高温胁迫下陆地棉转录组差异性分析

doi:10.6048/j.issn.1001-4330.2023.11.003

摘要/Abstract

摘要：

【目的】 研究陆地棉高温胁迫下关键基因的响应,比较基因表达差异,为揭示陆地棉高温胁迫响应的分子机制提供参考。【方法】 利用RNA-Seq对正常温度(26℃)和高温胁迫(42℃)的陆地棉品系YZ1进行转录组测序和数据分析。【结果】 在WN4/WH4,WN12/WH12,WN24/WH24,WN48/WH48共鉴定出383个共有上调基因和234个共有下调基因。将差异基因按GO功能分类,主要富集到上调差异基因和下调差异基因20个类别;差异基因显著富集到类黄酮生物合成途径、苯丙烷代谢、昼夜节律-植物、内质网加工等通路;鉴定出39个转录因子,主要是WRKY和MYB两大家族;Gohir.A08G104100是高温胁迫主要的基因,对植物的耐热性至关重要,Gohir.D08G033300是质体类异戊二烯生物合成的限制酶,对叶绿体发育至关重要。2个差异基因在整个时期表达量差异倍数较为显著。【结论】 高温胁迫和正常温度下在不同时间段,陆地棉的基因转录表达差异。

关键词: RNA-Seq; 陆地棉; 高温胁迫; 差异表达; 代谢通路

Abstract:

【Objective】 To explore the response of key genes to heat stress and compare the differences of gene expression.【Methods】 RNA-Seq was used to sequence and analyze the transcriptome of YZ1 unde²r normal(26℃)and high temperature stress(42℃).【Results】 Gohir.A08G10410A total of 383 up-regulated genes and 234 down regulated genes were identified in WN4/WH4, WN12/WH12, WN24/WH24 and WN48/WH48. According to GO function, the differential genes were mainly enriched into 20 categories, namely, up-regulated differential genes and down-regulated differential genes. According to KEGG function analysis, the differential genes were significantly enriched in flavonoid biosynthesis pathway, phenylalanine metabolism, circadian rhythm-plant and endoplasmic reticulum processing and other pathways. 39 transcription factors were identified, mainly belonging to WRKY and MYB families; Combined with gene annotation, it was found that the expression levels of these two genes were significantly different in the whole period. Gohir.A08G104100 was the main gene of heat stress, which was crucial to the heat tolerance of plants, while Gohir. D08G033300 was a limiting enzyme for plastid isoprene biosynthesis and was critical for chloroplast development.【Conclusion】 Through comparative transcriptome analysis, the difference of gene transcription expression between upland cotton under high temperature stress and normal temperature is compared.

Key words: RNA-Seq; Gossypium hirsutum; heat stress; differential expression; metabolic pathway

中图分类号:

S562

王辉, 董永梅, 郭伟锋, 曹新川, 郭金成, 谢宗铭, 何良荣. 高温胁迫下陆地棉转录组差异性分析[J]. 新疆农业科学, 2023, 60(11): 2618-2626.

WANG Hui, DONG Yongmei, GUO Weifeng, CAO Xinchuan, GUO Jincheng, XIE Zongming, HE Liangrong. Analysis of the difference of transcription groups of upland cotton under heat stress[J]. Xinjiang Agricultural Sciences, 2023, 60(11): 2618-2626.

图/表 8

参考文献 31

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碱基质量值分值 Quality phred	不正确的碱基识别 Incorrect base identification	碱基正确识别率 Correct base recognition rate(%)
Q10	1/10	90
Q20	1/100	99
Q30	1/1000	99.90
Q40	1/10000	99.99

碱基质量值分值 Quality phred	不正确的碱基识别 Incorrect base identification	碱基正确识别率 Correct base recognition rate(%)
Q10	1/10	90
Q20	1/100	99
Q30	1/1000	99.90
Q40	1/10000	99.99

基因序号Gene_id	基因名称Gene name	描述Description	调控Regulation
Gohir.A11G135500	HSP15.7	15.7 k Da heat shock protein, peroxisomal	down
Gohir.A05G091600	HSP17.3-B	17.3 k Da class I heat shock protein	down
Gohir.D05G092500	HSP17.3-B	17.3 k Da class I heat shock protein	down
Gohir.D05G139900	HSP17.4B	17.4 k Da class ⅡI heat shock protein	down
Gohir.D06G084500	HSP17.6	17.6 k Da class Ⅱ heat shock protein	down
Gohir.D07G106100	HSP18.5-C	18.5 k Da class I heat shock protein	down
Gohir.A08G104100	HSP22	Small heat shock protein, chloro-plastic	down
Gohir.D05G127000	HSP26.5	26.5 k Da heat shock protein, mitochondrial	down
Gohir.D05G096900	HSP70	Heat shock cognate 70 k Da protein	down
Gohir.A13G234100	HSP70	Heat shock 70 k Da protein	down
Gohir.D13G239700	HSP70	Heat shock 70 k Da protein	down
Gohir.D09G208200	HSP70-7	Heat shock 70 k Da protein 7, chloro-plastic	down
Gohir.D09G212600	HSP70-7	Heat shock 70 k Da protein 7, chloro-plastic	down
Gohir.A12G254100	HSP83A	Heat shock protein 83	down
Gohir.D08G135400	HSP83A	Heat shock protein 83	down
Gohir.D03G148100	HSP83A	Heat shock protein 83	down
Gohir.D12G256400	HSP83A	Heat shock protein 83	down

基因序号Gene_id	基因名称Gene name	描述Description	调控Regulation
Gohir.A11G135500	HSP15.7	15.7 k Da heat shock protein, peroxisomal	down
Gohir.A05G091600	HSP17.3-B	17.3 k Da class I heat shock protein	down
Gohir.D05G092500	HSP17.3-B	17.3 k Da class I heat shock protein	down
Gohir.D05G139900	HSP17.4B	17.4 k Da class ⅡI heat shock protein	down
Gohir.D06G084500	HSP17.6	17.6 k Da class Ⅱ heat shock protein	down
Gohir.D07G106100	HSP18.5-C	18.5 k Da class I heat shock protein	down
Gohir.A08G104100	HSP22	Small heat shock protein, chloro-plastic	down
Gohir.D05G127000	HSP26.5	26.5 k Da heat shock protein, mitochondrial	down
Gohir.D05G096900	HSP70	Heat shock cognate 70 k Da protein	down
Gohir.A13G234100	HSP70	Heat shock 70 k Da protein	down
Gohir.D13G239700	HSP70	Heat shock 70 k Da protein	down
Gohir.D09G208200	HSP70-7	Heat shock 70 k Da protein 7, chloro-plastic	down
Gohir.D09G212600	HSP70-7	Heat shock 70 k Da protein 7, chloro-plastic	down
Gohir.A12G254100	HSP83A	Heat shock protein 83	down
Gohir.D08G135400	HSP83A	Heat shock protein 83	down
Gohir.D03G148100	HSP83A	Heat shock protein 83	down
Gohir.D12G256400	HSP83A	Heat shock protein 83	down

记录号 Accession	项目 Term	输入基因数目 Input Gene Number	所有基因数目 All Gene Number	P值 P-value	Q值 Q-value
ko00941	Flavonoid biosynthesis	20 (14.60%)	81 (0.57%)	8.40E-25	2.90E-23
ko01110	Biosynthesis of secondary metabolites	62 (45.26%)	2,573 (18.15%)	5.40E-14	1.20E-12
ko00360	Phenylalanine metabolism	10 (7.30%)	104 (0.73%)	4.80E-09	5.50E-08
ko04915	Estrogen signaling pathway	9 (6.57%)	89 (0.63%)	1.40E-08	1.30E-07
ko01100	Metabolic pathways	76 (55.47%)	4,904 (34.59%)	1.70E-07	1.30E-06
ko04612	Antigen processing and presentation	10 (7.30%)	175 (1.23%)	1.00E-06	7.00E-06
ko04940	Type I diabetes mellitus	4 (2.92%)	24 (0.17%)	2.90E-06	1.80E-05
ko05134	Legionellosis	8 (5.84%)	145 (1.02%)	1.10E-05	6.00E-05
ko04621	NOD-like receptor signaling pathway	4 (2.92%)	32 (0.23%)	1.30E-05	6.30E-05
ko04141	Protein processing in endoplasmic reticulum	17 (12.41%)	593 (4.18%)	1.60E-05	7.30E-05
ko00072	Synthesis and degradation of ketone bodies	3 (2.19%)	17 (0.12%)	1.80E-05	7.30E-05
ko04712	Circadian rhythm-plant	7 (5.11%)	120 (0.85%)	2.10E-05	8.00E-05