2006;Paolacci et al, 2007). Two studies in wheat identified five genes, TaAGL2, TaAGL9, TaAGL31, TaAG-3A and TaAG-3B, as candidate orthologs of the rice class D gene OsMADS13 (Zhao, T. et al, 2006;Paolacci et al, 2007). Sequence analyses showed that TaAG-3A is identical with TaAGL9, and TaAG-3B is identical with TaAGL2.…”

Isolation and characterization of the papaya MADS-box E-class genes, CpMADS1 and CpMADS3, and a TM6 lineage gene CpMADS2

“…In addition, CpMADS1 and CpMADS3 were specifically expressed in the inner 3 whorls of the papaya flower, similar to SEP3 (Mandel and Yanofsky, 1998) and SEP4 (Ditta et al, 2004) of Arabidopsis and their orthologs: FBP2 in petunia (Angenent et al, 1992), TaSEP-3 and TaSEP-4 in wheat (Paolacci et al, 2007), and TM5 in tomato (Pnueli et al, 1994). These genes have been thought to be involved in the regulation of organ differentiation of petals, stamens, and carpels by interacting with A-and/or B-and/or C-class MADS-box genes (Pelaz et al, 2000;Honma and Goto, 2001).…”