水稻ABCB转运蛋白基因的分子进化和表达分析

徐杏,邱杰,徐扬,徐辰武*

doi:10.3969/j.issn.10017216.2012.02.001

中国水稻科学 >

2012 , Vol. 26 >Issue 2: 127 - 136

DOI: https://doi.org/10.3969/j.issn.10017216.2012.02.001

研究报告

水稻ABCB转运蛋白基因的分子进化和表达分析

展开

扬州大学作物遗传生理省级重点实验室/教育部植物功能基因组学重点实验室，江苏扬州225009;

修回日期: 2011-06-05

网络出版日期: 2012-03-10

基金资助

扬州大学大学生课外学术活动基金资助项目

收起

Molecular Evolution and Expression Analysis of Subfamily ABCB Transporter Genes in Rice

Expand

Jiangsu Provincial Key Laboratory of Crop Genetics and Physiology; Key Laboratory of Plant Functional Genomics of the Ministry of Education, Yangzhou University, Yangzhou 225009, China;

Revised date: 2011-06-05

Online published: 2012-03-10

Fold

摘要

系统鉴定了水稻和拟南芥中27个和29个ABC家族B亚族（ABCB）基因，发现其外显子数目、编码蛋白质的长度和分子量在两种植物中均存在较大变异，而等电点分布的变化较小。系统发育分析把该亚族蛋白分为4个亚组，说明其功能可能已经发生了分化；在水稻和拟南芥中各鉴定了6对和9对旁系同源基因，说明单、双子叶植物分离之后，该亚族在水稻和拟南芥中均以物种特异的方式进行了扩张。片段复制和串联重复是水稻ABC家族扩张的主要机制。多序列比对显示，核苷酸结合域（NBD）的Walker A、Walker B和ABC域基序均高度保守，而Q环和H环的保守性略差；跨膜结构域（TMD）在不同蛋白之间和同一蛋白内没有明显的保守性。表达模式分析表明，水稻ABCB基因的表达具有明显的组织特异性，不同基因的表达特征已经发生分化。非生物胁迫下的表达分析显示多数水稻ABCB基因受到至少一种非生物胁迫因素的调控。旁系同源基因Ka/Ks分析表明，净化选择在水稻ABCB基因复制后功能的保留中发挥了重要作用。

关键词： 水稻; ABC转运蛋白; 进化; 表达分析

本文引用格式

徐杏,邱杰,徐扬,徐辰武* . 水稻ABCB转运蛋白基因的分子进化和表达分析[J]. 中国水稻科学, 2012 , 26(2) : 127 -136 . DOI: 10.3969/j.issn.10017216.2012.02.001

Abstract

With the accomplishment of genome sequencing projects, over 130 ABCs were identified separately from the model plants of monocots and dicots, rice and Arabidopsis, but the functions of most of the members remain elusive. Therefore, 27 and 29 subfamily B of ABC genes (ABCB) in rice and Arabidopsis were systematically characterized, respectively. The exon number, length and molecular weight of proteins encoded by these genes varied greatly between the two plants, albeit the isoelectric point was less diverse. Proteins of this subfamily were divided into 4 subgroups accordingpar to phylogenetic analysis, suggesting that divergence probably occurred among them; 6 and 9 pairs of paralogous genes were identified from rice and Arabidopsis, respectively, indicating that speciesspecific expansion contributed to the evolution of this subfamily in rice and Arabidopsis after the split of monocots and dicots. Segmental and tandem duplication contributed to the amplification of ABC family in rice. Multiple sequence alignment revealed that the Walker A, Walker B, and ABC signature motifs of nucleotidebinding domain (NBD) are highly conserved, but less the Q and H loops; no significant conservatism could be pointed out as to TMD domain within a single ABC protein and among different proteins. Expression of rice ABCB genes is highly tissuespecific, and divergence has occurred among the expression profiles of different genes. Expression analysis of rice ABCB genes under abiotic stress suggested that most of the genes are responsive to at least 1 type of stress factors.Ka/Ks calculation indicated that purifying selection is essential to the functional maintenance of genes after duplication.

Key words： rice; ABC transporter; evolution; expression analysis

参考文献

\[1\]Higgins C F. ABC transporters:From microorganisms to man. Annu Rev Cell Biol, 1992, 8: 67113.

\[2\]SanchezFernandez R, Davies T G, Coleman J O, et al. The Arabidopsis thaliana ABC protein superfamily, a complete inventory. J Biol Chem, 2001, 276(32): 3023130244.

\[3\]Martinoia E, Klein M, Geisler M, et al. Multifunctionality of plant ABC transporters-more than just detoxifiers. Planta, 2002, 214(3): 345355.

\[4\]Higgins C F, Linton K J. The ATP switch model for ABC transporters. Nat Struct Mol Biol, 2004, 11(10): 918926.

\[5\]Garcia O, Bouige P, Forestier C, et al. Inventory and comparative analysis of rice and Arabidopsis ATPbinding cassette (ABC) systems. J Mol Biol, 2004, 343(1): 249265.

\[6\]Verrier P J, Bird D, Burla B, et al. Plant ABC proteins: A unified nomenclature and updated inventory. Trends Plant Sci, 2008, 13(4): 151159.

\[7\]Orsi C H, Tanksley S D. Natural variation in an ABC transporter gene associated with seed size evolution in tomato species. PLoS Genet, 2009, 5(1): e1000347.

\[8\]Xu X H, Zhao H J, Liu Q L, et al. Mutations of the multidrug resistanceassociated protein ABC transporter gene 5 result in reduction of phytic acid in rice seeds. Theor Appl Genet, 2009, 119(1): 7583.

\[9\]Crouzet J, Trombik T, Fraysse A S, et al. Organization and function of the plant pleiotropic drug resistance ABC transporter family. FEBS Lett, 2006, 580(4): 11231130.

\[10\]Bowers J E, Arias M A, Asher R, et al. Comparative physical mapping links conservation of microsynteny to chromosome structure and recombination in grasses. Proc Natl Acad Sci USA, 2005, 102(37): 1320613211.

\[11\]Zhang Y, Xu G H, Guo X Y, et al. Two ancient rounds of polyploidy in rice genome. J Zhejiang Univ Sci B, 2005, 6(2): 8790.

\[12\]Yu J, Wang J, Lin W, et al. The Genomes of Oryza sativa: A history of duplications. PLoS Biol, 2005, 3(2): e38.

\[13\]Vandepoele K, Simillion C, Van de Peer Y. Evidence that rice and other cereals are ancient aneuploids. Plant Cell, 2003, 15(9): 21922202.

\[14\]Wang X, Shi X, Hao B, et al. Duplication and DNA segmental loss in the rice genome: Implications for diploidization. New Phytol, 2005, 165(3): 937946.

\[15\]Yang Z, Zhou Y, Wang X, et al. Genomewide comparative phylogenetic and molecular evolutionary analysis of tubbylike protein family in Arabidopsis, rice, and poplar. Genomics, 2008, 92(4): 246253.

\[16\]Swanson W J, Yang Z, Wolfner M F, et al. Positive Darwinian selection drives the evolution of several female reproductive proteins in mammals. Proc Natl Acad Sci USA, 2001, 98(5): 25092514.

\[17\]He X, Zhang J. Rapid subfunctionalization accompanied by prolonged and substantial neofunctionalization in duplicate gene evolution. Genetics, 2005, 169(2): 11571164.

\[18\]Force A, Lynch M, Pickett F B, et al. Preservation of duplicate genes by complementary, degenerative mutations. Genetics, 1999, 151(4): 15311545.

\[19\]Shan H, Zhang N, Liu C, et al. Patterns of gene duplication and functional diversification during the evolution of the AP1/SQUA subfamily of plant MADSbox genes. Mol Phylogenet Evol, 2007, 44(1): 2641.

\[20\]Schmid M, Davison T S, Henz S R, et al. A gene expression map of Arabidopsis thaliana development. Nat Genet, 2005, 37(5): 501506.

\[21\]Rea P A. Plant ATPbinding cassette transporters. Annu Rev Plant Biol, 2007, 58: 347375.

\[22\]Kong H, Landherr L L, Frohlich M W, et al. Patterns of gene duplication in the plant SKP1 gene family in angiosperms: Evidence for multiple mechanisms of rapid gene birth. Plant J, 2007, 50(5): 873885.

\[23\]Geisler M, Murphy A S. The ABC of auxin transport: The role of pglycoproteins in plant development. FEBS Lett, 2006, 580(4): 10941102.

\[24\]Lewis D R, Miller N D, Splitt B L, et al. Separating the roles of acropetal and basipetal auxin transport on gravitropism with mutations in two Arabidopsis multidrug resistancelike ABC transporter genes. Plant Cell, 2007, 19(6): 18381850.

\[25\]Chen S, SanchezFernandez R, Lyver E R, et al. Functional characterization of AtATM1, AtATM2, and AtATM3, a subfamily of Arabidopsis halfmolecule ATPbinding cassette transporters implicated in iron homeostasis. J Biol Chem, 2007, 282(29): 2156121571.

\[26\]Kim D Y, Bovet L, Kushnir S, et al. AtATM3 is involved in heavy metal resistance in Arabidopsis. Plant Physiol, 2006, 140(3): 922932.

\[27\]Larsen P B, Cancel J, Rounds M, et al. Arabidopsis ALS1 encodes a root tip and stele localized half type ABC transporter required for root growth in an aluminum toxic environment. Planta, 2007, 225(6): 14471458.

\[28\]Shitan N, Bazin I, Dan K, et al. Involvement of CjMDR1, a plant multidrugresistancetype ATPbinding cassette protein, in alkaloid transport in Coptis japonica. Proc Natl Acad Sci USA, 2003, 100(2): 751756.

\[29\]Terasaka K, Blakeslee J J, Titapiwatanakun B, et al. PGP4, an ATP binding cassette Pglycoprotein, catalyzes auxin transport in Arabidopsis thaliana roots. Plant Cell, 2005, 17(11): 29222939.

\[30\]Nagashima A, Uehara Y, Sakai T. The ABC subfamily B auxin transporter AtABCB19 is involved in the inhibitory effects of N1naphthyphthalamic acid on the phototropic and gravitropic responses of Arabidopsis hypocotyls. Plant Cell Physiol, 2008, 49(8): 12501255.

\[31\]Feng X L, Ni W M, Elge S, et al. Auxin flow in anther filaments is critical for pollen grain development through regulating pollen mitosis. Plant Mol Biol, 2006, 61(12): 215226.

\[32\]VentelonDebout M, TranchantDubreuil C, Nguyen T T, et al. Rice yellow mottle virus stress responsive genes from susceptible and tolerant rice genotypes. BMC Plant Biol, 2008, 8: 26.

\[33\]Moons A. Transcriptional profiling of the PDR gene family in rice roots in response to plant growth regulators, redox perturbations and weak organic acid stresses. Planta, 2008, 229(1): 5371.

Options

文章导航

模态框（Modal）标题

摘要

本文引用格式

Abstract

参考文献