| Genome-wide prediction and verification for target genes of MYB transcription factor in maize |
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| DOI：10.7606/j.issn.1000-7601.2018.03.09 |
| Key Words: genome maize MYB transcription factor support vector machine target gene |
| Author Name | Affiliation | | ZHANG Xiao-fang | Maize Research Institute of Sichuan Agricultural University / Key Laboratory of Maize Biology and Genetic Breeding in Southwest, Ministry of Agriculture, Chengdu, Sichuan 611130, Sichuan | | YU Hao-qiang | Maize Research Institute of Sichuan Agricultural University / Key Laboratory of Maize Biology and Genetic Breeding in Southwest, Ministry of Agriculture, Chengdu, Sichuan 611130, Sichuan | | LUO Xi | Maize Research Institute of Sichuan Agricultural University / Key Laboratory of Maize Biology and Genetic Breeding in Southwest, Ministry of Agriculture, Chengdu, Sichuan 611130, Sichuan | | ZHANG Yu-fu | Maize Research Institute of Sichuan Agricultural University / Key Laboratory of Maize Biology and Genetic Breeding in Southwest, Ministry of Agriculture, Chengdu, Sichuan 611130, Sichuan | | LI Wan-chen | Maize Research Institute of Sichuan Agricultural University / Key Laboratory of Maize Biology and Genetic Breeding in Southwest, Ministry of Agriculture, Chengdu, Sichuan 611130, Sichuan | | FU Feng-ling | Maize Research Institute of Sichuan Agricultural University / Key Laboratory of Maize Biology and Genetic Breeding in Southwest, Ministry of Agriculture, Chengdu, Sichuan 611130, Sichuan |
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| Abstract: |
| The MYB transcription factor are involved in the regulation of plant growth, and stress response. To predict the MYB target genes and their promoters within the whole genome of maize., the HexDIFF algorithm was combined with support vector machines to construct a classification model based on the verified core sequences of MYB recognition sites and their flanking sequences.The results showed that a total of 435 MYB binding sites were obtained and 424 genes downstream of them were identified as MYB target genes, involving in various growth and development processes.To verify the prediction results,the electrophoretic mobility shift assay was performed to detect the combination between maize MYB-IF25 protein and 30 predicted binding sites. As a result,27 binding sites could interact with MYB-IF25 protein. GUS transient expression showed that the promoters of predicted MYB stress\|related target genes could initiate the GUS gene expression, indicating that these promoters possessed driving activity. The above results prove that the predicion method has high reliablity and can provide a reference for predicting the target gene of transcription factor. |
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