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| Identification of MYB Transcription Factors Family and Screening MYB Genes Associated with Pollen Abortion in Lilium Asiatic hybrids |
| WANG Xue-Qian1, 2, YUAN Guo-Zhen1, 2, WU Ze1, 2, LI Qian1, 2, TENG Nian-Jun1, 2, * |
1 College of Horticulture, Nanjing Agricultural University/Key Laboratory of Landscape Design, Ministry of Agriculture and Rural Affairs, Nanjing 210095, China;
2 Baguazhou Modern Innovative Technology Center of Nanjing Agriculture University, Nanjing 210043, China |
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Abstract MYB (v-myb avian myeloblastosis viral oncogene homolog) transcription factor family play an important role in regulating plant reproduction and growth, LaMYB transcription factors in Liliium Asiatic hybrids 'Little Kiss' were identified at the transcriptome level and applied bioinformation analysis which aim to screen out those genes regulating pollen abortion. Based on the transcriptome data of lily anther, the MYB protein sequences were identified by Pfam 31.0 and BLASTP, at the same time, conserved domain and phylogenetic tree analysis were constructed by using Web Logo 3.0 and MEGA 7.0 for those R2R3-MYB transcription factors with the largest proportion. The expression levels of meiosis stage and mononuclear stage of LaMYB were analyzed by Mev. The results showed that 69 MYB genes were identified in lily, 50 of them belonged to R2R3-MYB, 15 of them belonged to 1R-MYB and 4 of them belonged to 3R-MYB, in the mean time, all those LaMYB proteins were unstably hydrophilic proteins; subcellular localization prediction showed that LaMYB proteins were all localized in nucleus; Web logo3.0 analysis found that the protein domain of R2R3-MYB were relatively conserved, but the variability of its C-terminal transcriptional activation domain makes it functionally diverse. The phylogenetic of LaMYB proteins were divided into 22 subfamilies according to the classification method of Arabidopsis family. The homologous genes involved in the division of pollen abortion mainly belong to the S18、S23、S21 and S22 subfamilies. Meanwhile, the results of RNA-Seq analysis indicated that the expression level of 42 LaMYB genes were up-regulated in the key period of pollen abortion (mononuclear stage) compared with the normal developmental stage (meiosis stage)), the other 27 genes were down-regulated in all of LaMYB. Additionally, the result of qRT-PCR showed that the 6 candidate genes were significantly different between the normal developmental stage and abortion period of lily pollen. This study showed that LaMYB genes play an important regulatory role in pollen abortive process and providing basic information for further exploration of the function of LaMYB genes in pollen abortion.
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Received: 11 May 2019
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Corresponding Authors:
njteng@njau.edu.cn
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[1] 程璐, 张彬, 张耀元, 等. 2016. 谷子MYB转录因子家族与抗旱关系的研究[J]. 山西农业大学学报(自然科学版), 36(12): 846-849.
(Chen L, Zhang B, Zhang Y Y, et al.2016. MYB transcription factors and the irrelationship with drought tolerance in foxtail millet[J]. Journal of ShanXi Agriculture University (Natural Science Edition) , 36(12): 846-849.)
[2] 丁蒙蒙, 时小东, 顾雨熹, 等. 2018. 基于转录组的楠木MYB转录因子的挖掘及分析[J]. 广西植物, 38(01): 90-100.
(Ding M M, Shi X D, Gu Y X, et al.2018. Transcriptome-based excavation and analysis of MYB family transcription factors in Phoebe zhennan[J]. Guangxi Plant, 38(01): 90-100.)
[3] 邓志刚, 金樑, 李晶, 等. 2013. MYB类转录因子对花药和花粉发育的调控途径[J]. 西北植物学报, 33(04): 850-856.
(Deng Z G, Jin L, Li J, et al.2013. The regulation pathway of MYB transcription factors on anther and pollen development[J]. Northwest Botanical Journal, 33(04): 850-856.)
[4] 樊锦涛, 蒋琛茜, 邢继红, 等. 2014. 拟南芥R2R3-MYB家族第22亚族的结构与功能[J]. 遗传, 36(10): 985-994.
(Fan J T, Jiang C X, Xing J H, et al.Structure and function of the 22nd subfamily in Arabidopsis R2R3-MYB family[J]. Hereditas, 36(10): 985-994).
[5] 李晰妍, 赵凯, 张雪梅, 等. 2017, 杨树MYB转录因子家族基因应答盐胁迫表达特性分析[J]. 植物研究, 37(03): 424-431.
(Li X Y, Zhao K, Zhang X M, et al.2017. Expression analysis of poplar MYB transcription factor gene family in response to salt stress[J]. Bulletin of Botanical Research, 37(03): 424-431.)
[6] 刘赢. 2017. 蒺藜苜蓿R2R3-MYB转录因子的发掘及其对非生物胁迫反应研究[D]. 硕士学位论文,哈尔滨师范大学, 导师: 束永俊. pp: 12-28.
(Liu Y.2017. The discovery of 2R2R3-MYB transcription factor and its response to abiotic stress[D]. Thesis for M.S., Harbin Normal University, supervisor: Shu Y J. pp: 12-28.)
[7] 刘湘丹, 陈勋, 刘畅宇, 等. 2019. 不同来源百合药材的质量评价及分析[J]. 湖南中医药大学学报, 39(04): 480-484.
(Liu X D, Chen X, Liu C Y.et al.2019. Quality evaluation and analysis of lilii bulbus from different sources[J]. Journal of Hunan University of Chinese Medicine, 39(04): 480-484.)
[8] 骆蒙, 贾继增. 2001. 植物基因组表达序列标签(EST)计划研究进展[J]. 生物化学与生物物理进展, 28(04): 494-497.
(Luo M, Jia J Z.2001. Progress in plant genome expressed sequence tags (EST) programs[J]. Progress in Biochemistry and Biophysics, 28(04): 494-497.)
[9] 邵小斌, 赵统利, 朱朋波, 等. 2018. 栽培基质和肥料对百合生长的影响[J]. 安徽农业科学, 46(36): 131-133.
(Shao X B, Zhao T L, Zhu P B, et al.2018. Effects of cultivation substrate and fertilizer on lily growth[J]. Anhui Agricultural Sciences, 46(36): 131-133.)
[10] 王雪霁, 梁立雄, 李潞滨, 等. 2018. 小兰屿蝴蝶兰R2R3-MYB转录因子分析[J]. 林业科学研究, 31(03): 104-113.
(Wang X J, Liang L X, Li L B, et al.2018. Genome-wide analysis of R2R3-MYB transcription factors in Phalaenopsis equestris[J]. Forest Research, 31(03): 104-113.)
[11] 王雪倩, 袁国振, 吴泽, 等. 2019. 百合LaMYB26基因克隆与表达分析[J].植物生理学报, 55(03): 290-300.
(Wang X Q, Yuan G Z, Wu Z, et al.2019. Cloning and expression analysis of LaMYB26 gene in lily[J]. Plant Physiology Journal, 55(03): 290-300.)
[12] 严莉, 王翠平, 陈建伟, 等. 2017. 基于转录组信息的黑果枸杞MYB转录因子家族分析[J]. 中国农业科学, 50(20): 3991-4002.
(Yan L, Wang C P, Chen J W, et al.2017. Analysis of MYB transcription factor family based on transcriptome information[J]. Chinese Agricultural Science, 50(20): 3991-4002.)
[13] 易会广. 2013. 无参考基因组的比较基因组学研究[D]. 博士学位论文, 复旦大学, 导师: 金立. pp: 11-35.
(Yi H G.2013. Comparative genomics study without reference genome[D]. Thesis for Ph. D., Fudan University, Supervisor: Jin L. pp: 11-35.)
[14] 张立超. 2013. 小麦MYB转录因子的功能研究[D]. 硕士学位论文, 中国农业科学院, 导师: 刘旭,孔秀英. pp: 66-65.
(Zhang L C.2013. Functional study of wheat MYB transcription factors[D]. Thesis for M.S., Chinese Academy Agriculture University, Supervisor: Liu X, Kong X Y. pp: 66-65.)
[15] 朱骏. 2010. 转录因子MYB103调控花药发育分子机理以及绒毡层发育与功能转录调控途径的研究[D]. 博士学位论文, 上海交通大学, 导师: 武天龙. pp: 47-70.
(Zhu J.2010. Transcription factor MYB103 regulates the molecular mechanism of anther development and the development of transcriptional and functional transcriptional regulation of tapetum[D]. Thesis for Ph. D., Shanghai Jiaotong University, Supervisor: Wu T L. pp: 47-70.)
[16] Chen H, Song S S, Xiao L T, et al.2009. Gibberellin acts through jasmonate to control the expression of MYB21, MYB24, and MYB57 to promote stamen filament growth in Arabidopsis[J]. PLoS Genetics, 5(3):1-13.
[17] Chen Y, Yang X, He K, et al.2006. The MYB Transcription factor superfamily of Arabidopsis: Expression analysis and phylogenetic comparison with the rice MYB family[J]. Plant Molecular Biology, 60(1): 107-124.
[18] D'Amato G, Cecchi L, Bonini S, et al.2010. Allergenic pollen and pollen allergy in Europe[J]. Allergy, 62(9): 976-990.
[19] Docimo T, Francese G, Ruggiero A, et al.2016. Phenylpropanoids accumulation in eggplant fruit: Characterization of biosynthetic genes and regulation by a MYB transcription factor[J]. Front in Plant Science, 6(304): 1233-1251.
[20] Dubos C, Stracke R, Grotewold E, et al.2010. MYB transcription factors in Arabidopsis[J]. Trends in Plant Science, 15(10): 573-581.
[21] Garg V K, Avashthi H, Tiwari A, et al.2016. MFPPI-multi FASTA protparam interface[J]. Bioinformation, 12(2): 74-77.
[22] Grabherr M G, Haas B J, Yassour M, et al.2011. Full-length transcriptome assembly from RNA-Seq data without a reference genome[J]. Nature Biotechnology, 29(7): 644-669.
[23] Haas B J, Papanicolaou A, Yassour M, et al.2013. De novo transcript sequence reconstruction from RNA-seq using the trinity platform for reference generation and analysis[J]. Nature Protocols, 8(8): 1494-1512.
[24] Hai D, Feng B R, Yang S S, et al.2012. The R2R3-MYB transcription factor gene family in maize[J]. PLoS One, 7(6): 463-472.
[25] Huang Y J, Song S, Allan A C, et al.2013, Differential activation of anthocyanin biosynthesis in Arabidopsis and tobacco over-expressing an R2R3 MYB from Chinese bayberry[J]. Plant Cell Tissue & Organ Culture, 113(3): 491-499.
[26] Jeremy P, Wheeler J, Joshua H, et al.2010. AtMYB32 is required for normal pollen development in Arabidopsis thaliana[J]. Plant Journal, 40(6): 979-995.
[27] Kranz H D, Denekamp M, Greco R, et al.2010. Towards functional characterisation of the members of the R2R3-MYB gene family from Arabidopsis thaliana[J]. Plant Journal, 16(2): 263-276.
[28] Martin C, Paz-Ares J.1997. MYB transcription factors in plants[J]. Trends in Genetics, 13(2): 67-73.
[29] Millar A A, Gubler F.2005. The Arabidopsis GAMYB-like genes, MYB33 and MYB65, are microRNA-regulated genes that redundantly facilitate anther development[J]. Plant Cell, 17(3): 705-721.
[30] Riechmann J L, Heard J, Martin G, et al.2000. Arabidopsis transcription factors: Genome-wide comparative analysis among eukaryotes[J]. Science, 290(5499): 2105-2110.
[31] Stracke R, Werber M, Weisshaar B.2001. The R2R3-MYB gene family in Arabidopsis thaliana[J]. Current Opinion in Plant Biology, 4(5): 447-456.
[32] Sun Y, Buhler J.2007. Designing patterns for profile HMM search[J]. Bioinformatics, 23(2): 36-43.
[33] Thorley J L, Page R D.2000. RadCon: Phylogenetic tree comparison and consensus[J]. Bioinformatics, 16(5): 486-487.
[34] Wei L Q, Xu W Y, Deng Z Y, et al.2010. Genome-scale analysis and comparison of gene expression profiles in developing and germinated pollen in Oryza sativa[J]. BMC Genomics, 11(1): 338-350.
[35] Yang C, Xu Z, Song J, et al.2007. Arabidopsis MYB26/MALE STERILE35 regulates secondary thickening in the endothecium and is essential for anther dehiscence[J]. Plant Cell, 19(2): 534-548.
[36] Zhu J, Zhang G Q, Chang Y H, et al.2010. AtMYB103 is a crucial regulator of several pathways affecting Arabidopsis anther development[J]. Science China, 53(9): 1112-1122. |
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