ZHU Ming-xi,LIU Yang,WU Qiong,et al.Forecasting Analysis of SBP Transcription Factor Families in Soybean[J].Soybean Science,2011,30(02):177-183.[doi:10.11861/j.issn.1000-9841.2011.02.0177]
大豆SBP转录因子家族的预测分析
- Title:
- Forecasting Analysis of SBP Transcription Factor Families in Soybean
- 文章编号:
- 1000-9841（2011）02-0177-07
- Keywords:
- SBP family; Transcription factor; Soybean
- 分类号:
- S 565.1
- 文献标志码:
- A
- 摘要:
- SBP转录因子基因家族是一个植物的特异转录因子家族，SBP基因都含有一段保守的核苷酸序列即DNA结合结构域，又称为SBP盒（SBP-box），SBP盒编码的蛋白质序列称SBP结构域（SBP-domain），含79个氨基酸残基，并具有高度保守性。该研究通过对拟南芥、水稻等植物已知的转录因子与大豆基因组数据比对，并设置一系列严格的筛选标准，共得到44条新的大豆SBP转录因子；又通过基因分析注释以及启动子功能预测，进一步发现这些转录因子参与生长发育、逆境胁迫响应、激素应答、抗霉菌应答、光合作用等调控过程。
- Abstract:
- In transcription factor family, SBP is a specific group only found in plant. The genes in this family contain a conservative nucleotide sequences namely DNA-binding domain, also called SBP-box, which encodes the SBP-domain including 79 amino acid residues and is highly conservative. With homology alignment, all previously known SBP from Arabidopsis, Oryza sativa and other plant species were blasted against the soybean genome sequences to mining novel SBP TFs in soybean by a series of strict filtering criteria. In total, 44 members in SBP TFs were identified and predicted. These transcription factors were predicted and verified to be involved in soybean growth and development, adversity response, hormone response, resistance to mold response and photosynthesis control process.
参考文献/References:
[1]Klein J, Saedler H, Huijser P, et al. A new family of DNA binding proteins includes putative transcriptional regulators of the Antirrhinum majus floral meristem identity gene SQUAMOSA [J]. Molecular and General Genetics, 1996, 250(1): 7-16. [2]Yamasaki K, Kigawa T, Inoue M, et al. Arabidopsis?SBP-domain fragment with a disrupted C-terminal zinc-binding site retains its tertiary structure[J]. FEBS Letters, 2006, 580(8): 2109-2116. [3]Stone J M, Liang X, Nekl E R, et al. Arabidopsis?AtSPL14, a plant-specific SBP-domain transcription factor, participates in plant development and sensitivity to fumonisin B1[J]. The Plant Journal, 2005, 41(5): 744-754. [4]Cardon G, Hohmann S, Huijser P, et al. Molecular characterization of the Arabidopsis?SBP-box genes[J]. Gene, 1999, 237(1): 91-104. [5]Birkenbihl R P, Jach G, Saedler H, et al. Functional dissection of the plant-specific SBP-domain:overlap of the DNA-binding and nuclear localization domains[J]. Journal Molecular Biology, 2005, 352(3): 585-596. [6]Moreno M A, Harper L C, Dellaporta S L, et al. Freeling M liguleless1 encodes a nuclear-localized protein required for induction of ligules and auricles during maize leaf organogenesis[J]. Genes Development, 1999, 16(3): 620-628. [7]Cardon G, Hohmann S, Huijser P, et al. Functional analysis of the Arabidopsis thaliana?SBP-box gene SPL3:a novel gene involved in the floral transition[J]. The Plant Journal, 1997, 12(2): 367-77. [8]Wang H, Nussbaum-Wagler T, Li B, et al. The origin of the naked grains of maize[J]. Nature, 2005, 436(10): 714-719. [9]Huijser P, Klein J, Lonnig W E, et al. Bracteomania,an inflorescence anomaly,is caused by the loss of function of the MADS-box gene squamosa in Antirrhinum majus[J]. EMBO Journal, 1992, 11(4): 1239-1249. [10]Kropat J, Tottey S, Birkenbihl R P, et al. A regulator of nutritional copper signaling in Chlamydomonas?is an SBP domain protein that recognizes the GTAC core of copper response element[J]. Proceedings of the National Academy of Sciences of the United States of America, 2005, 102(51): 18730-18735. [11]Lannenpan M, Jananen I, Haltta-Vuori M, et al. A new SBP-box gene BpSPL1?in silver birch (Betula pendula)[J]. Physiologia Plantarum, 2004, 120(3): 491-500. [12]Manning K, Tar M, Poole M, et al. A naturally occurring epigenetic mutation in a gene encoding an SBP-box transcription factor inhibits tomato fruit ripening[J]. Nature Genetics, 2006, 38: 948- 952. [13]Unte U S, Sorensen A M, Pesaresi P, et al. SPL8, an SBP-box gene that affects pollen sac development in Arabidopsis[J]. Plant Cell, 2003, 15(4): 1009-1019. [14]Wu G, Poethig R S. Temporal regulation of shoot development in Arabidopsis thaliana?by miR156 and its target SPL3[J]. Development, 2006, 133(18): 3539-3547. [15]Yamasaki K, Kigawa T, Inoue M, et al. A novel zinc-binding motif revealed by solution structures of DNA-binding domains of Arabidopsis?SBP-family transcription factors[J]. Journal Molecular Biology, 2006, 337: 49-63. [16]Maeo K, Tokuda T, Ayame A, et al. An AP2-type transcription factor, WRINKLED1, of Arabidopsis thaliana?binds to the AW-box sequence conserved among proximal upstream regions of genes involved in fatty acid synthesis[J]. Plant Journal, 2009, 60(3): 476-487.
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备注/Memo
基金项目：转基因专项资助项目（2009ZX08004-009B）。