Genome-wide identification and expression analysis of LOX gene family in eggplant (Solanum melongena)

doi:10.3969/j.issn.1004-1524.2021.06.07

Acta Agriculturae Zhejiangensis ›› 2021, Vol. 33 ›› Issue (6): 1025-1034.DOI: 10.3969/j.issn.1004-1524.2021.06.07

• Horticultural Science • Previous Articles Next Articles

Genome-wide identification and expression analysis of LOX gene family in eggplant (Solanum melongena)

ZHAO Guofu¹(), YAN Yaqin², WANG Jinglei², WEI Qingzhen², BAO Chonglai²^,^*()

1. Department of Agricultural and Biological Engineering, Taizhou Vocational College of Science & Technology, Wenling 318020, China
2. Institute of Vegetable, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China

Received:2021-01-20 Online:2021-06-25 Published:2021-06-25
Contact: BAO Chonglai

Abstract

Abstract:

Lipoxygenase (LOX) is a class of non-heme iron-containing dioxygenase which plays important role in plant growth and biotic/abiotic stress tolerance.To explore LOX family genes and their evolutionary relationship in eggplants, twelve candidates, which were distributed on chromosomes 1, 3, 8, and 9, were identified as SmeLOX gene by genome-wide analysis. Phylogenetic analysis showed that SmeLOX genes were classified into three categories (9-LOX, type I 13-LOX, and type II 13-LOX). In addition, real-time quantitative PCR analysis demonstrated that only the expression of SmeLOX1, SmeLOX4, SmeLOX6, and SmeLOX8 were detected in all tissues of eggplant, including roots, stems, leaves, flowers and fruits. Overall, this study provided scientific basis for further function analysis of the SmeLOX genes during growth and development of eggplant.

Key words: eggplant (Solanum melongena), SmeLOX gene, phylogenetic analysis, gene expression

CLC Number:

S641.1

ZHAO Guofu, YAN Yaqin, WANG Jinglei, WEI Qingzhen, BAO Chonglai. Genome-wide identification and expression analysis of LOX gene family in eggplant (Solanum melongena)[J]. Acta Agriculturae Zhejiangensis, 2021, 33(6): 1025-1034.

Figures/Tables 7

References 32

[1]	BRASH A R. Lipoxygenases: occurrence, functions, catalysis, and acquisition of substrate[J]. The Journal of Biological Chemistry, 1999,274(34):23679-23682. DOI URL
[2]	LIAVONCHANKA A, FEUSSNER I. Lipoxygenases: occurrence, functions and catalysis[J]. Journal of Plant Physiology, 2006,163(3):348-357. DOI URL
[3]	ANDREOU A, FEUSSNER I. Lipoxygenases: structure and reaction mechanism[J]. Phytochemistry, 2009,70(13/14):1504-1510. DOI URL
[4]	曹嵩晓, 张冲, 汤雨凡, 等. 植物脂氧合酶蛋白特性及其在果实成熟衰老和逆境胁迫中的作用[J]. 植物生理学报, 2014,50(8):1096-1108.
	CAO S X, ZHANG C, TANG Y F, et al. Protein characteristic of the plant lipoxygenase and the function on fruit ripening and senescence and adversity stress[J]. Plant Physiology Journal, 2014,50(8):1096-1108.(in Chinese with English abstract)
[5]	BANNENBERG G, MARTÍNEZ M, HAMBERG M, et al. Diversity of the enzymatic activity in the lipoxygenase gene family of Arabidopsis thaliana[J]. Lipids, 2008,44(2):85-95. DOI URL
[6]	MELAN M A, DONG X, ENDARA M E, et al. An Arabidopsis thaliana lipoxygenase gene can be induced by pathogens, abscisic acid, and methyl jasmonate[J]. Plant Physiology, 1993,101(2):441-450. DOI URL
[7]	BELL E, CREELMAN R A, MULLET J E. A chloroplast lipoxygenase is required for wound-induced jasmonic acid accumulation in Arabidopsis[J]. Proceedings of the National Academy of Sciences, 1995,92(19):8675-8679. DOI URL
[8]	CHAUVIN A, CALDELARI D, WOLFENDER J L, et al. Four 13-lipoxygenases contribute to rapid jasmonate synjournal in wounded Arabidopsis thaliana leaves: a role for lipoxygenase 6 in responses to long-distance wound signals[J]. New Phytologist, 2013,197(2):566-575. DOI URL
[9]	FERRIE B J, BEAUDOIN N, BURKHART W, et al. The cloning of two tomato lipoxygenase genes and their differential expression during fruit ripening[J]. Plant Physiology, 1994,106(1):109-118. DOI URL
[10]	GRIFFITHS A, BARRY C, ALPUCHE-SOLIS A G, et al. Ethylene and developmental signals regulate expression of lipoxygenase genes during tomato fruit ripening[J]. Journal of Experimental Botany, 1999,50(335):793-798. DOI URL
[11]	HEITZ T, BERGEY D R, RYAN C A. A gene encoding a chloroplast-targeted lipoxygenase in tomato leaves is transiently induced by wounding, systemin, and methyl jasmonate[J]. Plant Physiology, 1997,114(3):1085-1093. DOI URL
[12]	CHEN G P, HACKETT R, WALKER D, et al. Identification of a specific isoform of tomato lipoxygenase (TomloxC) involved in the generation of fatty acid-derived flavor compounds[J]. Plant Physiology, 2004,136(1):2641-2651. DOI URL
[13]	HU T Z, HU Z L, ZENG H, et al. Tomato lipoxygenase D involved in the biosynjournal of jasmonic acid and tolerance to abiotic and biotic stress in tomato[J]. Plant Biotechnology Reports, 2015,9(1):37-45. DOI URL
[14]	MARIUTTO M, DUBY F, ADAM A, et al. The elicitation of a systemic resistance by Pseudomonas putida BTP1 in tomato involves the stimulation of two lipoxygenase isoforms[J]. BMC Plant Biology, 2011,11:29. DOI URL
[15]	LIU S Q, LIU X H, JIANG L W. Genome-wide identification, phylogeny and expression analysis of the lipoxygenase gene family in cucumber[J]. Genetics and Molecular Research, 2011,10(4):2613-2636. DOI URL
[16]	YANG X Y, JIANG W J, YU H J. The expression profiling of the lipoxygenase (LOX) family genes during fruit development, abiotic stress and hormonal treatments in cucumber (Cucumis sativus L.)[J]. International Journal of Molecular Sciences, 2012,13(2):2481-2500. DOI URL
[17]	WANG J L, HU T H, WANG W H, et al. Bioinformatics analysis of the lipoxygenase gene family in radish (Raphanus sativus) and functional characterization in response to abiotic and biotic stresses[J]. International Journal of Molecular Sciences, 2019,20(23):E6095.
[18]	WEI Q Z, WANG J L, WANG W H, et al. A high-quality chromosome-level genome assembly reveals genetics for important traits in eggplant[J]. Horticulture Research, 2020,7:153. DOI URL
[19]	赵国富, 魏庆镇, 汪精磊 , 等. 萝卜(Raphanus sativus)Dof基因家族全基因组鉴定分析[J]. 分子植物育种, 2019,17(23):7683-7691.
	ZHAO G F, WEI Q Z, WANG J L, et al. Genome-wide identification and analysis of the Dof gene family in radish(Raphanus sativus)[J]. Molecular Plant Breeding, 2019,17(23):7683-7691.(in Chinese with English abstract)
[20]	CHEN C J, CHEN H, ZHANG Y, et al. TBtools, a toolkit for biologists integrating various HTS-data handling tools with a user-friendly interface[J]. Molecular Plant, 2020,13(8):1194-1202. DOI URL
[21]	LIVAK K J, SCHMITTGEN T D. Analysis of relative gene expression data using real-time quantitative PCR and the 2(-Delta Delta C(T)) method[J]. Methods, 2001,25(4):402-408. DOI URL
[22]	UMATE P. Genome-wide analysis of lipoxygenase gene family in Arabidopsis and rice[J]. Plant Signaling & Behavior, 2011,6(3):335-338.
[23]	OGUNOLA O F, HAWKINS L K, MYLROIE E, et al. Characterization of the maize lipoxygenase gene family in relation to aflatoxin accumulation resistance[J]. PLoS One, 2017,12(7):e0181265. DOI URL
[24]	SARDE S J, KUMAR A, REMME R N, et al. Genome-wide identification, classification and expression of lipoxygenase gene family in pepper[J]. Plant Molecular Biology, 2018,98(4/5):375-387. DOI URL
[25]	ROYO J, VANCANNEYT G, PÉREZ A G, et al. Characterization of three potato lipoxygenases with distinct enzymatic activities and different organ-specific and wound-regulated expression patterns[J]. Journal of Biological Chemistry, 1996,271(35):21012-21019. DOI URL
[26]	宋辉, 赵术珍, 侯蕾, 等. 野生花生全基因组抗病相关LOX基因的生物信息学分析[J]. 山东农业科学, 2015,47(10):1-7.
	SONG H, ZHAO S Z, HOU L, et al. Bioinformatics analysis on LOX genes related to disease resistance in whole genome of Arachis duranensis and Arachis ipaёnsis[J]. Shandong Agricultural Sciences, 2015,47(10):1-7.(in Chinese with English abstract)
[27]	MINOR W, STECZKO J, STEC B, et al. Crystal structure of soybean lipoxygenase L-1 at 1.4 Å resolution[J]. Biochemistry, 1996,35(33):10687-10701. DOI URL
[28]	沙伟, 任巍巍, 马天意. 脂氧合酶基因在植物中的研究进展[J]. 分子植物育种, 2019,17(24):8102-8107.
	SHA W, REN W W, MA T Y. Research advances of lipoxygenase genes in plants[J]. Molecular Plant Breeding, 2019,17(24):8102-8107.(in Chinese with English abstract)
[29]	HALITSCHKE R, BALDWIN I T. Antisense LOX expression increases herbivore performance by decreasing defense responses and inhibiting growth-related transcriptional reorganization in Nicotiana attenuata[J]. The Plant Journal, 2003,36(6):794-807. DOI URL
[30]	ALLMANN S, HALITSCHKE R, SCHUURINK R C, et al. Oxylipin channelling in Nicotiana attenuata: lipoxygenase 2 supplies substrates for green leaf volatile production[J]. Plant, Cell & Environment, 2010,33(12):2028-2040.
[31]	陈竹. 杨树脂氧合酶(LOX)家族的全基因组分析及PtLOX11基因的功能研究[D]. 合肥: 安徽农业大学, 2017.
	CHEN Z. Genome-wide identification of lipoxygenase gene family in poplar and function analysis of PtLOX11[D]. Hefei: Anhui Agricultural University, 2017. (in Chinese with English abstract)
[32]	张冲. 甜瓜脂氧合酶基因家族成员鉴定、表达调控及CmLOX8在果实香气合成中的作用[D]. 沈阳: 沈阳农业大学, 2016.
	ZHANG C. Identification, expression and regulation of lipoxygenase gene family in melon (Cucumis melo var. makuwa Makino) and the role of CmLOX18 in synthesis of fruit aroma volatiles[D]. Shenyang: Shenyang Agricultural University, 2016. (in Chinese with English abstract)

基因Gene	正向引物Forward primer	反向引物Reverse primer
SmeLOX1	TGGATCATCATGACACAGTC	GGATGAGGAAGGCTTAGTTC
SmeLOX2	ATTGAAACCGTTAGCAATTGAA	CTCAAGACCATCTTCATGTGG
SmeLOX3	AGTAACTGCAGGTGAATCAG	CAAGTGTGAGTGACTTGAGA
SmeLOX4	CCCCCACTTAAAAGAGATAGA	AGCAATTCAGGAGTTCCAAA
SmeLOX5	AGGCCTTAACATTCTCCGGC	ATCTGGTAAATGGACTCCAACG
SmeLOX6	AATCAAACATGTCTGGTCAC	TCCCTAGATTTCTCCACCAA
SmeLOX7	TAAGCAGTTTCTCCTTGACC	CTCGTCTAGAGAATGTGTCG
SmeLOX8	AATTTATGGGTATTTCCCTGC	CCTGAATGCTTCTCTTGTCC
SmeLOX9	AGATTTACCTCGGACAAAGG	CAGTATTTGGTCACCATTCC
SmeLOX10	TGAATGTGTTTCAAGGAAGTG	GCTTTTGATTTTGCATGAGTTT
SmeLOX11	GGAACCATGACACTACAGA	ACTTCGTGAAATCGATCAAG
SmeLOX12	TAGCCAGACCTTTTAACGAG	AAATTTATGCAATTGCCCCC
18S RNA	CGCGCGCTACACTGATGTATTCAA	TACAAAGGGCAGGGACGTAGTCAA

基因Gene	正向引物Forward primer	反向引物Reverse primer
SmeLOX1	TGGATCATCATGACACAGTC	GGATGAGGAAGGCTTAGTTC
SmeLOX2	ATTGAAACCGTTAGCAATTGAA	CTCAAGACCATCTTCATGTGG
SmeLOX3	AGTAACTGCAGGTGAATCAG	CAAGTGTGAGTGACTTGAGA
SmeLOX4	CCCCCACTTAAAAGAGATAGA	AGCAATTCAGGAGTTCCAAA
SmeLOX5	AGGCCTTAACATTCTCCGGC	ATCTGGTAAATGGACTCCAACG
SmeLOX6	AATCAAACATGTCTGGTCAC	TCCCTAGATTTCTCCACCAA
SmeLOX7	TAAGCAGTTTCTCCTTGACC	CTCGTCTAGAGAATGTGTCG
SmeLOX8	AATTTATGGGTATTTCCCTGC	CCTGAATGCTTCTCTTGTCC
SmeLOX9	AGATTTACCTCGGACAAAGG	CAGTATTTGGTCACCATTCC
SmeLOX10	TGAATGTGTTTCAAGGAAGTG	GCTTTTGATTTTGCATGAGTTT
SmeLOX11	GGAACCATGACACTACAGA	ACTTCGTGAAATCGATCAAG
SmeLOX12	TAGCCAGACCTTTTAACGAG	AAATTTATGCAATTGCCCCC
18S RNA	CGCGCGCTACACTGATGTATTCAA	TACAAAGGGCAGGGACGTAGTCAA

基因名称 Gene name	基因位置 Gene code	氨基酸长度 Amino acids length/aa	蛋白质相对分子质量 Molecular weight/u	芳香度 Aromaticity	不稳定指数 Instability index	等电点 Isoelectric point	亲水性 Gravy
SmeLOX1	Smechr0101045.1	843	95 774.44	0.09	40.53	5.85	-0.399
SmeLOX2	Smechr0101046.1	836	95 455.10	0.11	42.00	5.60	-0.410
SmeLOX3	Smechr0101047.1	863	97 961.05	0.10	40.19	5.45	-0.404
SmeLOX4	Smechr0104163.1	898	101 947.77	0.11	40.69	6.05	-0.353
SmeLOX5	Smechr0104167.1	899	101 887.71	0.10	37.98	6.12	-0.385
SmeLOX6	Smechr0300687.1	909	103 351.01	0.09	45.09	8.35	-0.404
SmeLOX7	Smechr0300720.1	793	90 715.48	0.09	53.28	6.14	-0.388
SmeLOX8	Smechr0303656.1	908	102 036.25	0.09	40.27	6.67	-0.349
SmeLOX9	Smechr0800437.1	859	96 846.64	0.10	39.79	5.41	-0.353
SmeLOX10	Smechr0901372.1	846	97 216.76	0.10	45.77	8.54	-0.496
SmeLOX11	Smechr0902151.1	886	100 649.19	0.10	41.35	5.89	-0.363
SmeLOX12	Smechr0902152.1	851	97 626.82	0.10	45.39	5.89	-0.433

基因名称 Gene name	基因位置 Gene code	氨基酸长度 Amino acids length/aa	蛋白质相对分子质量 Molecular weight/u	芳香度 Aromaticity	不稳定指数 Instability index	等电点 Isoelectric point	亲水性 Gravy
SmeLOX1	Smechr0101045.1	843	95 774.44	0.09	40.53	5.85	-0.399
SmeLOX2	Smechr0101046.1	836	95 455.10	0.11	42.00	5.60	-0.410
SmeLOX3	Smechr0101047.1	863	97 961.05	0.10	40.19	5.45	-0.404
SmeLOX4	Smechr0104163.1	898	101 947.77	0.11	40.69	6.05	-0.353
SmeLOX5	Smechr0104167.1	899	101 887.71	0.10	37.98	6.12	-0.385
SmeLOX6	Smechr0300687.1	909	103 351.01	0.09	45.09	8.35	-0.404
SmeLOX7	Smechr0300720.1	793	90 715.48	0.09	53.28	6.14	-0.388
SmeLOX8	Smechr0303656.1	908	102 036.25	0.09	40.27	6.67	-0.349
SmeLOX9	Smechr0800437.1	859	96 846.64	0.10	39.79	5.41	-0.353
SmeLOX10	Smechr0901372.1	846	97 216.76	0.10	45.77	8.54	-0.496
SmeLOX11	Smechr0902151.1	886	100 649.19	0.10	41.35	5.89	-0.363
SmeLOX12	Smechr0902152.1	851	97 626.82	0.10	45.39	5.89	-0.433

基因Gene	根Root	花Flower	叶片Leaf	茎秆Stem	果实Fruit
SmeLOX1	0.10±0.05 gE	1.30±0.05 eB	0.60±0.02 hC	0.30±0.09 efD	2.10±0.06 cA
SmeLOX2	0.30±0.02 fD	1.60±0.09 dA	0.50±0.04 hiC	0 fE	1.30±0.01dB
SmeLOX3	0 gC	0 hC	0.90±0.05 gB	2.01±0.04 bA	2.10±0.10 cA
SmeLOX4	1.60±0.05 dC	3.63±0.12 aA	1.20±0.03 fD	0.76±0.02 dE	2.63±0.23 bB
SmeLOX5	0 gE	2.85±0.09 bA	2.30±0.14 dC	0.72±0.03 dC	0.30±0.06 fgD
SmeLOX6	3.20±0.07 bA	0.30±0.05 fD	0.40±0.02 iD	1.69±0.16 cB	0.86±0.04 eC
SmeLOX7	3.60±0.19 aA	0.50±0.03 fC	0.20±0.04 iD	0 fE	1.23±0.08 dB
SmeLOX8	0.62±0.04 eD	3.01±0.12 bB	1.90±0.03 eC	3.70±0.27 aB	6.30±0.27 aA
SmeLOX9	0 gD	2.65±0.15 cA	1.89±0.05 eB	0.30±0.07 efC	0.46±0.05 fC
SmeLOX10	2.60±0.11 cA	0 gC	2.60±0.16 cA	0.16±0.05 fC	2.35±0.01 cB
SmeLOX11	1.50±0.02 dB	0.50±0.05 gD	4.60±0.15 aA	1.30±0.03 dC	0 hE
SmeLOX12	0 gC	0 gC	4.20±0.13 bA	0.55±0.02 efB	0.23±0.01 gC

Genome-wide identification and expression analysis of LOX gene family in eggplant (Solanum melongena)

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