Abstract：Nuclear Factor Y (NF-Y) is a transcription factor widely found in eukaryotes and involved in plant growth and development as well as biotic and abiotic stress responses. Phoebe bournei is an important economic timber tree in South China, but the growth and accumulation of wood are seriously affected by the lack of water. Exploration of drought-resistance response factors will provide support for improving the drought resistance of P. bournei. In this study, the whole genome identification and bioinformatics analysis of the NF-Y gene family in P. bournei were conducted, and the tissue expression specificity and expression pattern of PbNF-Ys under drought stress were analyzed by qPCR. The results showed that a total of 40 PbNF-Ys were identified in the whole genome of P. bournei, which were divided into 3 subfamilies and unevenly distributed on 11 chromosomes. The molecular weights of PbNF-Ys protein ranged from 10 774.45 (PbNF-YB11) to 39 576.26 D (PbNF-YA2), and all proteins were hydrophilic. The analysis of promoter elements showed that there were hormone response elements such as auxin, gibberellin and methyl jasmonate, light response elements, growth- and development-related elements and drought stress-related elements. Tissue expression analysis of PbNF-Ys in the root, stem, and leaf was carried out by qPCR. The result showed that PbNF-Ys presents tissue-specific expression patterns. Expression analysis of drought stress treatments showed that 17 PbNF-Ys were up-regulated induced by drought stress, 16 ones were down-regulated, and 7 ones presented no significant expression change. This study provides the reference basis for further study on the biological function and evolution of NF-Y gene family in P. bournei.
韩双, 韩潇, 李翼贝, 张毓婷, 张俊红, 童再康. 闽楠NF-Y基因家族鉴定及其响应干旱胁迫的表达分析[J]. 农业生物技术学报, 2022, 30(6): 1112-1127.
HAN Shuang, HAN Xiao, LI Yi-Bei, ZHANG Yu-Ting, ZHANG Jun-Hong, TONG Zai-Kang. Identification of NF-Y Gene Family and Expression Analysis in Response to Drought Stress in Phoebe bournei. 农业生物技术学报, 2022, 30(6): 1112-1127.
[1] 黄俊文, 南建宗, 阳成伟. 2020. NF-Y转录因子调控植物生长发育及胁迫响应的研究进展[J]. 植物生理学报, 56(12): 2595-2605. (Huang J W, Nan J Z, Yang C W.2020. Research progress in the regulation of plant growth, development and stress response by NF Y transcription factor[J]. Plant Physiology, 56(12): 2595-2605.) [2] 江香梅, 肖复明, 叶金山, 等. 2008. 闽楠种源苗期生长性状地理变异及遗传参数估算[J]. 江西农业大学学报, (04): 666-670. (Jiang X M, Xiao F M, Ye J S, et al. 2008. Geographical variation and estimation of genetic parameters of seedling growth traits in Phoebe bournei provenances[J]. Journal of Jiangxi Agricultural University, (04): 666-670.) [3] 靳月, 李铁华, 文仕知, 等. 2018. 干旱胁迫对闽楠幼苗的生长和生理特性的影响[J]. 中南林业科技大学学报, 38(9): 50-57. (Jin Y, Li T H, Wen S Z, et al.2018. Effects of drought stress on growth and physiological characteristics of Phoebe bournei seedling[J]. Journal of Central South University of Forestry & Technology, 38(9): 50-57.) [4] 王波. 2019. 干旱胁迫及多胺修复下闽楠幼苗光合生理的研究[D]. 硕士学位论文, 中南林业科技大学, 导师: 李铁华, pp. 26-40. (Wang B.2019. Photosynthetic physiology of Phoebe bournei seedlings under drought stress and polyamine repair[D]. Thesis for M.S., Central South University of Forestry and Technology, Supervisor: Li T H, pp. 26-40.) [5] 王寻, 冯资权, 由春香, 等. 2021. 苹果NF-YA转录因子家族的生物信息学和表达分析[J]. 植物生理学报, 57(01): 69-84. (Wang X, Feng Z Q, You C X, et al.2021. Bioinformatics and expression analysis of NF-YA transcription factor family in apple[J]. Journal of Plant Physiology, 57(01): 69-84.) [6] 吴大荣, 朱政德. 2003. 福建省罗卜岩自然保护区闽楠种群结构和空间分布格局初步研究[J]. 林业科学, 39(01): 23-30. (Wu D R, Zhu Z D.2003. A preliminary study on the population structure and spatial distribution pattern of Phoebe bournei in Luobyan Nature Reserve, Fujian Province[J]. Scientia Silvae Sinicae, 39(01): 23-30.) [7] Ballif J, Endo S, Kotani M, et al.2011. Over-expression of HAP3b enhances primary root elongation in Arabidopsis[J]. Plant Physiology And Biochemistry, 49(6): 579-583. [8] Chen N Z, Zhang X Q, Wei P C, et al.2007. AtHAP3b plays a crucial role in the regulation of flowering time in Arabidopsis during osmotic stress[J]. Journal of Biochemistry Molecular Biology, 40(6): 1083-1089. [9] Chu H D, Nguyen K H, Watanabe Y, et al.2018. Identification, structural characterization and gene expression analysis of members of the nuclear factor-Y family in chickpea (Cicer arietinum L.) under dehydration and abscisic acid treatments[J]. International Journal of Molecular Sciences, 19(11): 3290-3309. [10] Combier J P, Frugier F, de Billy F, et al.2006. MtHAP2-1 is a key transcriptional regulator of symbiotic nodule development regulated by microRNA169 in Medicago truncatula[J]. Genes & Development, 20(22): 3084-3088. [11] Dolfini D, Gatta R, Mantovani R.2012. NF-Y and the transcriptional activation of CCAAT promoters[J]. Critical Reviews in Biochemistry & Molecular Biology, 47(1): 29-49. [12] Feng Z J, He G H, Zheng W J, et al.2015. Foxtail millet NF-Y families: genome-wide survey and evolution analyses identified two functional genes important in abiotic stresses[J]. Frontiers in Plant Science, 6: 1142-1160. [13] Fornari M, Calvenzani V, Masiero S, et al.2013. The Arabidopsis NF-YA3 and NF-YA8 genes are functionally redundant and are required in early embryogenesis[J]. PLOS ONE, 8(11): e82043. [14] Gnesutta N, Kumimoto R W, Swain S, et al.2017. CONSTANS imparts DNA sequence specificity to the histone fold NF-YB/NF-YC dimer[J]. Plant Cell, 29(6): 1516-1532. [15] Hackenberg D, Keetman U, Grimm B.2012. Homologous NF-YC2 subunit from Arabidopsis and tobacco is activated by photooxidative stress and induces flowering[J]. International Journal of Molecular Sciences, 13(3): 3458-3477. [16] Han X, Tang S, An Y, et al.2013. Overexpression of the poplar NF-YB7 transcription factor confers drought tolerance and improves water-use efficiency in Arabidopsis[J]. Journal of Experimental Botany, 64(14): 4589-4601. [17] Khan M R, Ai X Y, Zhang J Z.2014. Genetic regulation of flowering time in annual and perennial plants[J]. Wiley Interdisciplinary Reviews RNA, 5(3): 347-359. [18] Kusnetsov V, Landsberger M, Meurer J, et al.1999. The assembly of the CAAT-box binding complex at a photosynthesis gene promoter is regulated by light, cytokinin, and the stage of the plastids[J]. Journal of Biological Chemistry, 274(50): 36009-36014. [19] Lee H, Fischer R L, Goldberg R B, et al.2003. Arabidopsis LEAFY COTYLEDON1 represents a functionally specialized subunit of the CCAAT binding transcription factor[J]. Proceedings of the National Academy of Sciences of the USA, 100(4): 2152-2156. [20] Lee S, Kim S, Kim S.2013. Drought inducible OsDhn1 promoter is activated by OsDREB1A and OsDREB1D[J]. Journal of Plant Biology, 56(2): 115-121. [21] Letunic I, Bork P.2018. 20 years of the SMART protein domain annotation resource[J]. Nucleic Acids Research, 46(D1): D493-D496. [22] Li J, Gao K, Khan W U, et al.2020. Genome-wide analysis of the poplar NF-Y gene family and its expression in floral bud development of Populus tomentosa[J]. Trees, 34(1): 285-296. [23] Li W X, Oono Y, Zhu J, et al.2008. The Arabidopsis NFYA5 transcription factor is regulated transcriptionally and posttranscriptionally to promote drought resistance[J]. Plant Cell, 20(8): 2238-2251. [24] Liang M, Yin X, Lin Z, et al.2014. Identification and characterization of NF-Y transcription factor families in canola (Brassica napus L.)[J]. Planta, 239(1): 107-126. [25] Liu J X, Howell S H.2010. BZIP28 and NF-Y transcription factors are activated by ER stress and assemble into a transcriptional complex to regulate stress response genes in Arabidopsis[J]. Plant Cell, 22(3): 782-796. [26] Mu J, Tan H, Hong S, et al.2013. Arabidopsis transcription factor genes NF-YA1, 5, 6, and 9 play redundant roles in male gametogenesis, embryogenesis, and seed development[J]. Molecular Plant, 6(1): 188-201. [27] Myers Z A, Holt B R.2018. NUCLEAR FACTOR-Y: Still complex after all these years?[J] Current Opinion in Plant Biology, 45(Pt A): 96-102. [28] Nakashima K, Jan A, Todaka D, et al.2014. Comparative functional analysis of six drought-responsive promoters in transgenic rice[J]. Planta, 239(1): 47-60. [29] Ni Z, Hu Z, Jiang Q, et al.2013. GmNFYA3, a target gene of miR169, is a positive regulator of plant tolerance to drought stress[J]. Plant Molecular Biology, 82(1-2): 113-129. [30] Pereira S, Martins C, Sousa A O, et al.2018. Genome-wide characterization and expression analysis of citrus NUCLEAR FACTOR-Y (NF-Y) transcription factors identified a novel NF-YA gene involved in drought-stress response and tolerance[J]. PLOS ONE, 13(6): e199187. [31] Petroni K, Kumimoto R W, Gnesutta N, et al.2012. The promiscuous life of plant NUCLEAR FACTOR Y transcription factors[J]. Plant Cell, 24(12): 4777-4792. [32] Roy S W, Gilbert W.2006. The evolution of spliceosomal introns: patterns, puzzles and progress[J]. Nature Reviews Genetics, 7(3): 211-221. [33] Siefers N, Dang K K, Kumimoto R W, et al.2009. Tissue-specific expression patterns of Arabidopsis NF-Y transcription factors suggest potential for extensive combinatorial complexity[J]. Plant Physiology, 149(2): 625-641. [34] Siriwardana C L, Kumimoto R W, Jones D S, et al.2014. Gene family analysis of the Arabidopsis NF-YA transcription factors reveals opposing abscisic acid responses during seed germination[J]. Plant Molecular Biology Reporter, 32(5): 971-986. [35] Stephenson T J, Mcintyre C L, Collet C, et al.2010. TaNF-YC11, one of the light-upregulated NF-YC members in Triticum aestivum, is co-regulated with photosynthesis-related genes[J]. Functional & Integrative Genomics, 10(2): 265-276. [36] Sun Y, Buhler J.2009. Designing patterns and profiles for faster HMM search[J]. IEEE/ACM Transactions on Computational Biology and Bioinformatics, 6(2): 232-243. [37] Wang Y, Xu W, Chen Z, et al.2018. Gene structure, expression pattern and interaction of nuclear factor-Y family in castor bean (Ricinus communis)[J]. Planta, 247(3): 559-572. [38] Yang W, Lu Z, Xiong Y, et al.2016. Genome-wide identification and co-expression network analysis of the OsNF-Y gene family in rice[J]. Crop Journal, 5(001): 21-31. [39] Yoshida H, Okada T, Haze K, et al.2001. Endoplasmic reticulum stress-induced formation of transcription factor complex ERSF including NF-Y (CBF) and activating transcription factors 6Alpha and 6Beta that activates the mammalian unfolded protein response[J]. Molecular and Cellular Biology, 21(4): 1239-1248. [40] Zambelli F, Pavesi G.2017. Genome wide features, distribution and correlations of NF-Y binding sites[J]. Biochimica et Biophysica Acta, 1860(5): 581-589. [41] Zhang J, Zhu Y, Ying P, et al.2018. Transcriptomic profiling and identification of candidate genes in two Phoebe bournei ecotypes with contrasting cold stress responses[J]. Trees, 32(5): 1315-1333. [42] Zhou Y, Zhang Y, Wang X, et al.2020. Root-specific NF-Y family transcription factor, PdNF-YB21, positively regulates root growth and drought resistance by abscisic acid-mediated indoylacetic acid transport in Populus[J]. New Phytologist, 227(2): 407-426.
