大麦NF-YC基因鉴定及在盐胁迫下的表达分析

doi:10.11983/CBB22177

植物学报 ›› 2023, Vol. 58 ›› Issue (1): 140-149.DOI: 10.11983/CBB22177

所属专题：杂粮生物学专辑 (2023年58卷1期)

大麦NF-YC基因鉴定及在盐胁迫下的表达分析

王菲菲, 周振祥, 洪益, 谷洋洋, 吕超, 郭宝健, 朱娟, 许如根^*()

植物功能基因组学教育部重点实验室/江苏省作物基因组学与分子育种重点实验室/江苏粮食作物现代产业技术协同创新中心/扬州大学农业科技发展研究院, 扬州 225009

收稿日期:2022-07-31 接受日期:2022-10-24 出版日期:2023-01-01 发布日期:2023-01-05
通讯作者: *E-mail: rgxu@yzu.edu.cn
作者简介:^†共同第一作者
基金资助:
国家重点研发计划(2018YFD1000704);国家重点研发计划(2018YFD1000700);国家自然科学基金(32101652)

Identification of the NF-YC Genes in Hordeum vulgare and Expression Analysis Under Salt Stress

Feifei Wang, Zhenxiang Zhou, Yi Hong, Yangyang Gu, Chao Lü, Baojian Guo, Juan Zhu, Rugen Xu^*()

Institutes of Agricultural Science, Yangzhou University/Jiangsu Co-Innovation Center for Modern Production Technology of Grain Crops/Jiangsu Key Laboratory of Crop Genomics and Molecular Breeding/Key Laboratory of Plant Functional Genomics of the Ministry of Education, Yangzhou 225009, China

Received:2022-07-31 Accepted:2022-10-24 Online:2023-01-01 Published:2023-01-05
Contact: *E-mail: rgxu@yzu.edu.cn
About author:^†These authors contributed equally to this paper

摘要/Abstract

摘要： 核因子Y (NF-Y)是由NF-YA、NF-YB和NF-YC三个亚基组成的一类真核细胞转录因子, 主要参与植物生长发育调控和非生物胁迫信号传递。该研究利用生物信息学方法解析了大麦(Hordeum vulgare) NF-YC基因家族功能。首先, 基于大麦基因组数据库鉴定出11个HvNF-YC成员, 分布在除第2号染色体以外的其余6条染色体上, 内含子0-5个。系统进化分析显示, 大麦、拟南芥(Arabidopsis thaliana)和水稻(Oryza sativa) NF-YC基因家族成员可分为5个亚家族。基因复制分析显示, 6个HvNF-YC基因存在片段复制, 3个HvNF-YC基因存在串联复制。启动子顺式作用元件分析显示, 大多数HvNF-YC基因启动子含有与非生物胁迫及激素响应相关的顺式作用元件。对HvNF-YC家族成员在不同组织不同时期的表达模式分析表明, 不同成员的时空表达存在明显差异, 其中HvNF-YC9和HvNF-YC11可能在籽粒发育初期发挥重要作用。通过分析耐盐型和盐敏感型大麦品种根和叶中HvNF-YC表达量变化, 发现HvNF-YC3、HvNF-YC6和HvNF-YC10主要在盐胁迫初期的根中行使功能, HvNF-YC9主要在长期盐胁迫处理后期的根中起作用。综上所述, 推测HvNF-YC9、10、11三个基因可作为后续探究大麦NF-YC参与耐盐作用机制的候选基因。该研究结果为进一步解析HvNF-YC在大麦中的耐盐调控功能奠定了基础。

关键词: NF-YC, 基因家族分析, 大麦, 盐胁迫, 基因表达

Abstract: 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

王菲菲, 周振祥, 洪益, 谷洋洋, 吕超, 郭宝健, 朱娟, 许如根. 大麦NF-YC基因鉴定及在盐胁迫下的表达分析. 植物学报, 2023, 58(1): 140-149.

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. Chinese Bulletin of Botany, 2023, 58(1): 140-149.

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链接本文: https://www.chinbullbotany.com/CN/10.11983/CBB22177

https://www.chinbullbotany.com/CN/Y2023/V58/I1/140

图/表 9

表1 大麦NF-YC基因家族成员的序列信息

Table 1 Sequence information of HvNF-YCs gene family

Gene name	Gene ID	Chromo- some	Location	Amino acid length (aa)	Protein molecular weight (kDa)	pI	Instability index	Aliphatic index	Subcellular location
HvNF-YC1	HORVU.MOREX.- r3.1HG0069390.1	1	447067437- 447072149	282	31.44	5.4	48.23	75.07	Nucleus
HvNF-YC2	HORVU.MOREX.- r3.1HG0081770.1	1	489164568- 489164978	136	14.07	9.5	38.39	79.78	Nucleus
HvNF-YC3	HORVU.MOREX.- r3.3HG0237950.1	3	54989815- 54991052	371	39.09	4.74	52.22	66.66	Nucleus
HvNF-YC4	HORVU.MOREX.- r3.4HG0364520.1	4	231786893- 231791804	255	28.09	5.93	59.67	65.76	Nucleus
HvNF-YC5	HORVU.MOREX.- r3.4HG0391570.1	4	499791697- 499793529	241	25.63	5.32	60.13	66.18	Nucleus
HvNF-YC6	HORVU.MOREX.- r3.5HG0489580.1	5	474074907- 474075856	203	21.78	5.39	59.79	72.91	Nucleus
HvNF-YC7	HORVU.MOREX.- r3.6HG0571700.1	6	135835186- 135838701	260	28.59	4.87	81.41	71.81	Nucleus
HvNF-YC8	HORVU.MOREX.- r3.7HG0677850.1	7	160202157- 160203122	199	21.57	5.52	65.36	71.86	Nucleus
HvNF-YC9	HORVU.MOREX.- r3.7HG0737530.1	7	597862664- 597863461	265	29.76	4.79	69.77	63.06	Nucleus
HvNF-YC10	HORVU.MOREX.- r3.7HG0737680.1	7	598086832- 598087587	251	27.85	6.22	68.44	73.19	Nucleus
HvNF-YC11	HORVU.MOREX.- r3.7HG0737720.1	7	598116971- 598117753	260	28.62	4.66	80.61	68.81	Nucleus

图1 大麦NF-YC家族成员的聚类分析(A)、保守基序(B)与基因结构(C) CDS: 编码序列; UTR: 非翻译区

Figure 1 Cluster analysis (A), conserved motif (B) and gene structure (C) of HvNF-YC family members CDS: Coding sequence; UTR: Untranslated region

图2 大麦NF-YC家族成员的序列比对分析

Figure 2 Sequence alignment of NF-YC family members in Hordeum vulgare

图3 拟南芥、水稻和大麦NF-YC家族的系统进化分析

Figure 3 Phylogenetic analysis of NF-YC family in Arabidopsis thaliana, Oryza sativa, and Hordeum vulgare

图4 大麦NF-YC基因家族成员在染色体上的分布

Figure 4 Distribution of NF-YC gene family members on chromosomes in Hordeum vulgare

图5 大麦NF-YC基因家族基因复制事件分析

Figure 5 Analysis of duplicated NF-YC gene pairs in Hordeum vulgare

图6 大麦NF-YC基因家族启动子的顺式作用元件统计

Figure 6 Statistics analysis of cis-acting elements of NF-YC gene family in Hordeum vulgare

图7 大麦NF-YC基因家族启动子的顺式作用元件分析

Figure 7 Cis-acting elements analysis of NF-YC gene family in Hordeum vulgare

图8 大麦NF-YC基因家族成员的组织表达谱(A)及盐胁迫处理下NN和TX品种叶和根中HvNF-YC表达量(B) ROO1: 种子根(茎长10 cm, 幼苗阶段); LEA: 茎(10 cm, 幼苗阶段); INF1: 花序(5 mm); INF2: 花序(1-1.5 cm); NOD: 分蘖(第3节); CAR5: 籽粒(授粉后第5天); CAR15: 籽粒(授粉后第15天); ET1: 黄花幼苗(黑暗条件下10天); LEM: 花序(外稃, 授粉后42天); LOD: 花序(浆片, 授粉后42天); EPI: 表皮(授粉后28天); RAC: 花序(花轴, 授粉后35天); ROO2: 根(授粉后28天); SEN: 衰老叶片(授粉后56天)

Figure 8 Tissue expression profile of NF-YC gene family members in Hordeum vulgare (A) and HvNF-YC expressions in the leaf and root of NN and TX varieties under salt stress (B) ROO1: Roots from seedlings (10 cm shoot stage); LEA: Shoots from seedlings (10 cm shoot stage); INF1: Young developing inflorescences (5 mm); INF2: Developing inflorescences (1-1.5 cm); NOD: Developing tillers (3rd internode); CAR5: Developing grain (5 days after pollination (DAP)); CAR15: Developing grain (15 DAP); ET1: Etiolated seedling (dark condition,10 days); LEM: Inflorescences (lemma, 42 DAP); LOD: Inflorescences (lodicule, 42 DAP); EPI: Epidermal strips (28 DAP); RAC: Inflorescences (rachis, 35 DAP); ROO2: Roots (28 DAP); SEN: Senescing leaves (56 DAP)

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大麦NF-YC基因鉴定及在盐胁迫下的表达分析

Identification of the NF-YC Genes in Hordeum vulgare and Expression Analysis Under Salt Stress

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