Genome-wide identification and bioinformatics analysis of SWEET gene family in melon

doi:10.3969/j.issn.1004-1524.20220943

Acta Agriculturae Zhejiangensis ›› 2023, Vol. 35 ›› Issue (7): 1591-1603.DOI: 10.3969/j.issn.1004-1524.20220943

• Horticultural Science • Previous Articles Next Articles

Genome-wide identification and bioinformatics analysis of SWEET gene family in melon

SHOU Weisong(), HE Yanjun, SHEN Jia, XU Xinyang

Institute of Vegetables, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, China

Received:2022-06-23 Online:2023-07-25 Published:2023-08-17

Abstract

Abstract:

Sugars will eventually be exported transporter (SWEET) is a novel family of sugar transporters that are involved in plant growth and development, plant-pathogen interaction, and stress tolerance. Due to the lack of reports of SWEET family genes in melon, this study carried out the genome-wide identification and bioinformatics analysis of CmSWEET. A total of 17 melon CmSWEET genes were identified by homology search. These genes that distributed on 8 chromosomes all have a typical MtN3/saliva domain. Phylogenetic analysis classified the SWEET proteins of Arabidopsis, cucumber and melon into four evolutionary clades, of which subfamily Ⅲ is unique to melon and cucumber. The cis-acting elements in the gene promoter region showed that CmSWEET contains many regulatory elements related to plant hormones and stress, suggesting that CmSWEET plays an important role in regulating growth and environmental adaptation in melon. Tissue-specific analysis showed that most of the CmSWEET genes were highly expressed in female and male flowers and roots, and some CmSWEET genes were highly expressed during fruit development. Furthermore, RNA-Seq results suggested that CmSWEET genes might be involved in resistance to Fusarium oxysporum and powdery mildew infection. This study lays a solid foundation for future research into their molecular function of CmSWEET in melon developmental processes and responses to biotic and abiotic stresses.

Key words: melon, sugars will eventually be exported transporter, genome-wide identification, phylogenetic analysis

CLC Number:

S652

SHOU Weisong, HE Yanjun, SHEN Jia, XU Xinyang. Genome-wide identification and bioinformatics analysis of SWEET gene family in melon[J]. Acta Agriculturae Zhejiangensis, 2023, 35(7): 1591-1603.

Figures/Tables 11

References 34

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基因名称 Gene name	基因ID Gene ID	染色体位置 Chromosome location	氨基酸长度 Protein length/aa	跨膜结构域 Transmembrane domains	亚细胞定位 Subcellular localization	蛋白分子量 Molecular weight/ku	等电点 Isoelectric point
CmSWEET01	MELO3C027076.2	chr00 : 2 331 064.. 2 333 983 (+)	204	4	细胞膜 Plasma membrane	22.53	8.38
CmSWEET02	MELO3C000200.2	chr00 : 10 680 046.. 10 682 566 (+)	193	4	液泡膜 Vocuole membrane	21.61	8.02
CmSWEET03	MELO3C026184.2	chr02 : 26 865 472.. 26 867 397 (-)	296	7	细胞膜 Plasma membrane	33.01	9.59
CmSWEET04	MELO3C026183.2	chr02 : 26 872 431.. 26 874 105 (-)	297	7	细胞膜 Plasma membrane	33.35	8.69
CmSWEET05	MELO3C008417.2	chr03 : 5 749 431.. 5 757 783 (+)	252	7	细胞膜 Plasma membrane	27.66	4.50
CmSWEET06	MELO3C009951.2	chr04 : 27 842 743.. 27 847 975 (-)	248	7	细胞膜 Plasma membrane	28.20	8.90
CmSWEET07	MELO3C009950.2	chr04 : 27 855 027.. 27 857 570 (-)	234	7	细胞膜 Plasma membrane	26.02	8.66
CmSWEET08	MELO3C008674.2	chr05 : 16 922 222.. 16 926 703 (-)	262	7	细胞膜 Plasma membrane	30.09	9.34
CmSWEET09	MELO3C031232.2	chr05 : 16 940 142.. 16 943 300 (-)	212	6	细胞膜 Plasma membrane	24.30	10.20
CmSWEET10	MELO3C004222.2	chr05 : 25 333 995.. 25 335 673 (-)	151	5	液泡膜 Vacuole membrane	16.59	8.84
CmSWEET11	MELO3C016259.2	chr07 : 22 840 158.. 22843162 (+)	262	7	细胞膜 Plasma membrane	29.08	9.28
CmSWEET12	MELO3C005758.2	chr09 : 24023344.. 24025966 (+)	265	7	细胞膜 Plasma membrane	29.15	10.04
CmSWEET13	MELO3C005869.2	chr09 : 24871177.. 24874018 (+)	208	5	细胞膜 Plasma membrane	23.51	9.15
CmSWEET14	MELO3C022341.2	chr11 : 32980155.. 32982488 (-)	273	6	细胞膜 Plasma membrane	30.88	9.37
CmSWEET15	MELO3C002381.2	chr12 : 24451493.. 24453403 (+)	291	7	内质网 Endoplasmic reticulum	32.87	6.95
CmSWEET16	MELO3C002380.2	chr12 : 24461695.. 24463640 (+)	242	5	细胞膜 Plasma membrane	27.38	9.22
CmSWEET17	MELO3C002256.2	chr12 : 25307536.. 25308775 (-)	183	5	细胞膜 Plasma membrane	21.03	9.67

基因名称 Gene name	基因ID Gene ID	染色体位置 Chromosome location	氨基酸长度 Protein length/aa	跨膜结构域 Transmembrane domains	亚细胞定位 Subcellular localization	蛋白分子量 Molecular weight/ku	等电点 Isoelectric point
CmSWEET01	MELO3C027076.2	chr00 : 2 331 064.. 2 333 983 (+)	204	4	细胞膜 Plasma membrane	22.53	8.38
CmSWEET02	MELO3C000200.2	chr00 : 10 680 046.. 10 682 566 (+)	193	4	液泡膜 Vocuole membrane	21.61	8.02
CmSWEET03	MELO3C026184.2	chr02 : 26 865 472.. 26 867 397 (-)	296	7	细胞膜 Plasma membrane	33.01	9.59
CmSWEET04	MELO3C026183.2	chr02 : 26 872 431.. 26 874 105 (-)	297	7	细胞膜 Plasma membrane	33.35	8.69
CmSWEET05	MELO3C008417.2	chr03 : 5 749 431.. 5 757 783 (+)	252	7	细胞膜 Plasma membrane	27.66	4.50
CmSWEET06	MELO3C009951.2	chr04 : 27 842 743.. 27 847 975 (-)	248	7	细胞膜 Plasma membrane	28.20	8.90
CmSWEET07	MELO3C009950.2	chr04 : 27 855 027.. 27 857 570 (-)	234	7	细胞膜 Plasma membrane	26.02	8.66
CmSWEET08	MELO3C008674.2	chr05 : 16 922 222.. 16 926 703 (-)	262	7	细胞膜 Plasma membrane	30.09	9.34
CmSWEET09	MELO3C031232.2	chr05 : 16 940 142.. 16 943 300 (-)	212	6	细胞膜 Plasma membrane	24.30	10.20
CmSWEET10	MELO3C004222.2	chr05 : 25 333 995.. 25 335 673 (-)	151	5	液泡膜 Vacuole membrane	16.59	8.84
CmSWEET11	MELO3C016259.2	chr07 : 22 840 158.. 22843162 (+)	262	7	细胞膜 Plasma membrane	29.08	9.28
CmSWEET12	MELO3C005758.2	chr09 : 24023344.. 24025966 (+)	265	7	细胞膜 Plasma membrane	29.15	10.04
CmSWEET13	MELO3C005869.2	chr09 : 24871177.. 24874018 (+)	208	5	细胞膜 Plasma membrane	23.51	9.15
CmSWEET14	MELO3C022341.2	chr11 : 32980155.. 32982488 (-)	273	6	细胞膜 Plasma membrane	30.88	9.37
CmSWEET15	MELO3C002381.2	chr12 : 24451493.. 24453403 (+)	291	7	内质网 Endoplasmic reticulum	32.87	6.95
CmSWEET16	MELO3C002380.2	chr12 : 24461695.. 24463640 (+)	242	5	细胞膜 Plasma membrane	27.38	9.22
CmSWEET17	MELO3C002256.2	chr12 : 25307536.. 25308775 (-)	183	5	细胞膜 Plasma membrane	21.03	9.67

基因名称 Gene name	激素响应相关元件数量 Number of hormone response-related element							应激响应相关元件数量 Number of stress response-related element
基因名称 Gene name	ABRE	TGA- element	CGTCA- motif	TGACG- motif	GARE- motif	P-box	TCA- element	ARE	GC- motif	MBS	TC-rich repeats	WUN- motif	MYB	MYC	W-box
CmSWEET01	0	0	1	1	0	0	1	0	0	0	1	0	2	1	0
CmSWEET02	3	0	1	1	1	0	0	1	0	0	1	0	3	2	0
CmSWEET03	3	0	1	1	1	0	1	3	0	1	0	0	4	2	1
CmSWEET04	1	0	0	0	0	1	1	2	0	0	0	0	4	3	0
CmSWEET05	3	0	0	0	0	0	0	1	0	0	0	0	6	1	0
CmSWEET06	0	1	2	2	0	0	0	1	0	1	1	0	2	4	1
CmSWEET07	1	2	1	1	0	0	0	0	0	0	0	0	1	2	0
CmSWEET08	7	2	0	0	0	0	0	3	1	0	0	0	1	3	0
CmSWEET09	1	2	1	1	0	0	4	5	0	0	1	1	3	4	3
CmSWEET10	0	0	1	1	0	0	0	3	0	0	2	5	1	4	0
CmSWEET11	1	0	2	2	0	0	0	0	0	0	2	0	2	7	0
CmSWEET12	1	0	2	2	0	0	1	2	0	0	0	0	2	2	0
CmSWEET13	2	0	0	0	0	2	0	1	0	0	0	0	4	4	1
CmSWEET14	1	0	0	0	0	1	1	1	0	1	1	0	2	4	0
CmSWEET15	3	0	0	1	0	1	0	2	0	0	0	1	1	2	1
CmSWEET16	1	1	0	0	0	1	1	2	0	0	1	0	2	2	0
CmSWEET17	0	0	0	0	0	0	1	3	0	1	1	0	4	3	0

基因名称 Gene name	激素响应相关元件数量 Number of hormone response-related element							应激响应相关元件数量 Number of stress response-related element
基因名称 Gene name	ABRE	TGA- element	CGTCA- motif	TGACG- motif	GARE- motif	P-box	TCA- element	ARE	GC- motif	MBS	TC-rich repeats	WUN- motif	MYB	MYC	W-box
CmSWEET01	0	0	1	1	0	0	1	0	0	0	1	0	2	1	0
CmSWEET02	3	0	1	1	1	0	0	1	0	0	1	0	3	2	0
CmSWEET03	3	0	1	1	1	0	1	3	0	1	0	0	4	2	1
CmSWEET04	1	0	0	0	0	1	1	2	0	0	0	0	4	3	0
CmSWEET05	3	0	0	0	0	0	0	1	0	0	0	0	6	1	0
CmSWEET06	0	1	2	2	0	0	0	1	0	1	1	0	2	4	1
CmSWEET07	1	2	1	1	0	0	0	0	0	0	0	0	1	2	0
CmSWEET08	7	2	0	0	0	0	0	3	1	0	0	0	1	3	0
CmSWEET09	1	2	1	1	0	0	4	5	0	0	1	1	3	4	3
CmSWEET10	0	0	1	1	0	0	0	3	0	0	2	5	1	4	0
CmSWEET11	1	0	2	2	0	0	0	0	0	0	2	0	2	7	0
CmSWEET12	1	0	2	2	0	0	1	2	0	0	0	0	2	2	0
CmSWEET13	2	0	0	0	0	2	0	1	0	0	0	0	4	4	1
CmSWEET14	1	0	0	0	0	1	1	1	0	1	1	0	2	4	0
CmSWEET15	3	0	0	1	0	1	0	2	0	0	0	1	1	2	1
CmSWEET16	1	1	0	0	0	1	1	2	0	0	1	0	2	2	0
CmSWEET17	0	0	0	0	0	0	1	3	0	1	1	0	4	3	0

基因名称 Gene name	光响应相关元件数量Number of light response-related element
基因名称 Gene name	GATA- motif	ATC- motif	Gap- box	ACE	Box 4	MRE	3-AF1 binding site	GA- motif	TCCC- motif	ATCT- motif	I- box	L- box	TCT- motif	G- box	chs- CMA1a	AT1- motif	AE- box	GT1- motif	AAAC- motif
CmSWEET01	2	0	0	0	8	0	0	0	0	1	0	0	0	1	1	1	0	0	1
CmSWEET02	0	0	0	0	0	0	0	0	0	0	0	0	0	2	0	0	0	0	0
CmSWEET03	0	0	0	0	0	0	0	0	0	0	0	0	1	3	1	0	0	2	0
CmSWEET04	1	0	0	0	4	0	0	0	0	0	1	0	0	2	0	0	0	1	1
CmSWEET05	0	0	0	0	2	0	0	0	1	0	0	0	1	3	1	1	0	1	0
CmSWEET06	2	0	0	1	4	0	0	1	1	0	2	0	0	0	0	0	0	0	0
CmSWEET07	0	0	0	0	7	0	0	0	0	0	0	0	2	1	0	0	0	2	0
CmSWEET08	1	0	0	0	4	0	0	0	0	0	1	0	1	3	0	0	1	0	0
CmSWEET09	0	0	0	0	2	1	1	0	0	0	0	0	1	1	0	0	0	0	0
CmSWEET10	1	0	0	0	3	2	1	0	0	0	0	0	4	0	0	0	0	0	0
CmSWEET11	3	0	0	0	1	1	0	0	0	0	0	0	2	1	0	0	0	0	0
CmSWEET12	1	0	0	1	2	0	0	0	0	0	1	0	0	1	0	0	1	1	0
CmSWEET13	2	0	0	0	1	1	0	0	0	0	0	0	0	2	1	0	0	2	0
CmSWEET14	0	0	1	0	2	0	0	0	0	0	0	0	2	1	0	0	1	0	0
CmSWEET15	0	0	1	1	7	1	0	0	0	0	0	1	2	4	0	1	0	2	0
CmSWEET16	2	0	0	0	2	0	0	1	1	0	0	0	0	1	0	0	0	4	0
CmSWEET17	0	1	0	0	4	1	0	1	0	1	0	0	0	0	1	0	2	0	0

Genome-wide identification and bioinformatics analysis of SWEET gene family in melon

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基因名称 Gene name	发育相关元件数量Number of development-related element
基因名称 Gene name	CAT-box	circadian	HD-Zip 1	MBSI	O2-site	GCN4_motif	RY-element
CmSWEET01	1	0	0	0	0	0	0
CmSWEET02	0	0	0	0	0	0	0
CmSWEET03	0	0	0	0	1	0	0
CmSWEET04	0	0	0	0	0	0	0
CmSWEET05	0	0	1	0	1	0	0
CmSWEET06	1	1	0	0	0	0	0
CmSWEET07	0	0	0	0	0	1	0
CmSWEET08	0	0	0	0	0	0	0
CmSWEET09	0	1	0	0	0	0	0
CmSWEET10	0	0	0	1	0	0	0
CmSWEET11	1	0	0	0	0	0	0
CmSWEET12	0	0	0	0	0	0	0
CmSWEET13	0	1	0	0	1	0	1
CmSWEET14	0	0	0	0	1	0	0
CmSWEET15	0	0	0	1	1	0	0
CmSWEET16	0	0	0	1	0	0	0
CmSWEET17	0	1	0	0	0	0	0

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