蒺藜苜蓿TCP转录因子家族的全基因组鉴定和分析
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摘要
作为植物特有的转录因子家族,TCP基因处于植物多种信号传导途径的中心节点位置。对蒺藜苜蓿全基因组进行检索,共获得21个TCP基因序列。蒺藜苜蓿TCP成员间在蛋白质大小、等电点等方面具有明显的差异。对蒺藜苜蓿TCP基因进行基因结构、染色体定位和系统进化分析,发现蒺藜苜蓿TCP基因结构较为简单,一般不含有内含子,仅一个外显子。21个基因中仅有5个基因有内含子。系统进化关系上其中4个基因亲缘关系非常近。这4个基因位于1号、4号、7号染色体上TCP基因聚集存在的位置。蒺藜苜蓿TCP基因在各个器官间特异性的表达。TCP基因参与蒺藜苜蓿根瘤发育的过程,也响应外界盐胁迫和病菌侵染刺激。本研究发现的蒺藜苜蓿TCP基因家族信息,可为蒺藜苜蓿乃至豆科植物育种提供有价值的信息。
As a plant-specific transcription fac tor family, the TCP genes lie at the central node position of the plant's multiple signaling pathways. A total of 21 TCP genes order were obtained by the retrieval of the whole genome of M. truncatula. There were significant differences in protein size, isoelectric point, etc. between TCP members of Medicago truncatula. The gene structure, chromosomal location and phylogenetic analysis of the TCP genes of M. truncatula revealed that the structure of the TCP genes of M. truncatula was simple without intron but with only one exon. Of the 21 genes, only 5 genes had one intron. The phylogenetic relationship of four genes was very close. These four genes are located on chromosomes 1, 4, and 7, where TCP gene aggregates. TCP genes of M. truncatula express differently in each different organs. TCP genes are involved in the process of root development of M. truncatula, and in the response to external salt stress and pathogen infection. The TCP gene family information of M. truncatula was found in this study which might provide valuable information for the breeding of M. truncatula and leguminous plants.
As a plant-specific transcription fac tor family, the TCP genes lie at the central node position of the plant's multiple signaling pathways. A total of 21 TCP genes order were obtained by the retrieval of the whole genome of M. truncatula. There were significant differences in protein size, isoelectric point, etc. between TCP members of Medicago truncatula. The gene structure, chromosomal location and phylogenetic analysis of the TCP genes of M. truncatula revealed that the structure of the TCP genes of M. truncatula was simple without intron but with only one exon. Of the 21 genes, only 5 genes had one intron. The phylogenetic relationship of four genes was very close. These four genes are located on chromosomes 1, 4, and 7, where TCP gene aggregates. TCP genes of M. truncatula express differently in each different organs. TCP genes are involved in the process of root development of M. truncatula, and in the response to external salt stress and pathogen infection. The TCP gene family information of M. truncatula was found in this study which might provide valuable information for the breeding of M. truncatula and leguminous plants.
引文
Bai F.,Reinheimer R.,Durantini D.,Kellogg E.A.,and Schmidt R.J.,2012,TCP transcription factor,BRANCH ANGLEDEFECTIVE 1(BAD1),is required for normal tassel branch angle formation in maize,Proc.Natl.Acad.Sci.USA,109(30):12225-12230
Cubas P.,Lauter N.,Doebley J.,and Coen E.,1999,The TCP domain:a motif found in proteins regulating plant growth and development,Plant J.,18(2):215-222
Danisman S.,Van Dijk A.D.J.,Bimbo A.,van der Wal F.,Hennig L.,de Folter S.,Angenent G.C.,and Immink R.G.H.2013,Analysis of functional redundancies within the Arabidopsis TCP transcription factor family,J.Exp.Bot.,64(18):5673-5685
Doebley J.,2004,The genetics of maize evolution,Annu.Rev Genet.,38(38):37-59
Fambrini M.,Salvini M.,and Pugliesi C.,2011,A transposonmediate inactivation of a CYCLOIDEA-like gene originates polysymmetric and androgynous ray flowers in Helianthus annuus,Genetica,139(11-12):1521-1529
Giraud E.,Ng S.,Carrie C.,Duncan O.,Low J.,Lee C.P.,Van Aken O.,Millar A.H.,Murcha M.,and Whelan J.,2010TCP transcription factors link the regulation of genes encoding mitochondrial proteins with the circadian clock in Arabidopsis thaliana,Plant Cell,22(12):3921-3934
Hao J.,Tu L.,Hu H.,Tan J.,Deng F.,Tang W.,Nie Y.,and Zhang X.,2012,GbTCP,a cotton TCP transcription factor confers fibre elongation and root hair development by a complex regulating system,J.Exp.Bot.,63(17):6267-6281
Heery D.M.,Kalkhoven E.,Hoare S.,and Parker M.G.,1997,Asignature motif in transcriptional co-activators mediates binding to nuclear receptors,Nature,387(6634):733-736
Howarth D.G.,and Donoghue M.J.,2006,Phylogenetic analysis of the"ECE"(CYC/TB1)clade reveals duplications predating the core eudicots,Proc.Natl.Acad.Sci.USA,103(24)9101-9106
Kim S.H.,Son G.H.,Bhattacharjee S.,Kim H.J.,Nam J.C.Nguyen P.D.,Hong J.C.,and Gassmann W.,2014,The Arabidopsis immune adaptor SRFR1 interacts with TCP transcription factors hat redundantly contribute to effector-triggered immunity,Plant J.,78(6):978-89
Li C.,Potuschak T.,Colón-Carmona A.,Gutiérrez R.A.,and Doerner P.,2005,Arabidopsis TCP20 links regulation of growth and cell division control pathways,Proc.Natl.Acad.Sci USA,102(36):12978-12983
Li S.,Gusche N.,and Zachgo S.,2011,The ROXY1 C-terminal L**LL motif is essential for the interaction with TGA transcription factors,Plant Physiol.,157(4):2056-2068
Luo D.,Carpenter R.,Vincent C.,Copsey L.,and Coen E.,1995,Origin of floral asymmetry in Antirrhinum,Nature,383(6603):794-799
Manassero N.G.U.,Viola I.L.,Welchen E.,and Gonzalez D.H.,2013,TCP transcription factors:architectures of plant form,Bio.Mol.Concepts,4(2):111-127
Navaud O.,Dabos P.,Carnus E.,Tremousaygue D.,and Herve C.,2007,TCP transcription factors predate the emergence of land plants,J.Mol.Evol.,65(1):23-33
Parapunova V.,Busscher M.,Busscher-Lange J.,Lammers M.,Karlova R.,Bovy A.G.,Angenent G.C.,and De Maagd R.A.,2014,Identification,cloning and characterization of the tomato TCP transcription factor family,BMC Plant Biol.,14(1):157
Rueda-Romero P.,Barrero-Sicilia C.,Gomez-Cadenas A.,Carbonero P.,and O觡ate-Sánchez L.,2012,Arabidopsis thaliana DOF6 negatively affects germination in nonafter-ripened seeds and interacts with TCP14,J.Exp.Bot.,63(5):1937-1949
Schommer C.,Palatnik J.F.,Aggarwal P.,Chételat A.,Cubas P.,Farmer E.E.,Nath U.,and Weigel D.,2008,Control of jasmonate biosynthesis and senescence by mi R319 targets,PLoS Biol.,6(9):e230
Takeda T.,Amano K.,Ohto M.,Nakamura K.,Sato S.,Kato T.,Tabata S.,and Ueguchi C.,2006,RNA interference of the Arabidopsis putative transcription factor TCP16 gene results in abortion of early pollen development,Plant Mol.Biol.,61(1-2):165-177
Yang X.,Pang H.B.,Liu B.L.,Qiu Z.J.,Gao Q.,Wei L.,Dong Y.,and Wang Y.Z.,2012,Evolution of double positive autoregulatory feedback loops in CYCLOIDEA2 clade genes is associated with the origin of floral zygomorphy,Plant Cell,24(5):1834-1847
Zander M.,Chen S.,Imkampe J.,Thurow C.,and Gatz C.,2012,Repression of the Arabidopsis thaliana jasmonic acid/ethylene induced defense pathway by TGA-interacting glutaredoxins depends on their C-terminal ALWL motif,Mol.Plant,5(4):831-840
Cubas P.,Lauter N.,Doebley J.,and Coen E.,1999,The TCP domain:a motif found in proteins regulating plant growth and development,Plant J.,18(2):215-222
Danisman S.,Van Dijk A.D.J.,Bimbo A.,van der Wal F.,Hennig L.,de Folter S.,Angenent G.C.,and Immink R.G.H.2013,Analysis of functional redundancies within the Arabidopsis TCP transcription factor family,J.Exp.Bot.,64(18):5673-5685
Doebley J.,2004,The genetics of maize evolution,Annu.Rev Genet.,38(38):37-59
Fambrini M.,Salvini M.,and Pugliesi C.,2011,A transposonmediate inactivation of a CYCLOIDEA-like gene originates polysymmetric and androgynous ray flowers in Helianthus annuus,Genetica,139(11-12):1521-1529
Giraud E.,Ng S.,Carrie C.,Duncan O.,Low J.,Lee C.P.,Van Aken O.,Millar A.H.,Murcha M.,and Whelan J.,2010TCP transcription factors link the regulation of genes encoding mitochondrial proteins with the circadian clock in Arabidopsis thaliana,Plant Cell,22(12):3921-3934
Hao J.,Tu L.,Hu H.,Tan J.,Deng F.,Tang W.,Nie Y.,and Zhang X.,2012,GbTCP,a cotton TCP transcription factor confers fibre elongation and root hair development by a complex regulating system,J.Exp.Bot.,63(17):6267-6281
Heery D.M.,Kalkhoven E.,Hoare S.,and Parker M.G.,1997,Asignature motif in transcriptional co-activators mediates binding to nuclear receptors,Nature,387(6634):733-736
Howarth D.G.,and Donoghue M.J.,2006,Phylogenetic analysis of the"ECE"(CYC/TB1)clade reveals duplications predating the core eudicots,Proc.Natl.Acad.Sci.USA,103(24)9101-9106
Kim S.H.,Son G.H.,Bhattacharjee S.,Kim H.J.,Nam J.C.Nguyen P.D.,Hong J.C.,and Gassmann W.,2014,The Arabidopsis immune adaptor SRFR1 interacts with TCP transcription factors hat redundantly contribute to effector-triggered immunity,Plant J.,78(6):978-89
Li C.,Potuschak T.,Colón-Carmona A.,Gutiérrez R.A.,and Doerner P.,2005,Arabidopsis TCP20 links regulation of growth and cell division control pathways,Proc.Natl.Acad.Sci USA,102(36):12978-12983
Li S.,Gusche N.,and Zachgo S.,2011,The ROXY1 C-terminal L**LL motif is essential for the interaction with TGA transcription factors,Plant Physiol.,157(4):2056-2068
Luo D.,Carpenter R.,Vincent C.,Copsey L.,and Coen E.,1995,Origin of floral asymmetry in Antirrhinum,Nature,383(6603):794-799
Manassero N.G.U.,Viola I.L.,Welchen E.,and Gonzalez D.H.,2013,TCP transcription factors:architectures of plant form,Bio.Mol.Concepts,4(2):111-127
Navaud O.,Dabos P.,Carnus E.,Tremousaygue D.,and Herve C.,2007,TCP transcription factors predate the emergence of land plants,J.Mol.Evol.,65(1):23-33
Parapunova V.,Busscher M.,Busscher-Lange J.,Lammers M.,Karlova R.,Bovy A.G.,Angenent G.C.,and De Maagd R.A.,2014,Identification,cloning and characterization of the tomato TCP transcription factor family,BMC Plant Biol.,14(1):157
Rueda-Romero P.,Barrero-Sicilia C.,Gomez-Cadenas A.,Carbonero P.,and O觡ate-Sánchez L.,2012,Arabidopsis thaliana DOF6 negatively affects germination in nonafter-ripened seeds and interacts with TCP14,J.Exp.Bot.,63(5):1937-1949
Schommer C.,Palatnik J.F.,Aggarwal P.,Chételat A.,Cubas P.,Farmer E.E.,Nath U.,and Weigel D.,2008,Control of jasmonate biosynthesis and senescence by mi R319 targets,PLoS Biol.,6(9):e230
Takeda T.,Amano K.,Ohto M.,Nakamura K.,Sato S.,Kato T.,Tabata S.,and Ueguchi C.,2006,RNA interference of the Arabidopsis putative transcription factor TCP16 gene results in abortion of early pollen development,Plant Mol.Biol.,61(1-2):165-177
Yang X.,Pang H.B.,Liu B.L.,Qiu Z.J.,Gao Q.,Wei L.,Dong Y.,and Wang Y.Z.,2012,Evolution of double positive autoregulatory feedback loops in CYCLOIDEA2 clade genes is associated with the origin of floral zygomorphy,Plant Cell,24(5):1834-1847
Zander M.,Chen S.,Imkampe J.,Thurow C.,and Gatz C.,2012,Repression of the Arabidopsis thaliana jasmonic acid/ethylene induced defense pathway by TGA-interacting glutaredoxins depends on their C-terminal ALWL motif,Mol.Plant,5(4):831-840
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