亚洲棉和雷蒙德氏棉MATE基因家族生物信息学及其同源基因在陆地棉中的表达分析

doi:10.11963/issn.1002-7807.201603004

摘要/Abstract

摘要： 多药和有毒化合物排出(MATE)蛋白家族是1个次级转运蛋白家族。为了更好地了解亚洲棉和雷蒙德氏棉中MATE蛋白的种类和数量，利用2种二倍体棉花基因组的氨基酸和cDNA数据库对MATE基因家族进行筛选，并分析亚洲棉和雷蒙德氏棉全基因组中MATE基因的种类和进化关系。结果显示，在亚洲棉基因组中初步鉴定了34个MATE基因，而在雷蒙德氏棉中筛选出42个MATE基因。基因结构和系统进化的比较分析表明，进化关系近的MATE基因在结构上基本是一致的。同时对陆地棉中克隆的GhTT12及与其同一族的部分MATE基因进行荧光定量分析，推测其所在同一族的MATE基因功能可能与转运原花青素有关。这些结果为进一步深入分析棉花MATE基因的功能以及在原花青素转运中的作用提供了理论基础。

关键词: 亚洲棉; 雷蒙德氏棉; 陆地棉; MATE基因家族; 基因结构; 系统进化分析; 荧光定量PCR

Abstract: The multidrug and toxic compound extrusion (MATE) protein belongs to a secondary transporter family. To better understand the variety and quantity of MATE protein in Gossypium arboreum and G. raimondii, amino acid sequences and cDNA databases from two diploid cotton genomes were used to screen the MATE gene family, and to analyze species and evolutionary relationships of MATE genes. Thirty-four MATE genes were preliminarily identified in the genome of G. arboreum, and 42 in the G. raimondii genome. Comparative analyses of gene structure and phyletic evolution revealed the evolutionary relationship between MATE genes is consistent with structure. GhTT12 from upland cotton, and other MATE genes from the same family, were analyzed by qRT-PCR. Results suggested the function of MATE gene members was likely related to the transfer of proanthocyanidin. These results provide a theoretical basis for further analysis of MATE gene function and its role in the transfer of proanthocyanidin processes in cotton.

Key words: Gossypium arboreum; Gossypium raimondii; Gossypium hirsutum; multidrug and toxic compound extrusion gene family; gene structure; phylogenetic analysis; qRT-PCR

中图分类号:

S562.03

沈知临, 许磊, 陈文, 吴楠, 蔡永萍, 林毅, 高俊山. 亚洲棉和雷蒙德氏棉MATE基因家族生物信息学及其同源基因在陆地棉中的表达分析[J]. 棉花学报, 2016, 28(3): 215-226.

Shen Zhilin, Xu Lei, Chen Wen, Wu Nan, Cai Yongping, Lin Yi, Gao Junshan. Bioinformatic Analysis of the Multidrug and Toxic Compound Extrusion Gene Family in Gossypium arboreum and Gossypium raimondii, and Expression of Orthologs in Gossypium hirsutum[J]. Cotton Science, 2016, 28(3): 215-226.

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链接本文: http://journal.cricaas.com.cn/Jweb_mhxb/CN/10.11963/issn.1002-7807.201603004

http://journal.cricaas.com.cn/Jweb_mhxb/CN/Y2016/V28/I3/215

参考文献

[1] 詹少华, 林毅, 蔡永萍, 等. 天然棕色棉纤维色素光谱学特性及其化学结构初步推断[J]. 植物学通报, 2007, 24(1): 99-104. Zhan Shaohua, Lin Yi, Cai Yongping, et al. Preliminary deductions of the chemical structure of the pigment brown in cotton fiber[J]. Chinese Bulletin of Botany, 2007, 24(1): 99-104. [2] 茹宗玲, 王国喜, 何守朴, 等. 不同天然彩色棉纤维品质和纤维超微结构的差异[J]. 棉花学报, 2013, 25(2): 184-188. Ru Zongling, Wang Guoxi, He Shoupu, et al. The difference of fiber quality and fiber ultrastructure in different natural colored cotton[J]. Cotton Science, 2013, 25(2): 184-188. [3] Gao Junshan, Wu Nan, Shen Zhilin, et al. Molecular cloning, expression analysis and subcellular localization of a Transparent Testa 12 ortholog in brown cotton(Gossypium hirsutum L.)[J]. Gene, 2016, 576(2): 763-769. [4] Morita Y, Kodama K, Shiota S, et al. NorM, a putative multidrug efflux protein, of Vibrio parahaemolyticus and its homolog in Escherichia coli[J]. Antimicrob Agents Chemother, 1998, 42(7): 1778-1782. [5] Morita Y, Kataoka A, Shiota S, et al. NorM of Vibrio parahaemolyticus is an Na+-driven multidrug efflux pump[J]. Journal of Bacteriology, 2000, 182(23): 6694-6697. [6] Pao S S, Paulsen I T, Saier M H Jr. Major facilitator superfamily[J]. Microbiology and Molecular Biology Reviews, 1998, 62(1): 1-34. [7] Brown M H, Paulsen I T, Skurray R A. The multidrug efflux protein NorM is a prototype of a new family of transporters[J]. Molecular Microbiology, 1999, 31(1): 394-395. [8] Chung Y J, Krueger C, Metzgar D, et al. Size comparisons among integral membrane transport protein homologues in bacteria, archaea, and eucarya[J]. Journal of Bacterology, 2001, 183(3): 1012- 1021. [9] Diener A C, Gaxiola R A, Fink G R. Arabidopsis ALF5, a multidrug efflux transporter gene family member, confers resistance to toxins[J]. The Plant Cell, 2001, 13(7): 1625-1638. [10] Debeaujon I, Peeters A J M, Léon-Kloosterziel K M, et al. The transparent TESTA12 gene of Arabidopsis encodes a multidrug secondary transporter-like protein required for flavonoid sequestration in vacuoles of the seed coat endothelium[J]. The Plant Cell, 2001, 13(4): 853-871. [11] Nawrath C, Heck S, Parinthawong N, et al. EDS5, an essential component of salicylic acid2 dependent signaling for disease resistance in Arabidopsis, is a member of the MATE transporter family[J]. The Plant Cell, 2002, 14(1): 275-286. [12] Rogers E E, Guerinot M L. FRD3, a member of the multidrug and toxin efflux family, controls iron deficiency responses in Arabidopsis[J]. The Plant Cell, 2002, 14(8): 1787-1799. [13] Li Legong, He Zongyong, Pandey G K, et al. Functional cloning and characterization of a plant efflux carrier for multidrug and heavy metal detoxification[J]. Journal of Biological Chemistry, 2002, 277(7): 5360-5368. [14] 吴平治, 栾升, 李东屏. 拟南芥中MATE基因家族的研究进展[J]. 遗传, 2006, 28(7): 906-910. Wu Pingzhi, Luan Sheng, Li Dongping. Advances in the study of MATE gene family in Arabidopsis[J]. Hereditas, 2006, 28(7): 906-910. [15] Klein M, Weissenb?觟ck G, Dufaud A, et al. Different energization mechanisms drive the vacuolar uptake of a flavonoid glucoside and a herbicide glucoside[J]. Journal of Biological Chemistry, 1996, 271(47): 29666-29671. [16] 谢小东, 程廷才, 王根洪, 等. 植物ABC和MATE转运蛋白与次生代谢物跨膜转运[J]. 植物生理学报, 2011, 47(8): 752- 758. Xie Xiaodong, Cheng Tingcai, Wang Genhong, et al. ABC and MATE transporters of plant and their roles in membrane transport of secondary metabolites[J]. Plant Physiology Journal, 2011, 47(8): 752-758. [17] Yazaki K, Sugiyama A, Morita M, et al. Secondary transport as an efficient membrane transport mechanism for plant secondary metabolites[J]. Phytochemistry Reviews, 2008, 7(3): 513-524. [18] 张毓婷, 王敏华, 陈家栋, 等. 雷蒙德氏棉HSP70基因家族的进化分析及其同源基因在陆地棉中的表达分析[J]. 遗传, 2014, 36(9): 921-933. Zhang Yuting, Wang Minhua, Chen Jiadong, et al. Genome- wide analysis of HSP70 superfamily in Gossypium raimondii and the expression of orthologs in Gossypium hirsutum[J]. Hereditas, 2014, 36(9): 921-933. [19] Li Fuguang, Fan Guangyi, Wang Kunbo, et al. Genome sequence of the cultivated cotton Gossypium arboreum[J]. Nature Genetics, 2014, 46(6): 567-572. [20] Wang Kunbo, Wang Zhiwen, Li Fuguang, et al. The draft genome of a diploid cotton Gossypium raimondii[J]. Nature Genetics, 2012, 44(10): 1098-1103. [21] Paterson A H, Wendel J F, Gundlach H, et al. Repeated polyploidization of Gossypium genomes and the evolution of spinnable cotton fibres[J]. Nature, 2012, 492(7429): 423-427. [22] 关鹰, 许在恩, 郭小勤. 毛竹IDD基因家族的生物信息学分析[J]. 核农学报, 2014, 28(6): 998-1005. Guan Ying, Xu Zaien, Guo Xiaoqin. Bioinformatic analysis of IDD gene family in Phyllostachys heterocycla[J]. Journal of Nuclear Agricultural Sciences, 2014, 28(6): 998-1005. [23] Ikegami A, Akagi T, Poaer D, et al．Molecular identification of 1-cys peroxiredoxin and anthocyanidin/flavonol 3-O-galactosyltransferase from proanthocyanidin-rich young fruits of persimmon (Diospyros kaki Thunb.)[J]. Planta, 2009, 230(4): 841-855. [24] Li Yuguang, Tanner G, Larkin P. The DMACA-HCl protocol and the threshold proanthocyanidin content for bloat safety in forage legumes[J]. Journal of the Science of Food and Agriculture, 1996, 70(1): 89-101. [25] Yokosho K, Yamaji N, Ueno D, et al. OsFRDL1 is a citrate transporter required for efficient translocation of iron in rice[J]. Plant Physiology, 2009, 149: 297-305. [26] Marinova K, Pourcel L, Weder B, et al. The Arabidopsis MATE transporter TT12 acts as a vacuolar flavonoid/H+-antiporter active in proanthocyanidin-accumulating cells of the seed coat[J]. The Plant Cell, 2007, 19(6): 2023-2038. [27] Green L S, Rogers E E. FRD3 controls iron localization in Arabidopsis[J]. Plant Physiology, 2004, 136(1): 2523-2531. [28] Magalhaes J V, Liu Jiping, Guimaraes C T, et al. A gene in the multidrug and toxic compound extrusion(MATE) family confers aluminum tolerance in sorghum[J]. Nature Genetics, 2007, 39(9): 1156-1161. [29] Uhde-Stone C, Liu Junqi, Zinn K E, et al. Transgenic proteoid roots of white lupin: a vehicle for characterizing and silencing root genes involved in adaptation to P stress[J]. Plant Journal, 2005, 44(5): 840-853. [30] Gilbert W. The exon theory of genes[J]. Cold Spring Harbor Symposia on Quantitative Biology, 1987, 52: 901-905. [31] Plomin R, Spinath F M. Intelligence: genetics, genes, and genomics[J]. Journal of Personality and Social Psychology, 2004, 86(1): 112-129. [32] Kleindt C K, Stracke R, Mehrtens F, et al. Expression analysis of flavonoid biosynthesis genes during Arabidopsis thaliana silique and seed development with a primary focus on the proanthocyanidin biosynthetic pathway[J/OL]. BMC Research Notes, 2010, 3(1): 255 [2015-12-24]. www.biomedcentral.com/ 1756-0500/3/255. [33] 张凡. 柿单宁及花青苷跨膜相关基因的克隆与表达分析[D]. 武汉: 华中农业大学, 2012. Zhang Fan. Molecular cloning and expression analysis of genes related to transmembrane tannin and anthocyanin[D]. Wuhan: Huazhong Agricultural University, 2012. [34] Zhao Jian, Dixon R. MATE transporters facilitate vacuolar uptake of epicatechin 3’-O-Glucoside for proanthocyanidin biosynthesis in Medicago truncatula and Arabidopsis[J]. The Plant Cell, 2009, 21(8): 2323-2340. [35] Frank S, Keck M, Sagasser M, et al. Two differentially expressed MATE factor genes from apple complement the Arabidopsis transparent testal2 mutant[J]. Plant Biology, 2011, 13(1): 42-50.