油莎豆块茎特异性表达基因鉴定及分析

doi:10.11983/CBB24097

植物学报 ›› 2025, Vol. 60 ›› Issue (1): 33-48.DOI: 10.11983/CBB24097 cstr: 32102.14.CBB24097

油莎豆块茎特异性表达基因鉴定及分析

张向歌, 陈晨, 程珊, 李春鑫, 朱雅婧, 许欣然, 王会伟^*()

河南省农业科学院经济作物研究所, 郑州 450002

收稿日期:2024-06-28 接受日期:2024-08-20 出版日期:2025-01-10 发布日期:2024-08-27
通讯作者: * 王会伟, 博士, 研究员, 河南省优秀专家, 享受国务院特殊津贴专家。河南省农业科学院经济作物研究所副所长, 油莎豆学科技术带头人。主要从事油莎豆种质资源鉴定、评价和创制, 关键性状形成机制解析, 品种遗传改良等研究。E-mail: whuiweiw@163.com
基金资助:
河南省重大科技专项(211100110100);河南省重点研发与推广专项(科技攻关)(242102110305);河南省重点研发与推广专项(科技攻关)(242102110290)

Identification and Analysis of Tuber-specific Expression Genes in Cyperus esculentus

Xiangge Zhang, Chen Chen, Shan Cheng, Chunxin Li, Yajing Zhu, Xinran Xu, Huiwei Wang^*()

Industrial Crop Research Institute, Henan Academy of Agricultural Sciences, Zhengzhou 450002, China

Received:2024-06-28 Accepted:2024-08-20 Online:2025-01-10 Published:2024-08-27
Contact: * E-mail: whuiweiw@163.com

摘要/Abstract

摘要： 块茎是油莎豆(Cyperus esculentus)独特且极其重要的器官, 富含油脂且具有与种子类似的繁殖能力, 研究油莎豆块茎特异性表达基因对于解析其块茎特异性生长发育(尤其是油脂积累)的调控机理具有重要意义。通过对油莎豆主要器官(根、叶、分蘖节、匍匐茎和块茎)进行转录组测序, 全面筛选块茎特异性表达基因, 并分析相关基因的功能。结果表明, 分别以根、叶、分蘖节和匍匐茎为对照, 经过多组比对分析后共鉴定出155个块茎特异性表达基因; GO富集分析显示, 与种子发育、种子油体合成、油脂储存、脱落酸响应、非生物刺激响应和蛋白折叠相关的7个GO条目显著富集, 这些GO条目涉及的基因恰好反映出油莎豆块茎独特的类似种子的发育特性。其中, CESC_00080和CESC_16572编码油体钙蛋白, CESC_08636、CESC_12549和CESC_17828编码油体蛋白, 均参与植物油体的形成, 而油体形成是植物完成油脂储存的关键步骤, 表明这些油体形成相关基因在块茎中的特异性表达可能是油莎豆在块茎中储存大量油脂的关键所在。此外, 还筛选出8个块茎特异性表达转录因子编码基因, 如CESC_00448 (编码abscisic acid insensitive 5-like protein ABI5)和CESC_03736 (编码heat stress transcription factor C), 而在鉴定到的块茎特异性表达基因中发现一些潜在的靶基因, 表明这些转录因子可能调控各自靶基因的特异性表达。综上, 研究结果可为油莎豆块茎发育相关基因调控网络的构建以及块茎特异性基因表达的分子机制解析提供重要参考。

关键词: 油莎豆, 块茎, 转录组测序, 特异性表达

Abstract: Tuber is a unique and extremely important organ of Cyperus esculentus, which is rich in oil and has the reproduction ability similar to seed. It is of great significance to study the specific expression genes in the tubers of C. esculentus for analyzing the regulation mechanism of tuber-specific growth and development (especially oil accumulation). Through transcriptome sequencing of the main organs (root, leaf, tillering node, stolon and tuber) of C. esculentus, the genes specifically expressed in tubers were comprehensively screened and the functions of related genes were analyzed. The results showed that a total of 155 tuber-specific expression genes were identified after multiple sets of comparative analysis by taking root, leaf, tillering node and stolon as reference, respectively. GO enrichment analysis showed that 7 GO terms including seed development, seed oilbody biogenesis, oil storage, abscisic acid response, response to abiotic stimulus and protein folding were significantly enriched, and some of the genes involved in these GO terms just reflected the unique development characteristics similar to seed of C. esculentus tubers. Among them, CESC_00080 and CESC_16572 encode caleosin, and meanwhile, CESC_08636, CESC_12549 and CESC_17828 encode oleosin, all of which are involved in the formation of plant oil bodies. Since oil body formation is a key step for plants to complete oil storage, it is indicated that the specific expression of these oil body formation-related genes in tubers may be the key to the storage of large amounts of oil in the tubers of C. esculentus. In addition, this study also screened eight tuber-specific expression transcription factor genes, such as CESC_00448 (abscisic acid insensitive 5-like protein ABI5) and CESC_03736 (heat stress transcription factor C), some of whose potential target genes were found in identified tuber-specific expression genes, indicating that these transcription factor genes may regulate the specific expression of their respective target genes. In summary, the results of this study can provide an important reference for the construction of gene regulatory networks related to tuber development of C. esculentus and the molecular mechanism analysis of tuber-specific gene expression.

Key words: Cyperus esculentus, tuber, transcriptome sequencing, specific expression

张向歌, 陈晨, 程珊, 李春鑫, 朱雅婧, 许欣然, 王会伟. 油莎豆块茎特异性表达基因鉴定及分析. 植物学报, 2025, 60(1): 33-48.

Xiangge Zhang, Chen Chen, Shan Cheng, Chunxin Li, Yajing Zhu, Xinran Xu, Huiwei Wang. Identification and Analysis of Tuber-specific Expression Genes in Cyperus esculentus. Chinese Bulletin of Botany, 2025, 60(1): 33-48.

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Gene	Forward primer (5′-3′)	Reverse primer (5′-3′)
CESC_13967	ACTCTGGTGATGGTGTGAGC	CCCTCTCTCCGTCAGGATCT
CESC_00080	CTACCACCTCTCCGTGCTTC	CTACCACCTCTCCGTGCTTC
CESC_17828	GCACCAGAGAGAAGGACAGC	GCACCAGAGAGAAGGACAGC
CESC_00330	GACAAACCATCACCACAGCG	ATCACCAGCATCTTCCCGTC
CESC_18197	GCCACTCCATTCCGATTTGC	GCGTGAAGTTGCCGATGATG
CESC_16081	CGGGTCAACAGAAGAAGGAGC	CGTCGACAGTCTTGTTCTCC
CESC_03736	GGATTCGGTGATCTCGTGGG	CAGCTCTATCAGCCTCGCTT

Gene	Forward primer (5′-3′)	Reverse primer (5′-3′)
CESC_13967	ACTCTGGTGATGGTGTGAGC	CCCTCTCTCCGTCAGGATCT
CESC_00080	CTACCACCTCTCCGTGCTTC	CTACCACCTCTCCGTGCTTC
CESC_17828	GCACCAGAGAGAAGGACAGC	GCACCAGAGAGAAGGACAGC
CESC_00330	GACAAACCATCACCACAGCG	ATCACCAGCATCTTCCCGTC
CESC_18197	GCCACTCCATTCCGATTTGC	GCGTGAAGTTGCCGATGATG
CESC_16081	CGGGTCAACAGAAGAAGGAGC	CGTCGACAGTCTTGTTCTCC
CESC_03736	GGATTCGGTGATCTCGTGGG	CAGCTCTATCAGCCTCGCTT

Samples	Clean reads	Clean bases	Q20 (%)	Q30 (%)	Mapped reads	Mapped ratio (%)
Root	57066812	8330335323	97.86	93.98	51517757	90.26
Leaf	54318808	7949486769	97.59	93.40	48848097	89.92
Tillering node	57497577	8370290261	97.26	93.71	51548858	89.66
Stolon	58790213	8560106850	97.72	93.68	52822328	89.85
Tuber	58869179	8582198623	97.65	94.56	52938611	89.93

Samples	Clean reads	Clean bases	Q20 (%)	Q30 (%)	Mapped reads	Mapped ratio (%)
Root	57066812	8330335323	97.86	93.98	51517757	90.26
Leaf	54318808	7949486769	97.59	93.40	48848097	89.92
Tillering node	57497577	8370290261	97.26	93.71	51548858	89.66
Stolon	58790213	8560106850	97.72	93.68	52822328	89.85
Tuber	58869179	8582198623	97.65	94.56	52938611	89.93

Gene	Expression level (FPKM)					Gene	Expression level (FPKM)
Gene	Tuber	Root	Leaf	Stolon	Tillering node	Gene	Tuber	Root	Leaf	Stolon	Tillering node
CESC_17828	34980.30	0.19	0.51	9.23	6.20	CESC_06642	449.61	0.00	3.36	0.08	0.04
CESC_14076	24917.54	0.36	0.42	1.24	0.54	CESC_11684	424.54	2.11	0.12	2.17	0.94
CESC_08636	23808.18	0.00	2.95	1.11	1.38	CESC_00836	424.00	1.18	5.61	0.00	0.57
CESC_16708	20282.53	1.29	4.99	9.63	2.02	CESC_04812	394.97	0.00	0.51	0.02	0.52
CESC_14073	15607.24	0.13	0.50	1.73	7.62	CESC_19053	392.95	0.00	0.00	0.00	0.00
CESC_10265	8803.59	0.59	4.34	0.64	4.16	CESC_13856	384.53	4.48	1.53	3.09	2.19
CESC_13913	6560.83	0.09	0.02	0.06	0.13	CESC_05739	373.39	0.11	0.00	0.00	0.00
CESC_13892	6062.31	0.21	0.18	0.49	0.27	CESC_15162	373.06	2.23	1.79	1.55	1.20
CESC_14077	5890.09	1.05	0.06	0.51	0.77	CESC_21269	357.90	0.00	0.00	0.13	0.03
CESC_00080	4834.92	0.91	0.00	0.03	0.37	CESC_12660	335.49	4.32	2.69	4.42	1.52
CESC_12549	4632.55	0.00	0.03	0.00	0.00	CESC_15141	309.91	0.34	0.04	0.38	0.06
CESC_00832	3760.05	0.05	0.03	0.00	0.20	CESC_15826	293.80	0.44	3.71	1.88	1.94
CESC_15373	3721.68	6.39	6.24	4.11	6.27	CESC_15198	269.77	2.29	2.45	5.19	1.98
CESC_10351	3695.94	0.05	0.00	0.60	0.19	CESC_03736	268.07	0.77	7.39	3.50	8.35
CESC_18271	3694.18	1.46	1.25	3.06	1.59	CESC_21099	239.33	0.00	0.71	0.66	3.22
CESC_21136	3589.62	0.09	0.03	0.00	0.29	CESC_15700	239.04	0.00	2.84	0.90	0.37
CESC_07796	3057.85	0.02	0.06	0.19	0.09	CESC_05388	226.51	1.01	5.53	6.37	2.14
CESC_15694	2900.48	0.27	0.62	0.61	1.47	CESC_16081	208.50	0.00	0.00	0.22	0.38
CESC_03859	1780.16	0.06	0.00	0.26	0.92	CESC_21299	202.95	9.12	0.16	9.83	9.53
CESC_15801	1779.19	0.00	0.00	0.00	0.04	CESC_06038	197.18	0.08	0.24	0.56	1.48
CESC_19612	1385.35	0.00	0.04	0.17	0.02	CESC_13442	192.86	0.00	0.10	0.07	0.02
CESC_08819	1367.03	0.02	0.11	4.98	3.09	CESC_13439	187.91	0.00	0.00	0.13	0.25
CESC_18197	1341.87	3.87	0.03	0.28	0.14	CESC_16862	182.94	3.01	1.50	3.14	3.01
CESC_08728	1103.89	0.00	0.30	0.05	0.04	CESC_16946	174.53	0.28	1.54	4.13	6.34
CESC_17427	906.81	0.49	0.48	0.55	0.98	CESC_12770	173.37	0.06	0.04	0.00	0.00
CESC_17492	882.14	0.26	1.39	0.89	1.05	CESC_01552	165.58	0.86	0.35	0.29	1.30
CESC_17960	855.95	0.00	0.00	0.13	0.02	CESC_22280	164.99	0.01	1.64	3.39	1.20
CESC_08729	799.26	0.00	0.07	0.00	0.01	CESC_19187	163.80	0.79	0.54	0.61	0.23
CESC_12402	780.10	0.00	0.15	2.10	0.99	CESC_06173	160.18	0.00	0.16	0.03	0.00
CESC_14954	746.41	0.64	0.42	0.10	5.62	CESC_06081	156.16	0.12	0.22	1.02	0.41
CESC_08129	744.59	0.06	0.02	0.56	0.14	CESC_06747	155.97	0.00	0.00	0.00	0.00
CESC_21264	741.47	0.00	0.08	0.00	0.01	CESC_12819	149.97	0.00	0.00	0.00	0.00
CESC_15594	641.08	1.91	1.19	1.34	3.11	CESC_02836	146.94	0.08	0.15	2.06	0.23
CESC_23526	629.26	0.00	0.04	0.00	0.00	CESC_05881	145.16	0.38	0.79	0.45	0.11
CESC_08481	628.51	0.08	0.00	0.15	0.11	CESC_02522	138.38	0.08	0.04	0.04	0.04
CESC_10473	599.12	3.10	0.03	5.20	1.41	CESC_18879	122.55	0.02	0.09	2.88	1.18
CESC_00650	581.33	0.21	1.43	0.48	0.66	CESC_19366	117.03	2.24	0.67	4.73	3.77
CESC_19809	503.39	3.58	0.51	2.10	3.52	CESC_09038	116.42	1.54	0.23	7.88	2.86
CESC_19929	496.40	0.00	0.00	0.00	0.01	CESC_16522	115.51	5.22	0.32	6.70	7.14
CESC_02314	487.86	0.01	0.00	0.17	0.11	CESC_16067	112.60	0.00	0.01	0.39	0.12
CESC_22878	467.04	0.28	0.21	0.88	3.23	CESC_21164	108.78	1.17	0.10	2.93	5.67
CESC_14581	106.85	0.00	0.08	0.00	0.12	CESC_20039	28.25	0.08	0.01	0.48	0.42
CESC_00606	106.35	0.05	2.56	0.18	0.65	CESC_05180	27.12	0.00	0.52	1.24	0.88
CESC_19685	101.57	0.10	0.08	0.05	0.07	CESC_08911	24.85	0.00	0.29	0.00	0.17
CESC_18501	100.73	0.13	0.00	0.06	0.01	CESC_14442	24.83	0.02	0.23	0.05	0.49
CESC_13203	98.13	0.06	0.00	2.70	3.72	CESC_07266	23.62	0.00	0.00	0.05	0.07
CESC_03998	92.03	1.35	0.80	1.19	0.84	CESC_16550	23.51	0.59	2.35	2.13	0.42
CESC_00033	91.70	0.02	0.06	2.20	0.67	CESC_07944	22.65	0.26	0.11	0.07	0.73
CESC_08253	90.37	0.12	0.00	0.00	0.00	CESC_09860	22.32	0.00	0.00	0.00	0.02
CESC_16780	89.47	3.47	0.56	2.98	2.45	CESC_21859	21.75	0.02	0.00	0.00	0.00
CESC_17762	89.08	4.78	0.16	2.53	3.16	CESC_00937	21.12	0.00	2.02	0.34	0.04
CESC_01315	87.53	2.04	6.90	0.87	0.70	CESC_22858	20.65	0.08	2.06	0.11	0.12
CESC_20841	87.40	1.66	0.24	0.12	3.91	CESC_07385	20.53	0.00	0.00	0.09	0.26
CESC_03712	83.29	0.00	0.07	0.03	0.06	CESC_14874	20.18	0.00	0.22	1.12	0.16
CESC_07763	77.09	2.08	3.42	5.30	2.33	CESC_05835	19.57	0.06	0.00	0.10	0.14
CESC_15211	76.33	0.38	0.03	0.20	0.09	CESC_07703	19.26	0.76	0.09	1.76	1.75
CESC_16572	74.95	0.00	0.00	0.00	0.01	CESC_09861	18.86	0.65	0.48	0.00	0.05
CESC_00448	70.32	5.66	2.95	5.91	2.01	CESC_03897	17.96	0.40	0.61	0.22	0.06
CESC_23041	68.12	0.00	0.02	1.45	1.87	CESC_00298	16.93	0.00	0.06	0.04	0.06
CESC_00990	68.06	0.36	0.42	4.76	6.24	CESC_08232	16.93	1.39	0.30	0.44	1.59
CESC_12231	67.00	0.94	1.19	5.59	2.33	CESC_07388	16.85	0.00	0.07	0.00	0.05
CESC_00330	66.87	0.10	0.03	0.40	0.25	CESC_21561	16.68	0.05	0.28	0.81	0.85
CESC_10266	65.28	0.00	0.00	0.05	0.00	CESC_11936	16.57	0.00	0.74	0.00	0.20
CESC_18500	59.91	0.00	0.00	0.05	0.02	CESC_16352	16.33	0.02	0.21	0.05	0.00
CESC_18904	59.67	0.59	0.05	0.27	0.10	CESC_04055	16.19	0.00	0.00	0.00	0.04
CESC_18474	58.76	0.61	0.15	0.00	0.00	CESC_21332	16.12	0.01	0.00	0.16	0.10
CESC_15687	58.13	0.72	4.91	1.77	0.88	CESC_04595	15.92	0.14	0.00	0.15	1.08
CESC_19611	56.45	0.00	0.05	0.00	0.00	CESC_08350	15.26	1.35	0.05	0.13	0.09
CESC_16328	55.34	1.70	0.71	1.67	0.74	CESC_12816	14.80	0.02	0.79	0.44	0.16
CESC_03405	55.28	0.20	0.03	0.32	0.27	CESC_15370	14.50	0.04	0.93	0.79	1.23
CESC_18761	54.94	0.78	0.12	3.31	1.48	CESC_19797	14.45	0.24	0.09	0.76	0.28
CESC_21600	53.08	0.00	0.08	0.00	0.02	CESC_01169	14.17	0.00	0.04	0.09	0.04
CESC_16965	52.69	0.35	0.65	0.86	2.69	CESC_18475	13.22	0.60	0.11	0.09	0.06
CESC_04051	51.21	0.00	0.04	0.06	0.03	CESC_18599	12.86	0.00	0.00	0.00	0.01
CESC_06673	47.23	0.00	0.51	0.02	0.00	CESC_00742	11.88	0.58	0.33	0.58	0.21
CESC_05193	40.93	0.00	1.38	0.11	0.04	CESC_11046	11.62	0.02	0.34	0.78	0.39
CESC_21100	40.35	0.00	0.00	0.00	0.09	CESC_01166	10.25	0.22	0.22	0.43	0.25
CESC_21308	32.28	1.24	1.62	0.57	2.02

油莎豆块茎特异性表达基因鉴定及分析

Identification and Analysis of Tuber-specific Expression Genes in Cyperus esculentus

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