11条白桦BpSPL家族基因的生物信息学和表达分析

宁坤; 杨洋; 马述山; 李慧玉

11条白桦BpSPL家族基因的生物信息学和表达分析

1.
林木遗传育种国家重点实验室东北林业大学, 黑龙江哈尔滨 150040
基金项目:
“十二五”农村领域国家科技计划课题——“水曲柳和白桦珍贵用材林定向培育技术研究与示范”（2012BAD21B02）。
中图分类号: S792.153

Bioinformatics and Expression Analysis of 11 BpSPLs in Betula platyphylla Suk.

1.
Key Laboratory of Tree Genetic Improvement and Biotechnology, Northeast Forestry University, Harbin 150040, Heilongjiang, China
CLC number: S792.153

摘要: [目的] 研究白桦中SPL转录因子的基因序列特征及其在不同时期不同组织中的表达规律。[方法] 依据白桦45个转录组测序结果，共获得12条全长SPL基因，依次命名为白桦BpSPL1-BpSPL12，对其中11条BpSPL进行了生物信息学及基因表达特征分析。[结果] 生物信息学分析发现，11条BpSPL均含有1个高度保守的SBP结构域，且基因长度差异较大，含有210个不等数目的外显子，系统进化分析发现11条白桦SPL分属于六大类SPL蛋白；qRT-PCR分析结果显示，白桦BpSPL基因在不同时期的叶、顶芽、茎、雄花序中表达变化显著，多数SPL基因在顶芽中7月5日和8月20日至9月20日时期表达较高，除BpSPL1基因外在雄花序从6月份到9月份的生长阶段中，SPL的表达水平呈现逐渐升高的总体趋势。[结论] BpSPL基因可能参与到了白桦顶芽和雄花序的生长发育过程。
- 白桦
- / BpSPL基因家族
- / 生物信息学
- / 基因表达
Abstract: [Objective] To analyze the sequence features and gene expression rules in different tissues and periods of SPL transcription factor from Betula platyphylla Suk. [Method] Based on 45 transcriptome databases of Birch, 12 BpSPL genes were obtained and named as BpSPL1-BpSPL12, of which 11 genes were analyzed. [Result] Bioinformatics analysis showed that all the 11 BpSPLs contained a highly conserved SBP domain, their lengths exhibited a high diversity and owned 210 numbers of exon in genetic sequences. Phylogenetic analysis showed that the 11 Birch SPL proteins belonged to six major categories. The qRT-PCR results suggested that the expression levels of the 11 BpSPL genes changed significantly in different periods and different tissues (leaves, terminal buds, stems, male inflorescences). In terminal buds, most BpSPL genes were up-regulated on July 5 and August 20 to September 20. In male inflorescences, with the exception of BpSPL1 which was down-regulated or unchanged, all the other BpSPL genes exhibited a gradual increasing pattern from June to September (the growth stage). [Conclusion] This study suggested that these BpSPL genes may be involved in the growth and development of birch terminal buds and male inflorescences.
- Betula platyphylla Suk.
- / BpSPL gene family
- / bioinformatics
- / gene expression

[1]	Cardon G H,H hmann S,Nettesheim K,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):367-377.
[2]	Unte U S,Sorensen A M,Pesaresi P,et al. SPL8,an SBP-box gene that affects pollen sac development in Arabidopsis[J]. The Plant Cell Online,2003,15(4):1009-1019.
[3]	Stone JM,Liang X,Nekl ER,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]	Nonogaki H. MicroRNA gene regulation cascades during early stages of plant development[J]. Plant and Cell Physiology, 2010,51(11):1840-1846.
[5]	Wang J W,Park M Y,Wang L J,et al. miRNA control of vegetative phase change in trees[J]. PLoS Genetics,2011,7(2):e1002012.
[6]	Gou J Y,Felippes F F,Liu C J,et al.Negative regulation of anthocyanin biosynthesis in Arabidopsis by a miR156-targeted SPL transcription factor[J].The Plant Cell Online, 2011,23(4):1512-1522.
[7]	Wang J W,Czech B,Weigel D. miR156-regulated SPL transcription factors define an endogenous flowering pathway in Arabidopsis thaliana[J]. Cell,2009,138(4):738-749.
[8]	Wu G,Poethig RS.Temporal regulation of shoot development in Arabidopsis thaliana by miR156 and its target SPL3[J]. Development 2006, 133(18):3539-3547.
[9]	Gandikota M,Birkenbihl RP,Hhmann S,et al.The miRNA156/157 recognition element in the 3'UTR of the Arabidopsis SBP box gene SPL3 prevents early flowering by translational inhibition in seedlings[J]. The Plant Journa,2007, 49(4):683-693.
[10]	Rhoades M W,Reinhart B J,Lim L P,et al.Prediction of plant microRNA targets[J]. cell,2002,110(4):513-520.
[11]	Schwab R,Palatnik JF,Riester M,et al. Specific effects of microRNAs on the plant transcriptome[J]. Developmental cell,2005, 8(4):517-527.
[12]	Klein J,Saedler H,Huijser P. 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 MGG 1996,250(1):7-16.
[13]	Manning KM,Poole M,Hong Y,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(8):948-952.
[14]	Zhang Y,Schwarz S,Saedler H,et al.SPL8,a local regulator in a subset of gibberellin-mediated developmental processes in Arabidopsis[J]. Plant molecular biology,2007, 63(3):429-439.
[15]	Becraft PW,Bongard-Pierce DK,Sylvester AW,et al.The liguleless-1 gene acts tissue specifically in maize leaf development[J]. Developmental biology,1990,141(1):220-232.
[16]	Yang J H,Fang Z M,Yu J Q. Relationship between cytoplasmic male sterility and SPL-like gene expression in stem mustard[J]. Physiol Plantarum,2008,133:426-434.
[17]	刘雪梅,杨传平.白桦雌雄花发育周期的时序特征[J].林业科学,2006,(12):28-32.
[18]	官民晓,刘雪梅,张妍,等.白桦SPL8转录因子基因的分离及转录表达分析[J].南京林业大学学报:自然科学版, 2013,37(3):17-22.
[19]	Salinas M,Xing S,Hhmann S,et al.Genomic organization,phylogenetic comparison and differential expression of the SBP-box family of transcription factors in tomato[J].Planta, 2012,235(6):1171-1184.
[20]	Tamura K,Dudley J,Nei M,et al.MEGA4:molecular evolutionary genetics analysis (MEGA) software version 4.0[J].Molecular biology and evolution,2007,24(8):1596-1599.
[21]	Wang LQ,Qin LP,Liu WJ,et al.A novel ethylene-responsive factor from Tamarix hispida, ThERF1,is a GCC-box and DRE-motif binding protein that negatively modulates abiotic stress tolerance in Arabidopsis[J].Physiologia Plantarum,2014,152:84-97.
[22]	Li HY,Ning K,Song X,et al.Molecular Cloning and Expression Analysis of Nine ThTrx Genes in Tamarix hispida[J].Plant Mol Biol Rep,2013,31:917-924.
[23]	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 of Molecular Biology,2004,337(1):49-63.
[24]	Guo AY,Zhu QH,Gu XC,et al.Genome-wide identification and evolutionary analysis of the plant specific SBP-box transcription factor family[J].Gene,2008,418,1-8.
[25]	李明,李长生,赵传志,等. 植物SPL 转录因子研究进展[J]. 植物学报,2013,48(001):107-116.
[26]	Xing S,Salinas M,Hhmann S,et al.miR156-targeted and nontargeted SBP-box transcription factors act in concert to secure male fertility in Arabidopsis[J].The Plant Cell Online,2010, 22(12):3935-3950.
[27]	李玉岭,周厚君,林二培,等.光皮桦BpSPL1 转录因子基因的克隆,表达及单核苷酸多态性分析[J].林业科学,2013,49(9):52-61.
[28]	肖政,李纪元,范正琪,等.荔波连蕊茶GA2ox1基因的克隆及表达分析[J].林业科学研究,2016,29(1):41-47.
[29]	宋长年,钱剑林,房经贵,等.枳SPL9和SPL13全长cDNA克隆、亚细胞定位和表达分析[J].中国农业科学,2010,43(10):2105-2114.
[30]	李洁,范术丽,宋美珍,等.陆地棉GhSPL3基因的克隆、亚细胞定位及表达分析[J]. 棉花学报,2012,24(5):414-419.

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11条白桦BpSPL家族基因的生物信息学和表达分析

Bioinformatics and Expression Analysis of 11 BpSPLs in Betula platyphylla Suk.

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11条白桦BpSPL家族基因的生物信息学和表达分析

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Bioinformatics and Expression Analysis of 11 BpSPLs in Betula platyphylla Suk.

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11条白桦BpSPL家族基因的生物信息学和表达分析

Bioinformatics and Expression Analysis of 11 BpSPLs in Betula platyphylla Suk.

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11条白桦BpSPL家族基因的生物信息学和表达分析

English Abstract

Bioinformatics and Expression Analysis of 11 BpSPLs in Betula platyphylla Suk.

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