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COBL家族基因编码糖基磷脂酰基醇锚定蛋白,主要参与调控植物细胞壁纤维素的含量和细胞的定向伸长。研究毛竹COBL基因的分子特征和表达模式,对揭示其材性快速形成机制具有重要意义。利用生物信息学方法对毛竹COBL家族成员进行全基因组分析,共鉴定出7个具有完整保守结构域的COBL家族基因成员(Pe COBL1～Pe COBL7),其内含子数量为0～7个,编码的蛋白均具有CCVS保守结构域和潜在的ω位点,仅4个成员(Pe COBL3, Pe COBL4, Pe COBL5和Pe COBL7)具有CBM功能域。亚细胞定位预测表明,Pe COBLs均定位于细胞膜上,为膜蛋白,属于GPI-APs超家族。系统进化与蛋白motifs预测分析发现,Pe COBLs各成员与水稻的亲缘关系更为接近,其氨基酸序列同源性更高。RT-q PCR结果显示,Pe COBLs在毛竹不同组织中的表达存在明显差异,其中在展开叶中表达量高(低)的基因,在未展开叶中表达量则相对较低(高);Pe COBLs在毛竹不同高度笋基部第一节的上、中、下三部分的表达量均存在一定的差异。基因共表达分析表明,Pe COBLs与多种蛋白酶基因呈现正向共表达,其中包含纤维素酶5和类纤维素合成酶D2基因,表明Pe COBLs参与纤维素合成的功能是与其他基因共同实现的。本研究为深入开展Pe COBLs功能研究提供了参考,有助于揭示该家族成员在调控毛竹纤维素含量和细胞定向伸长中的作用机制。
Abstract：The genes in the COBL family encode glycosylphosphatidylinositol-anchored proteins(GPI-APs), which are mainly involved in regulating the cellulose content of plant cell walls and the directional elongation of cells.Study on the molecular characteristics and expression patterns of the COBL genes in moso bamboo(Phyllostachys edulis) is of great significance to reveal the rapid formation mechanism of bamboo material. Whole-genome identification of the members belonged to COBL family in moso bamboo was carried out by using the bioinformatics method. A total of seven members(PeCOBL1～PeCOBL7) with the complete conserved domain of COBL were identified, and their intron numbers ranged from 0 to 7. The proteins encoded by PeCOBLs all had CCVS conserved domain and potential ω-site, only four members(PeCOBL3, PeCOBL4, PeCOBL5 and PeCOBL7) had the CBM functional domain. The prediction of subcellular localization indicated that PeCOBLs were located on the cell membrane and were membrane proteins, belonging to the GPI-APs superfamily. Phylogenetic analysis and protein motifs prediction revealed that the members of PeCOBLs were more closely related to those of rice and had higher amino acid sequence homology. The results of RT-qPCR showed that there were significant differences in the expression of PeCOBLs in different tissues of moso bamboo, among which the genes with high(low) expression levels in the expanded leaves were relatively low(high) in the unexpanded leaves. There were also some differences in the expression of PeCOBLs in the top, middle and bottom parts of the first internode at the base of moso bamboo shoots with different heights. Gene co-expression analysis demonstrated that PeCOBLs were positively co-expressed with various protease genes, such as cellulase 5 and cellulose-like synthetase D2 gene, indicating that the function of PeCOBLs involved in cellulose synthesis might be achieved together with other genes. This study provides a reference for further research on the function of PeCOBLs, which will help reveal the mechanism of each member associated with the regulation of cellulose content and cell-directed elongation in moso bamboo.
Benfey P.N.,Linstead P.J.,Roberts K.,Schiefelbein J.W.,Hauser M.T.,and Aeschbacher R.A.,1993,Root development in Arabidopsis:four mutants with dramatically altered root morphogenesis,Development,119(1):57-70.
Ben-Tova D.,Idan-Molakandov A.,Hugger A.,Ben-Shlush I.,G俟-nl M.,Yang B.,Usadel B.,and Harpaz-Saad S.,2018,The role of COBRA-LIKE 2 function,as part of the complex network of interacting pathways regulating Arabidopsis seed mucilage polysaccharide matrix organization,Plant J.,94(3):497-512.
Brady S.M.,Song S.,Dhugga K.S.,Rafalski J.A.,and Benfey P.N.,2007,Combining expression and comparative evolutionary analysis,The COBRA gene family,Plant Physiol.,143(1):172-187.
Brown D.M.,Zeef L.A.H.,Ellis J.,Goodacre R.,and Turner S.R.,2005,Identification of novel genes in Arabidopsis involved in secondary cell wall formation using expression profiling and reverse genetics,Plant Cell,17(8):2281-2295.
Chou K.C.,and Shen H.B.,2010,Plant-mPLoc:a top-down strategy to augment the power for predicting plant protein subcellular localization,PLoS ONE,5(6):e11335.
Cui K.,He C.Y.,Zhang J.G.,Duan A.G.,and Zeng Y.F.,2012,Temporal and spatial profiling of internode elongation-associated protein expression in rapidly growing culms of bamboo,J.Proteome Res.,11(4):2492-2507.
Cui Y.Y.,and Cheng Y.X.,2018,Cas9/g RNA-mediatedCOB-RA3 gene mutation in Populus trichocarpa,Beijing Linye Daxue Xuebao (Journal of Beijing Forestry University),40(4):10-15.(崔永耀,程玉祥,2018,基于Cas9/gRNA创制毛果杨COBRA3基因突变体,北京林业大学学报,40(4):10-15.)
Dai X.X.,You C.J.,Wang L.,Chen G.X.,Zhang Q.F.,and Wu C.Y.,2009,Molecular characterization,expression pattern,and function analysis of the OsBC1L family in rice,Plant Mol.Biol.,71(4-5):469-481.
Fan C.J.,Ma J.M.,Guo Q.R.,Li X.T.,Wang H.,and Lu M.Z.,2013,Selection of reference genes for quantitative real-time PCR in bamboo (Phyllostachys edulis),PLoS ONE,8(2):e56573.
Gao Z.M.,Peng Z.H.,Li X.P.,Mu S.H.,and Ma Y.J.,2009,Isolation and tissue specific expression analysis of phenylanlanine ammonialyase gene from phyllostachys edulis,Linye Kexue Yanjiu (Forest Research),22(3):449-453.(高志民,彭镇华,李雪平,牟少华,马艳军,2009,毛竹苯丙氨酸解氨酶基因的克隆及组织特异性表达分析,林业科学研究,22(3):449-453.)
Kalappurakkal J.M.,Anilkumar A.A.,Patra C.,van Zanten T.S.,Sheetz M.P.,and Mayor S.,2019,Integrin mechano-chemical signaling generates plasma membrane nanodomains that promote cell spreading,Cell,177(7):1738-1756.
Ko J.H.,Kim J.H.,Jayanty S.S.,Howe G.A.,and Han K.H.,2006,Loss of function of COBRA,a determinant of oriented cell expansion,invokes cellular defence responses in Arabidopsis thaliana,J.Exp.Bot.,57(12):2923-2936.
Li L.C.,Sun H.Y.,Lou Y.F.,Yang Y.H.,Zhao H.S.,and Gao Z.M.,2017,Cloning and expression analysis of PeLAC in Phyllostachys edulis,Zhiwu Kexue Xuebao (Plant Science Journal),35(2):252-259.(李利超,孙化雨,娄永峰,杨意宏,赵韩生,高志民,2017,毛竹漆酶基因PeLAC的克隆与表达分析,植物科学学报,35(2):252-259.)
Li S.,Ge F.R.,Xu M.,Zhao X.Y.,Huang G.Q.,Zhou L.Z.,Wang J.G.,Kombrink A.,McCormick S.,Zhang X.S.,and Zhang Y.,2013,Arabidopsis COBRA-LIKE 10,a GPI-anchored protein,mediates directional growth of pollen tubes,Plant J.,74(3):486-497.
Li Y.H.,Qian Q.,Zhou Y.H.,Yan M.X.,Sun L.,Zhang M.,Fu Z.M.,Wang Y.H.,Han B.,Pang X.M.,Chen M.S.,and Li J.Y.,2003,BRITTLE CULM1,Which encodes a COBRA-like protein,affects the mechanical properties of rice plants,Plant Cell,15(9):2020-2031.
Liu J.,Cheng Z.C.,Xie L.H.,Li X.Y.,and Gao J.,2019,Multifaceted role of PheDof12-1 in the regulation of flowering time and abiotic stress responses in moso bamboo (Phyllostachys edulis),Int.J.Mol.Sci.,20(2):424.
Liu L.F.,Shang-Guan K.K.,Zhang B.C.,Liu X.L.,Yan M.X.,Zhang L.J.,Shi Y.Y.,Zhang M.,Qian Q.,Li J.Y.,and Zhou Y.H.,2013,Brittle Culm1,a COBRA-Like protein,functions in cellulose assembly through binding cellulose microfibrils,PLoS Genetics,9(8):e1003704.
Livak K.J.,and Schmittgen T.D.,2001,Analysis of relative gene expression data using real-time quantitative PCR and the2-驻驻Ctmethod,Methods,25(4):402-408.
Pan F.,Wang Y.,Liu H.L.,Wu M.,Chu W.Y.,Chen D.M.,and Xiang Y.,2017,Genome-wide identification and expression analysis of SBP-like transcription factor genes in moso bamboo (Phyllostachys edulis),BMC Genomics,18:486.
Peng Z.H.,Lu Y.,Li L.B.,Zhao Q.,Feng Q.,Gao Z.M.,Lu H.Y.,Hu T.,Yao N.,Liu K.Y.,Li Y.,Fan D.L.,Guo Y.L.,Li W.J.,Lu Y.Q.,Weng Q.J.,Zhou C.C.,Zhang L.,Huang T.,Zhao Y.,Zhu C.R.,Liu X.G.,Yang X.W.,Wang T.,Miao K.,Zhuang C.Y.,Cao X.L.,Tang W.L.,Liu G.S.,Liu Y.L.,Chen J.,Liu Z.J.,Yuan L.C.,Liu Z.H.,Huang X.H.,Lu T.T.,Fei B.H.,Ning Z.M.,Han B.,and Jiang Z.H.,2013,The draft genome of the fast-growing non-timber forest species moso bamboo (Phyllostachys heterocycla),Nature Genetics,45(4):456-461.
Roudier F.,Schindelman G.,DeSalle R.,and Benfey P.N.,2002,The COBRA family of putative GPI-anchored proteins in Arabidopsis,a new fellowship in expansion,Plant Physiol.,130(2):538-548.
Schindelman G.,Morikami A.,Jung J.,Baskin T.I.,Carpita N.C.,Derbyshire P.,McCann M.C.,and Benfey P.N.,2001,COB-RA encodes a putative GPI-anchored protein,which is polarly localized and necessary for oriented cell expansion in Arabidopsis,Genes Dev.,15(9):1115-1127.
Sedbrook J.C.,Carroll K.L.,Hung K.F.,Masson P.H.,and Somerville C.R.,2002,The Arabidopsis SKU5 gene encodes an extracellular glycosyl phosphatidylinositol-anchored glycoprotein involved in directional root growth,Plant Cell,14(7):1635-1648.
Shi H.,Kim Y.,Guo Y.,Stevenson B.,and Zhu J.K.,2003,The Arabidopsis SOS5 locus encodes a putative cell surface adhesion protein and is required for normal cell expansion,Plant Cell,15(1):19-32.
Sindhu A.,Langewisch T.,Olek A.,Multani D.S.,McCann M.C.,Vermerris W.,Carpita N.C.,and Johal G.,2007,Maize brit原tle stalk2 encodes a COBRA-like protein expressed in early organ development but required for tissue flexibility at maturity,Plant Physiol.,145(4):1444-1459.
Wasteneys G.O.,and Fujita M.,2006,Establishing and maintaining axial growth:wall mechanical properties and the cytoskeleton,J.Plant Res.,119(1):5-10.
Xu G.Y.,Ong E.,Gilkes N.R.,Kilburn D.G.,Muhandiram D.R.,Harris-Brandts M.,Carver J.P.,Kay L.E.,and Harvey T.S.,1995,Solution structure of a cellulose-binding domain from Cellulomonas fimi by nuclear magnetic resonance spectroscopy,Biochemistry,34(21):6993-7009.
Xu H.,Sun H.Y.,Wang S.N.,Yang Y.H.,Zhao H.S.,and Gao Z.M.,2019,Bioinformatics and expression pattern analysis of moso bamboo CCR gene family members,Jiyinzuxue yu Yingyong Shengwuxue (Genomics and Applied Biology),38(3):1168-1177.(徐浩,孙化雨,王思宁,杨意宏,赵韩生,高志民,2019,毛竹CCR基因家族成员生物信息学和表达模式分析,基因组学和应用生物学,38(3):1168-1177.)
Zhang D.Q.,Yang X.H.,Zhang Z.Y.,and Li B.,2009,Expression and nucleotide diversity of the poplar COBL gene,Tree Genet.Genomes,6(2):331-344.
Zhang Y.T.,Tang D.Q.,Lin X.C.,Ding M.Q.,and Tong Z.K,2018,Genome-wide identification of MADS-box family genes in moso bamboo (Phyllostachys edulis) and a functional analysis of PeMADS5 in flowering,BMC Plant Biol.,18:176.
Zhao G.Z.,Sun H.Y.,Zhao H.S.,and Gao Z.M.,2015,A study of genome sequencing of Phyllostachys edulis and its data applications,Shijie Zhuteng Tongxun (World Bamboo and Rattan),13(3):8-12.(赵广枝,孙化雨,赵韩生,高志民,2015,毛竹基因组测序及数据应用研究现状,世界竹藤通讯,13(3):8-12.)
Zhao H.S.,Gao Z.M.,Wang L.,Wang J.L.,Wang S.B.,Fei B.H.,Chen C.H.,Shi C.C.,Liu X.C.,Zhang H.L.,Lou Y.F.,Chen L.F.,Sun H.Y.,Zhou X.Q.,Wang S.N.,Zhang C.,Xu H.,Li L.C.,Yang Y.H.,Wei Y.L.,Yang W.,Gao Q.,Yang H.M.,Zhao S.C.,and Jiang Z.H.,2018,Chromosome-level reference genome and alternative splicing atlas of moso bamboo(Phyllostachys edulis),GigaScience,7(10):1-12.
基本信息:
DOI：10.13417/j.gab.040.000817
中图分类号:S795.7
引用信息:
[1]史晶晶,马霜,杨克彬,等.毛竹7个COBL基因的分子特征及表达分析[J].基因组学与应用生物学,2021,40(02):817-826.DOI:10.13417/j.gab.040.000817.
基金信息:
国际竹藤中心基本科研业务费专项资金项目(1632019008); 农村领域国家科技计划项目第一课题(2015BAD04B0101)共同资助
2021-02-25
2021-02-25