半夏热激因子HSF家族基因鉴定及生物信息分析

doi:10.16420/j.issn.0513-353x.2023-0710

摘要/Abstract

摘要：

为挖掘参与半夏（Pinellia ternata）高温倒苗的PtHSF基因，开展了半夏PtHSF的鉴定分析。结果表明，半夏中存在22个PtHSF基因家族成员，不均匀地分布在10条染色体上。PtHSF基因均含有HSF特征结构域（DBD保守结构域），系统进化树分析表明，PtHSF基因可分为三大亚类，同一亚类的PtHSF具有相似的基因结构和保守基序，并编码相似的氨基酸。亚细胞定位显示81.82%的PtHSF位于细胞核中，其余位于细胞外。共线性分析表明PtHSF基因家族只有一对共线性，且PtHSF与水稻OsHSF具有更近的同源进化关系。表达模式分析表明，PtHSF在不同组织部位的表达具有显著差异，多数成员在根和块茎中高表达；高温胁迫条件下，12个PtHSF受诱导表达，8个受高温抑制。

关键词: 半夏, HSF, 生物信息学, 转录因子, 基因表达

Abstract:

In this study，the PtHSF genes involved in the high-temperature-induced ST of Pinellia ternata were identified and characterized. Twenty-two members of the PtHSF gene family were accordingly identified in P. ternata，which were unevenly distributed across its 10 chromosomes. All PtHSF genes were found to contain HSF-characteristic domains（DBD conserved domains），and phylogenetic tree analysis revealed that these genes can be divided into three major subclasses. PtHSF genes in the same subclass were established to have similar gene structures and conserved motifs，and encode similar amino acids. Subcellular localization prediction indicated that 81.82% of the PtHSF protein is located in the nucleus，with the remainder being distributed outside the cell. Collinearity analysis revealed that the PtHSF gene family has only a single collinear pair，and that PtHSF and rice OsHSF have a close homologous evolutionary relationship. Expression pattern analysis revealed that the expression of PtHSF family members differs significantly among different plant tissues，with most members being observed to be highly expressed in roots and tubers. In response to exposure to high temperature stress，the induced expression of 12 PtHSF genes and inhibited expression of eight PtHSF genes were detected.

Key words: Pinellia ternata, HSF, bioinformatics, transcription factor, gene expression

尤倩, 刘晓, 刘梦梦, 刘丹, 伯晨, 朱艳芳, 段永波, 薛建平, 张爱民, 薛涛. 半夏热激因子HSF家族基因鉴定及生物信息分析[J]. 园艺学报, 2024, 51(10): 2371-2385.

YOU Qian, LIU Xiao, LIU Mengmeng, LIU Dan, BO Chen, ZHU Yanfang, DUAN Yongbo, XUE Jianping, ZHANG Aimin, XUE Tao. Identification and Bioinformatics Analysis of the HSF Family Gene in Pinellia ternata[J]. Acta Horticulturae Sinica, 2024, 51(10): 2371-2385.

图/表 10

参考文献 51

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基因 Gene	上游引物（5′-3′） Forward primer	下游引物（5′-3′） Reverse primer
PtHSF2	AACTTCTCCAGCTTCGTTCG	TCGCCCTTTTTGAAGCAGTC
PtHSF5	CAGCTCAACACCTATGGA	GGATGGTCTTCAGCAGAT
PtHSF7	TCACTCGTCTAACTCTTCC	CATTGCAGAGGTTCTTCAG
PtHSF8	TCATCTCCTGGAACGACGAC	AGCTGGAGAAGTTGTTGTGC
PtHSF9	AAGTCGGGAATTGCGACATC	AGTCCAGGAAGAGAGCAAGC
PtHSF15	ACTTCAAGCACGGCAACTTC	AACCCTTCGTTGGCAAACTC
PtHSF16	TGCAAGCAAGAAACGGAGAC	AGCATTGCTTTGGCTGCTTC
PtHSF18	CCCCAAGTACTTCAAGCACAAC	ACGATCTTCCGGAAACCGTAG
PtHSF19	ACATTCGAGATGGTGGAG	GGATGAAGGTGGAGAAGT
PtHSF20	TCACCAAGACGTACCAGTTGG	TGAAGCAGTCGTTGTTGTGC

基因 Gene	上游引物（5′-3′） Forward primer	下游引物（5′-3′） Reverse primer
PtHSF2	AACTTCTCCAGCTTCGTTCG	TCGCCCTTTTTGAAGCAGTC
PtHSF5	CAGCTCAACACCTATGGA	GGATGGTCTTCAGCAGAT
PtHSF7	TCACTCGTCTAACTCTTCC	CATTGCAGAGGTTCTTCAG
PtHSF8	TCATCTCCTGGAACGACGAC	AGCTGGAGAAGTTGTTGTGC
PtHSF9	AAGTCGGGAATTGCGACATC	AGTCCAGGAAGAGAGCAAGC
PtHSF15	ACTTCAAGCACGGCAACTTC	AACCCTTCGTTGGCAAACTC
PtHSF16	TGCAAGCAAGAAACGGAGAC	AGCATTGCTTTGGCTGCTTC
PtHSF18	CCCCAAGTACTTCAAGCACAAC	ACGATCTTCCGGAAACCGTAG
PtHSF19	ACATTCGAGATGGTGGAG	GGATGAAGGTGGAGAAGT
PtHSF20	TCACCAAGACGTACCAGTTGG	TGAAGCAGTCGTTGTTGTGC

基因 Gene	CDS长度/bp CDS length	氨基酸数 Number of amino acids	分子量/kD Molecular weight	等电点 Isoelectric point	不稳定系数 Isoelectric point	脂溶系数 Fat solubility coefficient	亲水系数 Hydrophilicity coefficient	亚细胞定位 Subcellular localization
PtHSF1	1 206	401	44.79	5.22	48.70	65.69	-0.618	细胞核 Nucleus
PtHSF2	891	296	32.22	5.08	64.05	67.60	-0.670	细胞核 Nucleus
PtHSF3	1 767	588	64.51	5.23	67.80	66.38	-0.732	细胞外 Extracellular
PtHSF4	1 293	430	45.19	10.24	58.77	72.77	-0.342	细胞外 Extracellular
PtHSF5	1 065	354	38.99	4.78	65.20	69.55	-0.578	细胞核 Nucleus
PtHSF6	798	265	28.97	9.25	65.36	67.09	-0.639	细胞外 Extracellular
PtHSF7	1 098	365	39.83	5.35	78.99	58.36	-0.808	细胞核 Nucleus
PtHSF8	1 080	359	39.12	7.63	62.48	64.48	-0.685	细胞核 Nucleus
PtHSF9	759	252	26.26	4.91	78.68	61.59	-0.240	细胞外 Extracellular
PtHSF10	1 350	449	51.10	5.16	63.68	65.99	-0.845	细胞核 Nucleus
PtHSF11	1 506	501	54.56	4.88	63.56	70.04	-0.517	细胞核 Nucleus
PtHSF12	666	221	25.29	8.83	58.87	73.35	-0.726	细胞核 Nucleus
PtHSF13	1 329	442	47.04	6.62	61.51	64.75	-0.469	细胞核 Nucleus
PtHSF14	1 245	414	44.04	6.78	58.68	67.22	-0.348	细胞核 Nucleus
PtHSF15	1 017	338	38.30	5.24	59.85	64.32	-0.835	细胞核 Nucleus
PtHSF16	1 599	532	57.54	4.90	60.15	73.18	-0.493	细胞核 Nucleus
PtHSF17	990	329	36.39	8.95	56.12	72.37	-0.473	细胞核 Nucleus
PtHSF18	1 107	368	40.50	6.20	68.71	57.55	-0.818	细胞核 Nucleus
PtHSF19	1 188	395	44.06	5.00	59.81	82.66	-0.429	细胞核 Nucleus
PtHSF20	756	251	27.38	6.11	71.88	63.07	-0.738	细胞核 Nucleus
PtHSF21	1 290	429	49.44	5.20	60.05	71.75	-0.674	细胞核 Nucleus
PtHSF22	1 158	385	41.33	5.86	54.83	64.16	-0.498	细胞核 Nucleus

基因 Gene	CDS长度/bp CDS length	氨基酸数 Number of amino acids	分子量/kD Molecular weight	等电点 Isoelectric point	不稳定系数 Isoelectric point	脂溶系数 Fat solubility coefficient	亲水系数 Hydrophilicity coefficient	亚细胞定位 Subcellular localization
PtHSF1	1 206	401	44.79	5.22	48.70	65.69	-0.618	细胞核 Nucleus
PtHSF2	891	296	32.22	5.08	64.05	67.60	-0.670	细胞核 Nucleus
PtHSF3	1 767	588	64.51	5.23	67.80	66.38	-0.732	细胞外 Extracellular
PtHSF4	1 293	430	45.19	10.24	58.77	72.77	-0.342	细胞外 Extracellular
PtHSF5	1 065	354	38.99	4.78	65.20	69.55	-0.578	细胞核 Nucleus
PtHSF6	798	265	28.97	9.25	65.36	67.09	-0.639	细胞外 Extracellular
PtHSF7	1 098	365	39.83	5.35	78.99	58.36	-0.808	细胞核 Nucleus
PtHSF8	1 080	359	39.12	7.63	62.48	64.48	-0.685	细胞核 Nucleus
PtHSF9	759	252	26.26	4.91	78.68	61.59	-0.240	细胞外 Extracellular
PtHSF10	1 350	449	51.10	5.16	63.68	65.99	-0.845	细胞核 Nucleus
PtHSF11	1 506	501	54.56	4.88	63.56	70.04	-0.517	细胞核 Nucleus
PtHSF12	666	221	25.29	8.83	58.87	73.35	-0.726	细胞核 Nucleus
PtHSF13	1 329	442	47.04	6.62	61.51	64.75	-0.469	细胞核 Nucleus
PtHSF14	1 245	414	44.04	6.78	58.68	67.22	-0.348	细胞核 Nucleus
PtHSF15	1 017	338	38.30	5.24	59.85	64.32	-0.835	细胞核 Nucleus
PtHSF16	1 599	532	57.54	4.90	60.15	73.18	-0.493	细胞核 Nucleus
PtHSF17	990	329	36.39	8.95	56.12	72.37	-0.473	细胞核 Nucleus
PtHSF18	1 107	368	40.50	6.20	68.71	57.55	-0.818	细胞核 Nucleus
PtHSF19	1 188	395	44.06	5.00	59.81	82.66	-0.429	细胞核 Nucleus
PtHSF20	756	251	27.38	6.11	71.88	63.07	-0.738	细胞核 Nucleus
PtHSF21	1 290	429	49.44	5.20	60.05	71.75	-0.674	细胞核 Nucleus
PtHSF22	1 158	385	41.33	5.86	54.83	64.16	-0.498	细胞核 Nucleus