小拟南芥MKK基因家族全基因组鉴定及进化和表达分析

doi:10.16288/j.yczz.19-388

遗传 ›› 2020, Vol. 42 ›› Issue (4): 403-421.doi: 10.16288/j.yczz.19-388

• 研究报告 • 上一篇

小拟南芥MKK基因家族全基因组鉴定及进化和表达分析

李晓翠¹, 康凯程¹, 黄先忠^2,³(), 范永斌¹, 宋苗苗¹, 黄韵杰¹, 丁佳佳¹

^1. 石河子大学生命科学学院,植物基因组学实验室,石河子 832003
^2. 安徽科技学院农学院,凤阳 233100
^3. 石河子大学生命科学学院,石河子 832003

收稿日期:2019-12-30 修回日期:2020-03-15 出版日期:2020-04-20 发布日期:2020-03-27
通讯作者: 黄先忠 E-mail:xianzhongh106@163.com
作者简介:李晓翠,硕士研究生,专业方向：遗传学。E-mail: lxc360720@163.com
基金资助:
国家自然科学基金项目编号(U1303302);石河子大学国际科技合作项目资助编号(GJHZ201806)

Genome-wide identification, phylogenetic analysis and expression profiling of the MKK gene family in Arabidopsis pumila

Xiaocui Li¹, Kaicheng Kang¹, Xianzhong Huang^2,³(), Yongbin Fan¹, Miaomiao Song¹, Yunjie Huang¹, Jiajia Ding¹

^1. Plant Genomics Laboratory, College of Life Sciences, Shihezi University, Shihezi 832003, China
^2. College of Agriculture, Anhui Science and Technology University, Fengyang 233100, China
^3. College of Life Sciences, Shihezi University, Shihezi 832003, China

Received:2019-12-30 Revised:2020-03-15 Online:2020-04-20 Published:2020-03-27
Contact: Huang Xianzhong E-mail:xianzhongh106@163.com
Supported by:
Supported by the National Natural Science Foundation of China No(U1303302);International Science and Technology Cooperation Project of Shihezi University No(GJHZ201806)

摘要/Abstract

摘要：

丝裂原活化蛋白激酶激酶(mitogen-activated protein kinase kinase, MAPKK或MKK)是丝裂原活化蛋白激酶(mitogen-activated protein kinase, MAPK)级联的重要组成部分,在植物的生长发育和胁迫应答过程中发挥重要作用。目前,已在多种植物中鉴定了MKK基因家族,但在十字花科植物小拟南芥(Arabidopsis pumila)中MKK基因家族的系统鉴定与分析尚未见报道。为了探索小拟南芥MKK基因家族的进化和功能,本研究通过全基因组分析鉴定了小拟南芥中16个MKK基因,散布于小拟南芥的10条染色体上。基于系统发育分析和多重序列比对,将这些基因分为5个亚族：A亚族(5个)、B亚族(2个)、C亚族(4个)、D亚族(3个)和E亚族(2个)。分子进化和共线性分析表明小拟南芥中存在7对复制基因,分别是ApMKK1-1/1-2、ApMKK2-1/2-2、ApMKK3-1/3-2、ApMKK4-1/4-2、ApMKK5-1/5-2、ApMKK9-1/9-2和ApMKK10-1/10-2,其中ApMKK1-1/1-2在复制事件之后发生了加速进化。结合ApMKKs启动子区的顺式元件分布和ApMKKs在成熟叶片、茎、花和果实以及盐胁迫下的表达模式,结果发现复制基因的表达具有组织特异性和功能多样性。部分复制基因在组织中的表达模式存在差异,但在盐胁迫下的表达模式却基本相同。本研究结果为解析MKK介导的小拟南芥发育过程和非生物胁迫信号转导通路的复杂机制奠定了基础。

关键词: MKK, 小拟南芥, 基因家族, 组织表达, 盐胁迫

Abstract:

Mitogen-activated protein kinase kinase (MAPKK or MKK) is an important component of the MAPK cascade, which plays important roles in plant growth and development as well as in various stress responses. At present, the MKK gene family has been identified in a variety of plants, but there has been no systematic study in Cruciferous plant Arabidopsis pumila. To explore the evolution and function of the MKK gene family in Arabidopsis pumila, 16 ApMKK genes were identified from the Arabidopsis pumila genome by genome-wide analysis, and they were distributed on 10 chromosomes of Arabidopsis pumila. According to phylogenetic analysis and multiple sequence alignment, these putative genes were divided into five known subfamilies, i.e, Groups A, B, C, D, and E, which includes 5, 2, 4, 3, 2 members, respectively. Evolutionary and syntenic analysis showed that there are seven pairs of duplication genes in Arabidopsis pumila: ApMKK1-1/1-2, ApMKK2-1/2-2, ApMKK3-1/3-2, ApMKK4-1/4-2, ApMKK5-1/5-2, ApMKK9-1/9-2, and ApMKK10-1/10-2. Ka/Ks and Tajima analysis indicated that evolution of ApMKK1-1/1-2 was accelerated after the duplication event. Combining the distribution of cis-element in the promoter region of ApMKKs and the expression profile of ApMKKs in mature leaves, stems, flowers and fruits as well as under salt stress, we found that the expressions of paralogous genes (duplication genes) were tissue-specific and their functions were diversified. The expression patterns of some duplicated genes in tissues were different, but the expression patterns under salt stress were basically the same. These results lay the foundation for analyzing the complex mechanisms of MKK-mediated growth and development and abiotic stress signal transduction pathways in Arabidopsis pumila.

Key words: mitogen-activated protein kinase kinase, Arabidopsis pumila, gene family, tissue expression, salt stress

李晓翠, 康凯程, 黄先忠, 范永斌, 宋苗苗, 黄韵杰, 丁佳佳. 小拟南芥MKK基因家族全基因组鉴定及进化和表达分析[J]. 遗传, 2020, 42(4): 403-421.

Xiaocui Li, Kaicheng Kang, Xianzhong Huang, Yongbin Fan, Miaomiao Song, Yunjie Huang, Jiajia Ding. Genome-wide identification, phylogenetic analysis and expression profiling of the MKK gene family in Arabidopsis pumila[J]. Hereditas(Beijing), 2020, 42(4): 403-421.

图/表 13

图1

图2

图3

图4

表2

图5

图6

表3

表4

图7

图8

图9

参考文献 75

[1]	Xiong L, Schumaker KS, Zhu JK . Cell signaling during cold, drought, and salt stress. Plant Cell, 2002,14(Suppl):S165-183.
[2]	Kieber JJ, Rothenberg M, Roman G, Feldmann KA, Ecker JR . CTR1, a negative regulator of the ethylene response pathway in Arabidopsis, encodes a member of the raf family of protein kinases. Cell, 1993,72(3):427-441.
[3]	Jonak C, Okrész L, Bögre L, Hirt H . Complexity, cross talk and integration of plant MAP kinase signalling. Curr Opin Plant Biol, 2002,5(5):415-424.
[4]	Yu YJ, Liang Y, Lv ML, Wu J, Lu G, Cao JS . Genome- wide identification and characterization of polygalacturonase genes in Cucumis sativus and Citrullus lanatus. Plant Physiol Biochem, 2014,74:263-275.
[5]	Xu J, Zhang SQ . Mitogen-activated protein kinase cascades in signaling plant growth and development. Trends Plant Sci, 2015,20(1):56-64.
[6]	Caunt CJ, Keyse SM . Dual-specificity MAP kinase phosphatases (MKPs): shaping the outcome of MAP kinase signalling. FEBS J, 2013,280(2):489-504.
[7]	Zhang XY, Xu XY, Yu YJ, Chen C, Wang J, Cai CP, Guo WZ . Integration analysis of MKK and MAPK family members highlights potential MAPK signaling modules in cotton. Sci Rep, 2016,6:29781.
[8]	Whitmarsh AJ, Davis RJ . Structural organization of MAP-kinase signaling modules by scaffold proteins in yeast and mammals. Trends Biochem Sci, 1998,23(12):481-485.
[9]	Bardwell AJ, Flatauer LJ, Matsukuma K, Thorner J, Bardwell L . A conserved docking site in MEKs mediates high-affinity binding to MAP kinases and cooperates with a scaffold protein to enhance signal transmission. J Biol Chem, 2001,276(13):10374-10386.
[10]	Takekawa M, Tatebayashi K, Saito H . Conserved docking site is essential for activation of mammalian MAP kinase kinases by specific MAP kinase kinase kinases. Mol Cell, 2005,18(3):295-306.
[11]	Cardinale F, Meskiene I, Ouaked F, Hirt H . Convergence and divergence of stress-induced mitogen-activated protein kinase signaling pathways at the level of two distinct mitogen-activated protein kinase kinases. Plant Cell, 2002,14(3):703-711.
[12]	Ichimura K, Shinozaki K, Tena G, Sheen J, Henry Y, Champion A, Kreisc M, Zhang SQ, Hirte H, Wilsone C, Heberle-Borse E, Ellisf BE, Morris PC, Innesh RW, Eckeri JR, Scheelj D, Klessigk DF, Machidal Y, Mundym J, Ohashin Y, Walkero JC . Mitogen-activated protein kinase cascades in plants: a new nomenclature. Trends Plant Sci, 2002,7(7):301-308.
[13]	Jiang M, Chu ZQ . Comparative analysis of plant MKK gene family reveals novel expansion mechanism of the members and sheds new light on functional conservation. BMC Genomics, 2018,19(1):407.
[14]	Zhang MM, Su JB, Zhang Y, Xu J, Zhang SQ . Conveying endogenous and exogenous signals: MAPK cascades in plant growth and defense. Curr Opin Plant Biol, 2018,45(Pt A):1-10.
[15]	Gao MH, Liu JM, Bi DL, Zhang ZB, Cheng F, Chen SF, Zhang YL . MEKK1, MKK1/MKK2 and MPK4 function together in a mitogen-activated protein kinase cascade to regulate innate immunity in plants. Cell Res, 2008,18(12):1190-1198.
[16]	Qiu JL, Zhou L, Yun BW, Nielsen HB, Fiil BK, Petersen K, Mackinlay J, Loake GJ, Mundy J, Morris PC . Arabidopsis mitogen-activated protein kinase kinases MKK1 and MKK2 have overlapping functions in defense signaling mediated by MEKK1, MPK4, and MKS1. Plant Physiol, 2008,148(1):212-222.
[17]	Kong Q, Qu N, Gao MH, Zhang ZB, Ding XJ, Yang F, Li YZ, Dong OX, Chen S, Li X, Zhang YL . The MEKK1-MKK1/MKK2-MPK4 kinase cascade negatively regulates immunity mediated by a mitogen-activated protein kinase kinase kinase in Arabidopsis. Plant Cell, 2012,24(5):2225-2236.
[18]	Zhao CZ, Wang PC, Si T, Hsu CC, Wang L, Zayed O, Yu ZP, Zhu YF, Dong J, Tao WA, Zhu JK. MAP kinase cascades regulate the cold response by modulating ICE1 protein stability. Dev Cell, 2017,43(5): 618-629.e5.
[19]	Xing Y, Jia WS, Zhang JH . AtMKK1 mediates ABA- induced CAT1 expression and H₂O₂ production via AtMPK6-coupled signaling in Arabidopsis. Plant J, 2008,54(3):440-451.
[20]	Melikant B, Giuliani C, Halbmayer-Watzina S, Limmongkon A, Heberle-Bors E, Wilson C . The Arabidopsis thaliana MEK AtMKK6 activates the MAP kinase AtMPK13. FEBS Lett, 2004,576(1-2):5-8.
[21]	Li YY, Cai HX, Liu P, Wang CY, Gao HY, Wu CA, Yan K, Zhang SZ, Huang JG, Zheng CC . Arabidopsis MAPKKK18 positively regulates drought stress resistance via downstream MAPKK3. Biochem Biophys Res Commun, 2017,484(2):292-297.
[22]	Takahashi F, Yoshida R, Ichimura K, Mizoguchi T, Seo S, Yonezawa M, Maruyama K, Yamaguchi-Shinozaki K, Shinozaki K . The mitogen-activated protein kinase cascade MKK3-MPK6 is an important part of the jasmonate signal transduction pathway in Arabidopsis. Plant Cell, 2007,19(3):805-818.
[23]	Sethi V, Raghuram B, Sinha AK, Chattopadhyay S . A mitogen-activated protein kinase cascade module, MKK3- MPK6 and MYC2, is involved in blue light-mediated seedling development in Arabidopsis. Plant Cell, 2014,26(8):3343-3357.
[24]	Dai Y, Wang HZ, Li BH, Huang J, Liu XF, Zhou YH, Mou ZL, Li JY . Increased expression of MAP KINASE KINASE7 causes deficiency in polar auxin transport and leads to plant architectural abnormality in Arabidopsis. Plant Cell, 2006,18(2):308-320.
[25]	Lei L, Li Y, Wang Q, Xu J, Chen YF, Yang HL, Ren DT . Activation of MKK9-MPK3/MPK6 enhances phosphate acquisition in Arabidopsis thaliana. New Phytol, 2014,203(4):1146-1160.
[26]	Xu J, Li Y, Wang Y, Liu HX, Lei L, Yang HL, Liu GQ, Ren DT . Activation of MAPK kinase 9 induces ethylene and camalexin biosynthesis and enhances sensitivity to salt stress in Arabidopsis. J Biol Chem, 2008,283(40):26996-27006.
[27]	Yoo SD, Cho YH, Tena G, Xiong Y, Sheen J . Dual control of nuclear EIN3 by bifurcate MAPK cascades in C₂H₄ signalling. Nature, 2008,451(7180):789-795.
[28]	Soyano T, Nishihama R, Morikiyo K, Ishikawa M, Machida Y . NQK1/NtMEK1 is a MAPKK that acts in the NPK1 MAPKKK-mediated MAPK cascade and is required for plant cytokinesis. Genes Dev, 2003,17(8):1055-1067.
[29]	Kong XP, Pan JW, Zhang MY, Xing X, Zhou Y, Liu Y, Li DP, Li DQ . ZmMKK4, a novel group C mitogen-activated protein kinase kinase in maize ( Zea mays), confers salt and cold tolerance in transgenic Arabidopsis. Plant Cell Environ, 2011,34(8):1291-1303.
[30]	Cai GH, Wang GD, Wang L, Liu Y, Pan JW, Li DQ . A maize mitogen-activated protein kinase kinase, ZmMKK1, positively regulated the salt and drought tolerance in transgenic Arabidopsis. J Plant Physiol, 2014,171(12):1003-1016.
[31]	Lu WJ, Chu XQ, Li YZ, Wang C, Guo XQ . Cotton GhMKK1 induces the tolerance of salt and drought stress, and mediates defence responses to pathogen infection in transgenic Nicotiana benthamiana. PLoS One, 2013,8(7):e68503.
[32]	Wang C, Lu W, He X, Wang F, Zhou Y, Guo X, Guo X . The cotton mitogen-activated protein kinase kinase 3 functions in drought tolerance by regulating stomatal responses and root growth. Plant Cell Physiol, 2016,57(8):1629-1642.
[33]	Xu HY, Zhang C, Li ZC, Wang ZR, Jiang XX, Shi YF, Tian SN, Braun E, Mei Y, Qiu WL, Li S, Wang B, Xu J, Navarre D, Ren D, Cheng N, Nakata PA, Graham MA, Whitham SA, Liu JZ . The MAPK kinase kinase GmMEKK1 regulates cell death and defense responses. Plant Physiol, 2018,178(2):907-922.
[34]	Kiegerl S, Cardinale F, Siligan C, Gross A, Baudouin E, Liwosz A, Eklöf S, Till S, Bögre L, Hirt H, Meskiene I . SIMKK, a mitogen-activated protein kinase (MAPK) kinase, is a specific activator of the salt stress-induced MAPK, SIMK. Plant Cell, 2000,12(11):2247-2258.
[35]	Wang XJ, Zhu SY, Lu YF, Zhao R, Xin Q, Wang XF, Zhang DP . Two coupled components of the mitogen- activated protein kinase cascade MdMPK1 and MdMKK1 from apple function in ABA signal transduction. Plant Cell Physiol, 2010,51(5):754-766.
[36]	Xie G, Kato H, Imai R . Biochemical identification of the OsMKK6-OsMPK3 signalling pathway for chilling stress tolerance in rice. Biochem J, 2012,443(1):95-102.
[37]	Xu R, Duan PG, Yu HY, Zhou ZK, Zhang BL, Wang RC, Li J, Zhang GZ, Zhuang SS, Lyu J, Li N, Chai T, Tian ZX, Yao SG, Li YH . Control of grain size and weight by the OsMKKK10-OsMKK4-OsMAPK6 signaling pathway in rice. Mol Plant, 2018,11(6):860-873.
[38]	Huang XZ, Yang LF, Jin YH, Lin J, Liu F . Generation, annotation, and analysis of a large-scale expressed sequence tag library from Arabidopsis pumila to explore salt-responsive genes. Front Plant Sci, 2017,8:955.
[39]	Zhang HB, Liu P, Liu LH, Lan HY, Zhang FC . Preliminary study on salt tolerance of ephemeral plant Arabidopsis pumila in Xinjiang. Acta Bot Boreali-Occident Sin, 2007,27(2):286-290.
	张海波, 刘彭, 刘立鸿, 兰海燕, 张富春 . 新疆短命植物小拟南芥耐盐性的初步研究. 西北植物学报, 2007,27(2):286-290.
[40]	Yang LF, Jin YH, Huang W, Sun Q, Liu F, Huang XZ . Full-length transcriptome sequences of ephemeral plant Arabidopsis pumila provides insight into gene expression dynamics during continuous salt stress. BMC Genomics, 2018,19(1):717.
[41]	Chang JZ, Yan FX, Qiao LY, Zheng J, Zhang FY, Liu QS . Genome-wide identification and expression analysis of SBP-box gene family in Sorghum bicolor L. Hereditas (Beijing), 2016,38(6):569-580.
	常建忠, 闫凤霞, 乔麟轶, 郑军, 张福耀, 柳青山 . 高粱SBP-box基因家族全基因组鉴定及表达分析. 遗传, 2016,38(6):569-580.
[42]	Schilling S, Kennedy A, Pan S, Jermiin LS, Melzer R . Genome-wide analysis of MIKC-type MADS-box genes in wheat: pervasive duplications, functional conservation and putative neofunctionalization. New Phytol, 2020,225(1):511-529.
[43]	Tamura K, Stecher G, Peterson D, Filipski A, Kumar S . MEGA6: molecular evolutionary genetics analysis version 6.0. Mol Biol Evol, 2013,30(12):2725-2729.
[44]	Xu L, Chen W, Si GY, Huang YY, Lin Y, Cai YP, Gao JS . Genome-wide analysis of the GST gene family in Gossypium hirsutum L. Hereditas (Beijing), 2017,39(8):737-752.
	许磊, 陈文, 司国阳, 黄艺园, 林毅, 蔡永萍, 高俊山 . 陆地棉GST基因家族全基因组分析. 遗传, 2017,39(8):737-752.
[45]	Xue HY, Xu GX, Guo CC, Shan HY, Kong HZ . Comparative evolutionary analysis of MADS-box genes in Arabidopsis thaliana and A. lyrata. Biodiv Sci, 2010,18(2):109-124.
	薛皓月, 徐桂霞, 国春策, 山红艳, 孔宏智 . 拟南芥和琴叶拟南芥中MADS-box基因的比较进化分析. 生物多样性, 2010,18(2):109-124.
[46]	Tang K, Dong CJ, Liu JY . Genome-wide comparative analysis of the phospholipase D gene families among allotetraploid cotton and its diploid progenitors. PLoS One, 2016,11(5):e0156281.
[47]	Wang M, Yue H, Feng KW, Deng PC, Song WN, Nie XJ . Genome-wide identification, phylogeny and expressional profiles of mitogen activated protein kinase kinase kinase (MAPKKK) gene family in bread wheat ( Triticum aestivum L.). BMC Genomics, 2016,17(1):668.
[48]	Rozas J, Ferrer-Mata A, Sánchez-DelBarrio JC, Guirao- Rico S, Librado P, Ramos-Onsins SE, Sánchez-Gracia A . DnaSP 6: DNA sequence polymorphism analysis of large data sets. Mol Biol Evol, 2017,34(12):3299-3302.
[49]	Yadav CB, Bonthala VS, Muthamilarasan M, Pandey G, Khan Y, Prasad M . Genome-wide development of transposable elements-based markers in foxtail millet and construction of an integrated database. DNA Res, 2015,22(1):79-90.
[50]	Jin X, Zhu L, Yao Q, Meng X, Ding G, Wang D, Xie Q, Tong Z, Tao C, Yu L, Li H, Wang X . Expression profiling of mitogen-activated protein kinase genes reveals their evolutionary and functional diversity in different rubber tree ( Hevea brasiliensis) cultivars. Genes (Basel), 2017,8(10):261.
[51]	Krzywinski M, Schein J, Birol I, Connors J, Gascoyne R, Horsman D, Jones SJ, Marra MA . Circos: an information aesthetic for comparative genomics. Genome Res, 2009,19(9):1639-1645.
[52]	Jiang M, Wen F, Cao JM, Li P, She J, Chu ZQ . Genome-wide exploration of the molecular evolution and regulatory network of mitogen-activated protein kinase cascades upon multiple stresses in Brachypodium distachyon. BMC Genomics, 2015,16(1):228.
[53]	Liang W, Yang B, Yu BJ, Zhou Z, Li C, Jia M, Sun Y, Zhang Y, Wu F, Zhang H, Wang B, Deyholos MK, Jiang YQ . Identification and analysis of MKK and MPK gene families in canola( Brassica napus L.). BMC Genomics, 2013,14:392.
[54]	Wang J, Pan CT, Wang Y, Ye L, Wu J, Chen LF, Zou T, Lu G . Genome-wide identification of MAPK, MAPKK, and MAPKKK gene families and transcriptional profiling analysis during development and stress response in cucumber. BMC Genomics, 2015,16(1):386.
[55]	Shan HX, Fu C . The recent advances on plant MAPK cascade pathway under adverse stress conditions. J Nucl Agric Sci, 2017,31(4):680-688.
	单鸿轩, 付畅 . 逆境胁迫下植物MAPK级联反应途径研究新进展. 核农学报, 2017,31(4):680-688.
[56]	Zhu X, Wang M, Li X, Jiu S, Wang C, Fang J . Genome- wide analysis of the sucrose synthase gene family in grape ( Vitis vinifera): structure, evolution, and expression profiles. Genes (Basel), 2017,8(4):111.
[57]	Cui LC, Yang G, Yan JL, Pan Y, Nie XJ . Genome-wide identification, expression profiles and regulatory network of MAPK cascade gene family in barley. BMC Genomics, 2019,20(1):750.
[58]	Wu J, Wang J, Pan CT, Guan XY, Wang Y, Liu SY, He YJ, Chen JL, Chen LF, Lu G . Genome-wide identification of MAPKK and MAPKKK gene families in tomato and transcriptional profiling analysis during development and stress response. PLoS One, 2014,9(7):e103032.
[59]	Zhang SZ, Xu RR, Luo XC, Jiang ZS, Shu HR . Genome-wide identification and expression analysis of MAPK and MAPKK gene family in Malus domestica. Gene, 2013,531(2):377-387.
[60]	Kong XP, Lv W, Zhang D, Jiang SS, Zhang SZ, Li DQ . Genome-wide identification and analysis of expression profiles of maize mitogen-activated protein kinase kinase kinase. PLoS One, 2013,8(2):e57714.
[61]	Chen LH, Hu W, Tan SL, Wang M, Ma ZB, Zhou SY, Deng XM, Zhang Y, Huang C, Yang GX, He GY . Genome-wide identification and analysis of MAPK and MAPKK gene families in Brachypodium distachyon. PLoS One, 2012,7(10):e46744.
[62]	Rao KP, Richa T, Kumar K, Raghuram B, Sinha AK . In silico analysis reveals 75 members of mitogen-activated protein kinase kinase kinase gene family in rice. DNA Res, 2010,17(3):139-153.
[63]	Hoffmann MH, Schmuths H, Koch C, Meister A, Fritsch RM. Comparative analysis of growth, genome size, chromosome numbers and phylogeny of Arabidopsis thaliana and three co-occurring species of the Brassicaceae from Uzbekistan. J Bot, 2010. Article ID 504613. DOI: 10.1155/2010/504613.
[64]	Van de Peer Y, Maere S, Meyer A . The evolutionary significance of ancient genome duplications. Nat Rev Genet, 2009,10(10):725-732.
[65]	Hu TT, Pattyn P, Bakker EG, Cao J, Cheng JF, Clark RM, Fahlgren N, Fawcett JA, Grimwood J, Gundlach H, Haberer G, Hollister JD, Ossowski S, Ottilar RP, Salamov AA, Schneeberger K, Spannagl M, Wang X, Yang L, Nasrallah ME, Bergelson J, Carrington JC, Gaut BS, Schmutz J, Mayer KF, Van de Peer Y, Grigoriev IV, Nordborg M, Weigel D, Guo YL, . The Arabidopsis lyrata genome sequence and the basis of rapid genome size change. Nat Genet, 2011,43(5):476-481.
[66]	Gu YB, Ji ZR, Chi FM, Qiao Z, Xu CN, Zhang JX, Zhou ZS, Dong QL . Genome-wide identification and expression analysis of the WRKY gene family in peach. Hereditas(Beijing), 2016,38(3):254-270.
	谷彦冰, 冀志蕊, 迟福梅, 乔壮, 徐成楠, 张俊祥, 周宗山, 董庆龙 . 桃WRKY基因家族全基因组鉴定和表达分析. 遗传, 2016,38(3):254-270.
[67]	Zhang T, Qiao Q, Novikova PY, Wang Q, Yue J, Guan Y, Ming S, Liu T, De J, Liu Y, Al-Shehbaz IA, Sun H, Van Montagu M, Huang J, Van de Peer Y, Qiong L . Genome of Crucihimalaya himalaica, a close relative of Arabidopsis, shows ecological adaptation to high altitude. Proc Natl Acad Sci USA, 2019,116(14):7137-7146.
[68]	Maere S, De Bodt S, Raes J, Casneuf T, Van Montagu M, Kuiper M, Van de Peer Y . Modeling gene and genome duplications in eukaryotes. Proc Natl Acad Sci USA, 2005,102(15):5454-5459.
[69]	Jiao Y, Wickett NJ, Ayyampalayam S, Chanderbali AS, Landherr L, Ralph PE, Tomsho LP, Hu Y, Liang H, Soltis PS, Soltis DE, Clifton SW, Schlarbaum SE, Schuster SC, Ma H, Leebens-Mack J, de Pamphilis CW, . Ancestral polyploidy in seed plants and angiosperms. Nature, 2011,473(7345):97-100.
[70]	Blanc G, Wolfe KH . Widespread paleopolyploidy in model plant species inferred from age distributions of duplicate genes. Plant Cell, 2004,16(7):1667-1678.
[71]	Ueno Y, Yoshida R, Kishi-Kaboshi M, Matsushita A, Jiang CJ, Goto S, Takahashi A, Hirochika H, Takatsuji H . Abiotic stresses antagonize the rice defence pathway through the tyrosine-dephosphorylation of OsMPK6. PLoS Pathog, 2015,11(10):e1005231.
[72]	Asai T, Tena G, Plotnikova J, Willmann MR, Chiu WL, Gomez-Gomez L, Boller T, Ausubel FM, Sheen J . MAP kinase signalling cascade in Arabidopsis innate immunity. Nature, 2002,415(6875):977-983.
[73]	Li H, Ding YL, Shi YT, Zhang XY, Zhang SY, Gong ZZ, Yang SH. MPK3- and MPK6-mediated ICE1 phosphorylation negatively regulates ICE1 stability and freezing tolerance in Arabidopsis. Dev Cell, 2017, 43(5): 630-642.e4.
[74]	Zhu Q, Shao Y, Ge S, Zhang M, Zhang T, Hu X, Liu Y, Walker J, Zhang S, Xu J . A MAPK cascade downstream of IDA-HAE/HSL2 ligand-receptor pair in lateral root emergence. Nat Plants, 2019,5(4):414-423.
[75]	Li K, Yang F, Zhang G, Song S, Li Y, Ren D, Miao Y, Song CP . AIK1, A mitogen-activated protein kinase, modulates abscisic acid responses through the MKK5- MPK6 kinase cascade. Plant Physiol, 2017,173(2):1391-1408.

编辑推荐

Metrics

www.chinagene.cn
备案号：京ICP备09063187号-4
总访问:,今日访问:,当前在线:

基因1	基因2	CDS相似性(%)	蛋白相似性(%)
ApMKK1-1	ApMKK1-2	97.27	97.46
ApMKK2-1	ApMKK2-2	97.07	98.63
ApMKK3-1	ApMKK3-2	97.95	98.66
ApMKK4-1	ApMKK4-2	97.83	98.91
ApMKK5-1	ApMKK5-2	97.09	98.03
ApMKK9-1	ApMKK9-2	96.59	99.04
ApMKK10-1	ApMKK10-2	96.07	94.90

复制基因对	Ka	Ks	Ka/Ks	进化选择模式
ApMKK4-2/ApMKK4-1	0.0036	0.0755	0.0478	纯化选择
ApMKK5-1/ApMKK5-2	0.0075	0.0787	0.0955	纯化选择
ApMKK3-2/ApMKK3-1	0.0058	0.0735	0.0795	纯化选择
ApMKK1-2/ApMKK1-1	0.0123	0.0828	0.1485	纯化选择
ApMKK2-1/ApMKK2-2	0.0084	0.1060	0.0794	纯化选择
ApMKK10-1/ApMKK10-2	0.0228	0.0992	0.2298	纯化选择
ApMKK9-1/ApMKK9-2	0.0042	0.1434	0.0294	纯化选择

测试组	Mt	M1	M2	χ²	P
ApMKK4-1/ApMKK4-2-AtMKK4	347	1	2	0.33	0.56370
ApMKK5-1/ApMKK5-2-AtMKK5	335	3	1	1.00	0.31731
ApMKK3-1/ApMKK3-2-AtMKK3	493	5	2	1.29	0.25684
ApMKK1-1/ApMKK1-2-AtMKK1	325	7	1	4.50	0.03389
ApMKK2-1/ApMKK2-1-AtMKK2	352	3	2	0.20	0.65472
ApMKK9-1/ApMKK9-2-AtMKK9	295	2	1	0.33	0.56370
ApMKK10-1/ApMKK10-1-AtMKK10	253	9	4	1.92	0.16552

小拟南芥MKK基因家族全基因组鉴定及进化和表达分析

Genome-wide identification, phylogenetic analysis and expression profiling of the MKK gene family in Arabidopsis pumila

RichHTML

PDF (PC)

可视化

摘要/Abstract

引用本文

使用本文

图/表 13

参考文献 75

相关文章 15

编辑推荐

Metrics

[1]	陈凯, 王灏, 陈燚婷, 符可, 韩之刚, 李聪, 斯金平, 陈东红. 铁皮石斛WOX家族基因在生长发育中的功能分析[J]. 遗传, 2023, 45(8): 700-714.
[2]	李飞飞, 王韵, 顾冀海, 张玉明, 柳峰松, 倪志华. E2F家族转录因子在肿瘤发生中的作用[J]. 遗传, 2023, 45(7): 580-592.
[3]	张爽, 郭珊珊, 王汝雯, 马仁燕, 吴显敏, 陈佩杰, 王茹. PARK基因家族在骨骼肌肌病中的研究进展[J]. 遗传, 2022, 44(7): 545-555.
[4]	朱前彬, 甘志承, 李晓翠, 张英杰, 赵合明, 黄先忠. 小鼠耳芥MAPKKK基因家族全基因组鉴定及进化与表达[J]. 遗传, 2022, 44(11): 1044-1055.
[5]	单婷玉, 施雯, 王翌婷, 曹孜怡, 汪保华, 方辉. 玉米盐胁迫相关性状全基因组关联分析及候选基因预测[J]. 遗传, 2021, 43(12): 1159-1169.
[6]	王涛涛, 杨勇, 魏唯, 林辰涛, 马留银. 互花米草NAC转录因子家族的鉴定与表达分析[J]. 遗传, 2020, 42(2): 194-211.
[7]	孟玉,杨若林. 基于基因家族大小的比较研究脊椎动物的适应性进化[J]. 遗传, 2019, 41(2): 158-174.
[8]	李明,程飞跃,龚路遥,向华. 微生物新型防御系统的系统性发现与展望[J]. 遗传, 2018, 40(4): 259-265.
[9]	徐宗昌,孔英珍. 普通烟草CESA基因家族成员的鉴定、亚细胞定位及表达分析[J]. 遗传, 2017, 39(6): 512-524.
[10]	朱帅旗,龚一富,章丽,俞凯,王何瑜,严小军. 绿色杜氏藻不同β-胡萝卜素羟化酶基因家族胁迫应答模式研究[J]. 遗传, 2017, 39(2): 156-165.
[11]	何一旻, 顾鸣敏. 肌球蛋白重链基因在人类遗传性疾病中的研究进展[J]. 遗传, 2017, 39(10): 877-887.
[12]	向小华, 吴新儒, 晁江涛, 杨明磊, 杨帆, 陈果, 刘贯山, 王元英. 普通烟草WRKY基因家族的鉴定及表达分析[J]. 遗传, 2016, 38(9): 840-856.
[13]	常建忠, 闫凤霞, 乔麟轶, 郑军, 张福耀, 柳青山. 高粱SBP-box基因家族全基因组鉴定及表达分析[J]. 遗传, 2016, 38(6): 569-580.
[14]	杨明磊, 晁江涛, 王大伟, 胡军华, 吴华, 龚达平, 刘贯山. 烟草C2H2锌指蛋白转录因子家族成员的鉴定与表达分析[J]. 遗传, 2016, 38(4): 337-349.
[15]	谷彦冰, 冀志蕊, 迟福梅, 乔壮, 徐成楠, 张俊祥, 周宗山, 董庆龙. 桃WRKY基因家族全基因组鉴定和表达分析[J]. 遗传, 2016, 38(3): 254-270.