Identification of the NF-YC Genes in Hordeum vulgare and Expression Analysis Under Salt Stress
Received date: 2022-07-31
Accepted date: 2022-10-24
Online published: 2022-11-11
Nuclear factor-Y (NF-Y) is a ubiquitous transcription factor in eukaryotes, which consists of three subunits, NF-YA, NF-YB and NF-YC. NF-Y is widely involved in the regulation of plant growth and development and responses to abiotic stress. In this study, we comprehensively analyzed the NF-YC gene family in barley using bioinformatics methods. First, 11 HvNF-YC members were identified based on the barley genome database, and they are distributed on 6 chromosomes of barley except the second chromosome with 0-5 introns. Phylogenetic analysis showed that the NF-YC family members of barley, Arabidopsis and rice could be divided into five groups. Gene replication analysis showed that six HvNF-YC genes had fragment duplication, and three HvNF-YC genes had tandem duplication. Analysis of cis-acting elements in promoter revealed that most HvNF-YC contained cis-acting elements related to abiotic stress and hormone responses. Analysis of the expression patterns of HvNF-YC members in different tissues at different stages showed that there were significant differences in the spatial and temporal expression of different members, among which HvNF-YC9 and 11 may play important roles in the early stage of grain development. By analyzing the changes of HvNF-YC expression in roots and leaves in salt-tolerant and salt-sensitive barley varieties, and HvNF-YC3, HvNF-YC6 and HvNF-YC10 genes were pivotal in the early stage of salt stress response; while HvNF-YC9 gene played essential roles in the late stage of long-term salt treatment. Therefore, we speculated that HvNF-YC9, 10, and 11 genes could be used as candidates to further explore the mechanism of NF-YC functions in salt tolerance, which will lay the foundation for further analysis of the function of HvNF-YC in barley salt tolerance.
Key words： NF-YC; gene family analysis; barley; salt stress; gene expression
Feifei Wang, Zhenxiang Zhou, Yi Hong, Yangyang Gu, Chao Lü, Baojian Guo, Juan Zhu, Rugen Xu . Identification of the NF-YC Genes in Hordeum vulgare and Expression Analysis Under Salt Stress[J]. Chinese Bulletin of Botany, 2023 , 58(1) : 140 -149 . DOI: 10.11983/CBB22177
| [1] | 陈国户, 庞小可, 李广, 王浩, 吴思文, 温宏伟, 尹倩, 袁凌云, 侯金锋, 唐小燕, 汪承刚 (2022). 白菜NAC基因家族全基因组鉴定及其应答春化反应的表达分析. 南京农业大学学报 45, 656-665. |
| [2] | 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. 植物生理学报 56, 2595-2605. |
| [3] | 李娟, 高凯, 安新民 (2019). 转录因子NF-Y在植物生长发育和逆境胁迫响应中的作用. 中国细胞生物学学报 41, 2434-2442. |
| [4] | 李世贵, 马瑞, 王芳芳, 刘维刚, 杨江伟, 唐勋, 张宁, 司怀军 (2021). 植物NF-Y转录因子研究进展. 植物生理学报 57, 248-256. |
| [5] | 马鑫磊, 许瑞琪, 索晓曼, 李婧实, 顾鹏鹏, 姚锐, 林小虎, 高慧 (2022). 谷子III型PRX基因家族全基因组鉴定及干旱胁迫下表达分析. 作物学报 48, 2517-2532. |
| [6] | 桑璐曼, 汤沙, 张仁梁, 贾小平, 刁现民 (2022). 谷子热激蛋白HSP90基因家族鉴定及分析. 植物遗传资源学报 23, 1085-1097. |
| [7] | Alam MM, Tanaka T, Nakamura H, Ichikawa H, Kobayashi K, Yaeno T, Yamaoka N, Shimomoto K, Takayama K, Nishina H, Nishiguchi M (2015). Overexpression of a rice heme activator protein gene (OsHAP2E) confers resistance to pathogens, salinity and drought, and increases photosynthesis and tiller number. Plant Biotechnol J 13, 85-96. |
| [8] | Dolfini D, Gatta R, Mantovani R (2012). NF-Y and the transcriptional activation of CCAAT promoters. Crit Rev Biochem Mol Biol 47, 29-49. |
| [9] | Forsburg SL, Guarente L (1989). Identification and characterization of HAP4: a third component of the CCAAT- bound HAP2/HAP3 heteromer. Genes Dev 3, 1166-1178. |
| [10] | Frontini M, Imbriano C, Manni I, Mantovani R (2004). Cell cycle regulation of NF-YC nuclear localization. Cell Cycle 3, 217-222. |
| [11] | Kong HZ, Landherr LL, Frohlich MW, Leebens-Mack J, Ma H, DePamphilis CW (2007). Patterns of gene duplication in the plant SKP1 gene family in angiosperms: evidence for multiple mechanisms of rapid gene birth. Plant J 50, 873-885. |
| [12] | Laloum T, De Mita S, Gamas P, Baudin M, Niebel A (2013). CCAAT-box binding transcription factors in plants: Y so many? Trends Plant Sci 18, 157-166. |
| [13] | Li QP, Yan WH, Chen HX, Tan C, Han ZM, Yao W, Li GW, Yuan MQ, Xing YZ (2016). Duplication of OsHAP family genes and their association with heading date in rice. J Exp Bot 67, 1759-1768. |
| [14] | Li YJ, Fang Y, Fu YR, Huang JG, Wu CA, Zheng CC (2013). NFYA1 is involved in regulation of postgermina-tion growth arrest under salt stress in Arabidopsis. PLoS One 8, e61289. |
| [15] | Liang MX, Hole D, Wu JX, Blake T, Wu YJ (2012). Expres-sion and functional analysis of NUCLEAR FACTORY, subunit B genes in barley. Planta 235, 779-791. |
| [16] | Mantovani R (1999). The molecular biology of the CCAAT- binding factor NF-Y. Gene 239, 15-27. |
| [17] | Nelson DE, Repetti PP, Adams TR, Creelman RA, Wu JR, Warner DC, Anstrom DC, Bensen RJ, Castiglioni PP, Donnarummo MG, Hinchey BS, Kumimoto RW, Maszle DR, Canales RD, Krolikowski KA, Dotson SB, Gutterson N, Ratcliffe OJ, Heard JE (2007). Plant nuclear factor Y (NF-Y) B subunits confer drought tolerance and lead to improved corn yields on water-limited acres. Proc Natl Acad Sci USA 104, 16450-16455. |
| [18] | Niu BX, Zhang ZY, Zhang J, Zhou Y, Chen C (2021). The rice LEC1-like transcription factor OsNF-YB9 interacts with SPK, an endosperm specific sucrose synthase pro-tein kinase, and functions in seed development. Plant J 106, 1233-1246. |
| [19] | Panahi B, Mohammadi SA, Ruzicka K, Abbasi Holaso H, Zare Mehrjerdi M (2019). Genome-wide identification and co-expression network analysis of nuclear factor-Y in barley revealed potential functions in salt stress. Physiol Mol Biol Plants 25, 485-495. |
| [20] | Pelletier JM, Kwong RW, Park S, Le BH, Baden R, Cagliari A, Hashimoto M, Munoz MD, Fischer RL, Goldberg RB, Harada JJ (2017). LEC1 sequentially regulates the transcription of genes involved in diverse developmental processes during seed development. Proc Natl Acad Sci USA 114, E6710-E6719. |
| [21] | Petroni K, Kumimoto RW, Gnesutta N, Calvenzani V, Fornari M, Tonelli C, Holt III BF, Mantovani R (2012). The promiscuous life of plant NUCLEAR FACTOR Y transcription factors. Plant Cell 24, 4777-4792. |
| [22] | Qu BY, He X, Wang J, Zhao YY, Teng W, Shao A, Zhao XQ, Ma WY, Wang JY, Li B, Li ZS, Tong YP (2015). A wheat CCAAT box-binding transcription factor increases the grain yield of wheat with less fertilizer input. Plant Physiol 167, 411-423. |
| [23] | Rogozin IB, Wolf YI, Sorokin AV, Mirkin BG, Koonin EV (2003). Remarkable interkingdom conservation of intron positions and massive, lineage-specific intron loss and gain in eukaryotic evolution. Curr Biol 13, 1512-1517. |
| [24] | Romier C, Cocchiarella F, Mantovani R, Moras D (2003). The NF-YB/NF-YC structure gives insight into DNA binding and transcription regulation by CCAAT factor NF-Y. J Biol Chem 278, 1336-1345. |
| [25] | Siefers N, Dang KK, Kumimoto RW, Bynum WE, Tayrose G, Holt III BF (2009). Tissue-specific expression patterns of Arabidopsis NF-Y transcription factors suggest potential for extensive combinatorial complexity. Plant Physiol 149, 625-641. |
| [26] | Stephenson TJ, McIntyre CL, Collet C, Xue GP (2010). TaNF-YC11, one of the light-upregulated NF-YC members in Triticum aestivum, is co-regulated with photosynthesis-related genes. Funct Integr Genomics 10, 265-276. |
| [27] | Stephenson TJ, McIntyre CL, Collet C, Xue GP (2007). Genome-wide identification and expression analysis of the NF-Y family of transcription factors in Triticum aesti-vum. Plant Mol Biol 65, 77-92. |
| [28] | Thirumurugan T, Ito Y, Kubo T, Serizawa A, Kurata N (2008). Identification, characterization and interaction of HAP family genes in rice. Mol Genet Genomics 279, 279-289. |
| [29] | Xing Y, Fikes JD, Guarente L (1993). Mutations in yeast HAP2/HAP3 define a hybrid CCAAT box binding domain. EMBO J 12, 4647-4655. |
| [30] | Yang WJ, Lu ZH, Xiong YF, Yao JL (2017). Genome-wide identification and co-expression network analysis of the OsNF-Y gene family in rice. Crop J 5, 21-31. |
| [31] | Yu TF, Liu Y, Fu JD, Ma J, Fang ZW, Chen J, Zheng L, Lu ZW, Zhou YB, Chen M, Xu ZS, Ma YZ (2021). The NF-Y-PYR module integrates the abscisic acid signal pathway to regulate plant stress tolerance. Plant Biotech-nol J 19, 2589-2605. |
| [32] | Zhang ZB, Li XL, Zhang C, Zou HW, Wu ZY (2016). Isola-tion, structural analysis, and expression characteristics of the maize nuclear factor Y gene families. Biochem Bio-phys Res Commun 478, 752-758. |
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