Genome-wide identification, phylogeny and expression analysis of the SBP-box gene family in maize (Zea mays)

doi:10.1016/S2095-3119(14)60955-2

Journal of Integrative Agriculture ›› 2016, Vol. 15 ›› Issue (1): 29-41.DOI: 10.1016/S2095-3119(14)60955-2

Genome-wide identification, phylogeny and expression analysis of the SBP-box gene family in maize (Zea mays)

ZHANG Wei, LI Bei, YU Bin

1、Key Laboratory of Horticultural Plant Biology, Ministry of Education/College of Horticulture and Forestry Sciences, Huazhong
Agricultural University, Wuhan 430070, P.R.China
2、National Key Laboratory of Crop Genetic Improvement/Biomass and Bioenergy Research Centre/College of Life Sciences and
Technology, Huazhong Agricultural University, Wuhan 430070, P.R.China

收稿日期:2014-11-02 出版日期:2016-01-08 发布日期:2016-01-11
通讯作者: YU Bin, Tel: +86-27-87281765,E-mail: bin.yu@mail.hzau.edu.cn
基金资助:
We wish to express our warm thanks to the support by the National Natural Science Foundation of China (31200911, 31101576), the China Postdoctoral Science Foundation (20100471197, 201104475) and the Research Fund for the Doctoral Program of Higher Education of China (20110146120040).

Genome-wide identification, phylogeny and expression analysis of the SBP-box gene family in maize (Zea mays)

ZHANG Wei, LI Bei, YU Bin

1、Key Laboratory of Horticultural Plant Biology, Ministry of Education/College of Horticulture and Forestry Sciences, Huazhong
Agricultural University, Wuhan 430070, P.R.China
2、National Key Laboratory of Crop Genetic Improvement/Biomass and Bioenergy Research Centre/College of Life Sciences and
Technology, Huazhong Agricultural University, Wuhan 430070, P.R.China

Received:2014-11-02 Online:2016-01-08 Published:2016-01-11
Contact: YU Bin, Tel: +86-27-87281765,E-mail: bin.yu@mail.hzau.edu.cn
Supported by:
We wish to express our warm thanks to the support by the National Natural Science Foundation of China (31200911, 31101576), the China Postdoctoral Science Foundation (20100471197, 201104475) and the Research Fund for the Doctoral Program of Higher Education of China (20110146120040).

摘要/Abstract

摘要： The SQUAMOSA promoter binding protein (SBP)-box genes encode a kind of plant-specific transcription factors (TFs) and play important roles in the regulation of plant development. In this study, a genome-wide characterization of this family was conducted in maize (Zea mays). Thirty-one SBP-box genes were identified to be distributed in nine chromosomes and 16 of them were complementary to the mature ZmmiR156 sequences. All the Z. mays SBP (ZmSBP) genes were classified into two clusters with eight subgroups according to the phylogenetic analysis of proteins, which were consistent with the pattern of exon-intron structures. The phylogenetic tree of the ZmSBP, Oryza sativa SBP-like (OsSPL) and Arabidopsis thaliana SBP-like (AtSPL) genes were constructed and all the SBP-box genes were divided into eight groups, which was the same as the classification of ZmSBP genes. The comparision of the expression profiles of all SBP-box genes in these three species indicated that most orthologous genes had similar expression patterns. The results from this study provided a basic understanding of the ZmSBP genes and might facilitate future researches for elucidating the SBP-box genes function in maize.

关键词: Zea mays , SQUAMOSA promoter binding protein (SBP)-box gene , phylogeny , gene expression profile , function prediction

Abstract: The SQUAMOSA promoter binding protein (SBP)-box genes encode a kind of plant-specific transcription factors (TFs) and play important roles in the regulation of plant development. In this study, a genome-wide characterization of this family was conducted in maize (Zea mays). Thirty-one SBP-box genes were identified to be distributed in nine chromosomes and 16 of them were complementary to the mature ZmmiR156 sequences. All the Z. mays SBP (ZmSBP) genes were classified into two clusters with eight subgroups according to the phylogenetic analysis of proteins, which were consistent with the pattern of exon-intron structures. The phylogenetic tree of the ZmSBP, Oryza sativa SBP-like (OsSPL) and Arabidopsis thaliana SBP-like (AtSPL) genes were constructed and all the SBP-box genes were divided into eight groups, which was the same as the classification of ZmSBP genes. The comparision of the expression profiles of all SBP-box genes in these three species indicated that most orthologous genes had similar expression patterns. The results from this study provided a basic understanding of the ZmSBP genes and might facilitate future researches for elucidating the SBP-box genes function in maize.

Key words: Zea mays , SQUAMOSA promoter binding protein (SBP)-box gene , phylogeny , gene expression profile , function prediction

ZHANG Wei, LI Bei, YU Bin. Genome-wide identification, phylogeny and expression analysis of the SBP-box gene family in maize (Zea mays)[J]. Journal of Integrative Agriculture, 2016, 15(1): 29-41.

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Genome-wide identification, phylogeny and expression analysis of the SBP-box gene family in maize (Zea mays)

Genome-wide identification, phylogeny and expression analysis of the SBP-box gene family in maize (Zea mays)

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