低温胁迫下红榄李(Lumnitzera littorea)DEAD-box RNA解旋酶基因的表达分析

doi:10.11978/2022061

Abstract

Abstract:

Transcriptome differential analysis revealed that the DEAD-box RNA helicase family plays an important role in the response of Lumnitzera littorea to low temperature stress. In this study, we analyzed the bioinformatic properties, tissue-specific expression and differential expression of four genes, LlDEAD12, LlDEAD32, LlDEAD43 and LlDEAD65, in L. littorea seedlings under low temperature treatments. The results showed that LlDEAD12, LlDEAD32, LlDEAD43, and LlDEAD65 are hydrophobic proteins with secondary structures consisting of α-helix, β-turn, extended chain and irregular coiling, with many glycosylation sites and phosphorylation sites, and do not contain transmembrane structural domains or signal peptides. Subcellular localization analysis showed that LlDEAD12 and LlDEAD32 are localized in the cytoplasm and nucleus, respectively, while LlDEAD43 and LlDEAD65 are localized in the mitochondria. Comparative analysis of protein amino acid sequences indicated that LlDEAD12, LlDEAD32 and LlDEAD43 had similar affinities to DEAD-box RNA helicase enzymes of Pinus massoniana, Eucalyptus grandis and Punica granatum, respectively. Analysis of the tissue expression specificity of the four genes by fluorescence quantitative PCR revealed that LlDEAD12 and LlDEAD32 highly expressed in leaves, while LlDEAD43 and LlDEAD65 highly expressed in stems and flowers, and none of the four genes expressed in roots, indicating that the regulation of growth and development of L. littorea by these four genes was mainly concentrated in leaf, stem and flower organs. The expression of these four genes was significantly suppressed in L. littorea seedlings under low temperature stress, indicating that these four genes are involved in the molecular response of L. littorea under cold temperature environment, among which LlDEAD12 and LlDEAD32 may be involved in chloroplast development, and LlDEAD43 and LlDEAD65 may be involved in maintaining the stability of mitochondrial function. Our results provide a scientific foundation for the breeding of cold-resistant seedlings of L. littorea.

Key words: mangrove, Lumnitzera littorea, DEAD-box RNA helicase enzyme, cold stress, bioinformatics analysis

CLC Number:

Q943.2

HAO Lulu, KE Mingsi, ZHU Yixiu, XU Yanmin, ZHANG Ying, ZHENG Chunfang. Expression of DEAD-box RNA helicase enzyme genes in Lumnitzera littorea under low temperature stress[J].Journal of Tropical Oceanography, 2022, 41(6): 44-55.

Figures/Tables 14

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References 52

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网站	功能	网址链接	参数设置
ExPASy ProtParam	理化性质分析	https://web.expasy.org/protparam/	默认参数
PSORT	亚细胞定位分析	https://www.genscript.com/psort.html?src=leftbar	默认参数
ProtScale	亲水性分析	https://web.expasy.org/cgi-bin/protscale/protscale.pl	Hphob./Kyte & Doolittle, Window size: 9; Weight variation model:linear
SOPMA	二级结构分析	https://npsa-prabi.ibcp.fr/cgi-bin/npsa_automat.pl?page=npsa_sopma.html	Number of conformational states: 4; Similarity threshold: 8; Window width: 17
TMHMM	跨膜结构分析	https://services.healthtech.dtu.dk/service.php?TMHMM-2.0	默认参数
SWISS-MODEL	三级结构分析	https://swissmodel.expasy.org/interactive	默认参数
SignalP4.1	信号肽分析	https://services.healthtech.dtu.dk/service.php?SignalP-4.1	Organism group: Eukaryotes; D-cutoff values: Default; Output format: Standard; Method: Input sequences may include TM regions
NetPhos3.1	磷酸化位点分析	https://services.healthtech.dtu.dk/service.php?NetPhos-3.1	Residues to predict: all three;
NetNGlyc1.0	糖基化位点分析	https://services.healthtech.dtu.dk/service.php?NetNGlyc-1.0	默认设置

引物	引物序列(5′-3′)	引物长度/bp
AthU6-F	ACATCCGATAAAATTGGAACGA	168
AthU6-R	TTTTTTTGGACCATTTCTCGAT	168
LlDEAD12-F	GGCTATGACTACCGCAATCTC	237
LlDEAD12-R	GCCCTTTCAACACTATGCTTCT	237
LlDEAD32-F	CTGTTGTGCTCTGCCCCA	204
LlDEAD32-R	CCATGTTCCCATCTTCAATATG	204
LlDEAD43-F	ATCCTTCCATAGGCGTTCA	105
LlDEAD43-R	TTCCAGGGGTAGCCACAA	105
LlDEAD65-F	CGGGCAGATTGGTGGATT	165
LlDEAD65-R	TGGTCTGTCTTTCACCTCGG	165

扩增程序		成份	体积/μL
95℃ 10min		2xqPCRmix	10
95℃ 10s	40cycle	F引物(10pmol·μL^-1)	0.5
60℃ 60s	40cycle	R引物(10pmol·μL^-1)	0.5
95℃ 5s		DNA 模板	2
60℃ 5s	每升温0.5℃检测一次	ddH₂O	7
95℃ 5s	每升温0.5℃检测一次	total	20

理化指标	蛋白质
理化指标	LlDEAD12	LlDEAD32	LlDEAD43	LlDEAD65
氨基酸的数量	1546	2619	2144	3302
分子量/Da	129345.23	220714.18	176455.64	276389.07
等电点	4.94	4.82	4.94	4.82
稳定指数	56.86	51.35	38.34	47.32
脂肪指数	27.04	31.54	29.24	31.8
亲水性总平均值	0.915	0.882	0.711	0.864
原子总数	16283	28285	22738	35465
亚细胞定位	细胞质	细胞核	线粒体	线粒体

	α-螺旋	延伸链	β-转角	无规则卷曲
LlDEAD12	42.82%	21.68%	5.96%	42.82%
LlDEAD32	41.38%	20.69%	4.68%	33.25%
LlDEAD43	33.21%	16.15%	6.35%	44.28%
LlDEAD65	37.25%	16.40%	5.67%	40.69%

Expression of DEAD-box RNA helicase enzyme genes in Lumnitzera littorea under low temperature stress

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