花生SWEET基因全基因组鉴定及表达分析

doi:10.3724/SP.J.1006.2023.24066

Abstract

Abstract:

SWEET (sugars will eventually be exported transporter) proteins are structurally conserved and energy independent sugar transporters, which play important roles in many physiological processes, such as plant growth development and response to biotic and abiotic stresses. At present, there is no research study about SWEET gene in peanut yet. In this study, we explored SWEET gene in the whole genome of peanut for the first time and analyzed its molecular characteristics and expression pattern in detail. These results showed that there were 55, 25, and 28 SWEET genes in the genomes of cultivated peanut and two ancestral wild peanuts, respectively, which were randomly and unevenly distributed on each chromosome. Orthologous genes from wild peanut and cultivated peanut usually shared the similar chromosome location, which confirmed that cultivated peanut originated from two ancestral wild peanuts. There were also some orthologous gene lost, which might be attributed to gene deletion or expansion during genome replication and doubling process. Gene structure and cis-elements in the promoter region were different in the SWEET genes, suggesting the diversity of biological functions. Phylogenetic analysis divided Arachis SWEET proteins into four subfamilies Clade I-Clade IV. Genes in the same clade of the same subfamily exhibited the similar gene structure. Based on Clevenger et al. tissue expression analysis, we found that some genes were tissue preferentially expressed, which provided a reference for further understanding the functional location of SWEET genes. Moreover, we identified several drought or salt stress responsive genes, such as AhSWEET3a and AhSWEET4e by re-analysis transcriptome expression data under abiotic stress and RT-qPCR. Their functions were still needed to be further identified. These results provide a theoretical reference for further analysis of SWEET gene function in peanut.

Key words: SWEET gene family, molecular characteristics, the relative expression pattern, abiotic stress, peanut

SUN Quan-Xi, YUAN Cui-Ling, MOU Yi-Fei, YAN Cai-Xia, ZHAO Xiao-Bo, WANG Juan, WANG Qi, SUN Hui, LI Chun-Juan, SHAN Shi-Hua. Genome-wide identification and expression analysis of SWEET genes from peanut genomes[J].Acta Agronomica Sinica, 2023, 49(4): 938-954.

Figures/Tables 9

Table 1

Table 2

SWEET gene family members in peanut genomes"

拟南芥同源基因 Homologous genes in Arabidopsis	基因名称 Gene ID	基因编号 Gene code	染色体位置 Chromosomal location	氨基酸长度Amino acid length (aa)	分子量MW (kD)	理论等电点 Theoretical (pI)	MtN3/saliva/SWEET结构域位置 MtN3/saliva/SWEET domain position	跨膜区 TMD
AtSWEET1	AdSWEET1a	Aradu.K52XK	Chr8:9267256…9269602	222	24.3	9.55	104-190	6
	AdSWEET1c	Aradu.42GVF	Chr6:102416530...102419691	244	26.7	8.71	7-96, 129-215	7
	AiSWEET1b	Araip.S4KSY	Chr7:116428599…116430875	222	24.2	9.55	17-71, 104-190	6
	AiSWEET1d	Araip.1W4C1	Chr6:126537940…126541378	216	23.9	8.50	103-189	5
	AhSWEET1a	Arahy.3965TZ	Chr17:124639742…124642102	246	27.0	9.30	6-95, 128-214	7
	AhSWEET1b	Arahy.9QS057	Chr8:9055736…9058263	246	27.1	9.30	6-95, 128-214	7
	AhSWEET1c	Arahy.070EBZ	Chr6:107629228…107632964	227	25.0	8.93	7-96, 115-198	5
	AhSWEET1d	Arahy.92QAUW	Chr16:140501345…140505058	222	24.3	9.32	7-96, 102-193	6
AtSWEET2	AdSWEET2a	Aradu.28KIR	Chr7:75718293...75721951	235	26.2	8.38	15-104, 137-223	7
	AiSWEET2a	Araip.8E1XH	Chr3:135782137…135782998	216	24.1	6.40	55-144	5
	AiSWEET2b	Araip.RW4FB	Chr8:42747070…42751934	222	24.6	5.09	15-73, 124-210	6
	AiSWEET2c	Araip.LSW2G	Chr8:42679546…42683180	235	26.1	7.62	15-104, 137-223	7
	AiSWEET2d	Araip.ZP7QC	Chr3:135779119…135779975	222	24.7	6.39	61-150	5
	AhSWEET2b	Arahy.0067NC	Chr7:75623404…75627352	235	26.2	8.38	15-104, 137-223	7
	AhSWEET2a	Arahy.8S8XL0	Chr7:75586852…75596799	235	26.2	8.40	15-104, 137-223	7
	AhSWEET2c	Arahy.T9263C	Chr18:38164093…38168064	352	39.8	7.01	15-104, 137-223	9
AtSWEET3	AdSWEET3b	Aradu.0C27S	Chr6:102696867...102699789	273	29.9	9.16	7-98, 133-219	7
	AdSWEET3c	Aradu.HBL25	Chr8:8606536…8607991	262	33.6	9.29	7-98, 132-218	7
	AiSWEET3a	Araip.REH1B	Chr6:126858655…126861067	268	29.3	9.16	7-98, 133-219	7
	AiSWEET3d	Araip.7QQ27	Chr7:115102590…115104076	297	33.1	8.80	7-98, 167-253	7
	AhSWEET3a	Arahy.7NL1KT	Chr16:140828255…140830164	246	27.2	9.27	4-76, 111-197	6
	AhSWEET3b	Arahy.FUEI9J	Chr6:107865617…107869328	269	29.5	9.16	7-98, 133-219	7
	AhSWEET3c	Arahy.T958MW	Chr8:8373613…8375544	286	29.0	9.02	7-98, 133-218	7
	AhSWEET3d	Arahy.USDQ8P	Chr17:123218056…123220023	262	28.9	9.01	7-98, 132-218	7
AtSWEET4	AdSWEET4a	Aradu.IX4YQ	Chr5:99793946…99796067	242	26.8	8.68	9-98, 132-219	7
	AdSWEET4e	Aradu.T2X2K	Chr5:96617432…96620296	226	25.0	8.55	9-96, 110-197	6
	AdSWEET4h	Aradu.ZB8C2	Chr5:99808879…99815495	250	27.6	9.08	9-98, 132-219	7
	AdSWEET4i	Aradu.GAX6N	Chr8:45864882…45870280	100	11.5	9.94	6-64	3
	AiSWEET4c	Araip.ML28J	Chr5:124657132…124659199	198	22.0	8.77	1-68, 82-169	5
	AiSWEET4d	Araip.JQ4TL	Chr9:22944513…22947059	281	31.3	8.47	48-137, 171-258	8
	AiSWEET4e	Araip.793GC	Chr5:129433061…129435840	248	27.6	8.72	9-98, 132-219	7
	AiSWEET4j	Araip.J86Y5	Chr5:124624546…124628766	250	27.8	9.18	9-98, 132-219	7
	AhSWEET4a	Arahy.555XQU	Chr5:105662134…105663519	206	23.0	8.18	4-74, 96-183	8
	AhSWEET4b	Arahy.D0QYDS	Chr20:141781184…141782559	224	25.6	9.04	4-77, 121-202	6
	AhSWEET4c	Arahy.K3L8DV	Chr15:134629653…134631174	221	24.9	8.84	4-77, 111-198	6
	AhSWEET4d	Arahy.7WW6WM	Chr19: 23346369…23350117	281	31.3	8.47	48-137, 171-258	7
	AhSWEET4e	Arahy.6E534E	Chr5:102891039…102894100	248	27.6	8.72	9-98, 132-219	7
	AhSWEET4f	Arahy.78PE2K	Chr15:139799000…139802016	250	28.0	8.65	30-100, 134-221	6
	AhSWEET4g	Arahy.6J07HI	Chr15:134596895…134602246	250	27.8	9.18	9-98, 132-219	7
	AhSWEET4h	Arahy.FJF87M	Chr5:105677242…105683115	250	27.6	9.19	9-98, 132-219	7
	AhSWEET4i	Arahy.UY8AVE	Chr17:40936681…40937328	104	11.3	6.51	1-75	2
AtSWEET5	AdSWEET5a	Aradu.93DN3	Chr1:69869107…69871113	227	25.8	8.82	9-98, 132-218	7
	AdSWEET5b	Aradu.H4VY0	Chr3:89372637…89374336	248	27.3	9.17	12-101, 135-216	7
	AiSWEET5a	Araip.0637R	Chr1:100554587…100555063	125	14.3	9.45	5-93	3
	AiSWEET5b	Araip.2E2K8	Chr3:89091887…89093629	253	27.9	9.37	12-101, 135-221	7
	AiSWEET5c	Araip.N9ELU	Chr1:100553386…100554554	140	16.2	8.95	46-131	4
	AhSWEET5a	Arahy.CT4JMD	Chr11:111850823…111855576	827	91.9	8.13	692-765	4
	AhSWEET5b	Arahy.J6YH7R	Chr1: 86826649…86831389	962	10.7	8.34	746-835, 869-955	7
AtSWEET7	AhSWEET7	Arahy.TFC15A	Chr19:23496407…23501260	86	95.4	9.07	68-149, 173-259	7
AtSWEET9	AdSWEET9c	Aradu.JS1AI	Chr4:122862465…122865150	261	29.8	6.51	11-98, 132-218	7
	AiSWEET9a	Araip.BV9QU	Chr3:439278…440730	239	27.3	8.19	1-76, 110-196	6
	AiSWEET9c	Araip.RTL2U	Chr4:132851944…132854554	239	27.3	8.19	1-76, 110-196	6
	AhSWEET9a	Arahy.B7EMS2	Chr13:447142…449632	302	34.4	8.75	9-52	1
	AhSWEET9b	Arahy.D36163	Chr14:142500897…142503628	261	29.8	6.99	11-98, 132-218	7
	AhSWEET9c	Arahy.S3T63E	Chr4:128065367…128068098	261	29.7	6.99	11-98, 132-218	7
AtSWEET10	AdSWEET10c	Aradu.JR6CM	Chr3:40489078…40490220	78	16.3	9.19	1-64	4
	AdSWEET10d	Aradu.XS7EJ	Chr8:48311533…48314172	156	34.3	9.15	10-97, 162-229	7
	AdSWEET10e	Aradu.4S8PR	Chr8:45870283...45873364	180	25.0	9.55	14-93, 146-213	5
	AdSWEET10h	Aradu.R8LYK	Chr4:106216896…106217683	178	23.5	9.92	3-72, 106-192	6
	AdSWEET10j	Aradu.UZC91	Chr3:106064010…106065654	249	28.3	9.71	10-98, 132-218	7
	AiSWEET10d	Araip.NW3CH	Chr8:128878406…128879824	297	17.6	8.06	33-106	3
	AiSWEET10j	Araip.AI6C6	Chr3:107769962…107771673	213	26.4	9.26	10-98	6
	AhSWEET10a	Arahy.2I1JD4	Chr18:134293195…134295606	203	32.6	9.25	8-95, 129-215	7
	AhSWEET10b	Arahy.443QJ6	Chr4:112235225…112235986	162	18.5	9.03	6-77	4
	AhSWEET10c	Arahy.LDZB47	Chr4:43437401…43438082	60	15.0	9.50	1-69	4
	AhSWEET10d	Arahy.5X4IC8	Chr8:50270957…50274308	285	32.8	9.05	10-97, 131-217	7
	AhSWEET10e	Arahy.58XTYC	Chr8:47810282…47810830	109	12.6	5.17	1-60	3
	AhSWEET10f	Arahy.BQV36K	Chr8:47807401…47807793	72	80.9	9.60	1-42	2
	AhSWEET10g	Arahy.V92L7T	Chr8:47802082…47802616	76	89.8	10.17	1-43	1
	AhSWEET10h	Arahy.F35YNL	Chr4:112236821…112237853	182	21.0	9.97	6-75, 109-175	5
	AhSWEET10i	Arahy.5R858N	Chr13:117476330…117478145	249	28.3	9.71	10-98, 132-218	7
	AhSWEET10j	Arahy.5ZV8II	Chr3:114918073…114919873	249	28.2	9.71	10-98, 132-218	7
AtSWEET14	AdSWEET14a	Aradu.VJ1BE	Chr8:48272679…48275246	301	24.3	8.57	8-95, 129-215	7
	AdSWEET14d	Aradu.U6YR6	Chr3:106101550…106103052	279	31.5	8.99	9-96, 131-217	7
	AiSWEET14b	Araip.W20Z4	Chr8:128825355…128827183	260	29.6	9.10	7-70, 131-208	6
	AiSWEET14d	Araip.X0SC5	Chr3:107805141…107806659	278	31.4	9.09	9-96, 131-217	7
	AhSWEET14a	Arahy.9TLR89	Chr18:134237012…134239717	264	30.4	6.77	8-95, 101-178	5
	AhSWEET14b	Arahy.DV46W1	Chr8:50231164…50233873	264	30.4	7.57	8-95, 111-178	5
	AhSWEET14c	Arahy.S8PXCS	Chr3:114967061…114969119	279	31.5	8.99	9-96, 131-217	7
	AhSWEET14d	Arahy.ZMPK13	Chr13:117517211…117519601	344	38.8	8.91	9-96, 131-217	7
AtSWEET15	AdSWEET15i	Aradu.8101U	Chr4:123472889…123474884	287	31.8	9.06	10-97, 131-229	7
	AdSWEET15j	Aradu.5U8FQ	Chr3:129837253...129840537	285	31.8	9.04	13-100, 134-220	7
	AdSWEET15k	Aradu.TVV1L	Chr10:6211511…6213515	250	29.0	8.41	12-99	4
	AdSWEET15m	Aradu.BR4HD	Chr3:129849290…129851008	172	19.6	9.65	12-98, 97-167	5
	AiSWEET15d	Araip.519SW	Chr9:28810509…28814571	264	30.3	9.76	160-233	5
	AiSWEET15e	Araip.FWQ8E	Chr10:10538850…10540643	292	32.5	8.81	11-98, 132-216	7
	AiSWEET15f	Araip.8Y88R	Chr7:15516941…15518734	292	32.5	8.81	11-98, 132-216	7
	AiSWEET15h	Araip.99BCA	Chr4:133515941…133517784	274	30.3	8.95	10-98, 132-217	7
	AiSWEET15i	Araip.Z7DRI	Chr3:130664924…130667334	258	28.8	9.24	13-100, 134-216	7
	AhSWEET15a	Arahy.ANYB6V	Chr13:115603608…115606491	343	38.1	9.55	183-256	2
	AhSWEET15b	Arahy.D1TE9J	Chr14:12548365…12551538	373	41.8	9.95	181-255	2
	AhSWEET15c	Arahy.S28F9G	Chr12:9945485…9951264	488	54.5	9.56	265-338	2
	AhSWEET15d	Arahy.P4WV5Z	Chr19:29592152…29610025	375	42.3	9.69	145-237	2
	AhSWEET15e	Arahy.BFG4SY	Chr20:11037095…11039132	250	28.0	9.03	11-98, 132-201	6
	AhSWEET15f	Arahy.YD7UU4	Chr10:5867956…5870716	288	32.0	8.95	12-99, 133-217	7
	AhSWEET15g	Arahy.C2ZJE6	Chr14:143132241…143134705	274	30.3	8.95	10-97, 131-217	7
	AhSWEET15h	Arahy.Y269WP	Chr4:128696711…128699175	274	30.3	8.95	10-97, 131-217	7
	AhSWEET15i	Arahy.2H0Q3A	Chr13:141355072…141358480	253	28.4	8.94	13-100	6
	AhSWEET15j	Arahy.5TG8XZ	Chr3:138456949…138460261	293	32.8	8.49	13-100, 134-220	7
	AhSWEET15k	Arahy.J4JRGL	Chr13: 141369029…141370440	144	16.7	9.43	43-130	4
	AhSWEET15l	Arahy.KZTL0S	Chr3:138469501…138471333	233	26.4	9.59	12-99, 133-218	7
	AhSWEET15n	Arahy.Y9X9P4	Chr3:138488011…138489816	197	22.4	9.07	24-86, 116-189	5
AtSWEET17	AdSWEET17a	Aradu.F9D34	Chr6:5690214…5692510	312	34.2	9.15	6-93, 127-213	7
	AdSWEET17c	Aradu.P8CD0	Chr4:17364376…17367186	222	24.5	5.61	21-108, 142-203	6
	AiSWEET17a	Araip.5K37A	Chr6:12618373…12628766	192	21.8	9.27	1-83	2
	AiSWEET17d	Araip.LD519	Chr4:17245576…17249063	243	28.3	7.66	21-108, 145-231	7
	AhSWEET17a	Arahy.777NZN	Chr6:5321486…5324822	300	33.7	9.28	9-98, 132-219	6
	AhSWEET17b	Arahy.NLT8YT	Chr16:16641434…16643685	232	25.5	9.32	48-135, 169-232	7
	AhSWEET17c	Arahy.385DXU	Chr4:17831697…17835610	244	26.8	7.78	59-97, 131-217	6
	AhSWEET17d	Arahy.QI357H	Chr14:18059619…18063941	273	30.1	6.89	39-126, 160-246	7

Table 2

Fig. 1

Fig. 2

Fig. 3

Table 3

cis-elements in the putative promoter sequence of SWEET genes in peanut"

基因名称 Gene name	ABRE 元件 ABRE	ARE 元件 ARE	AuxRR核心区 AuxRR- core	CGTCA结构域 CGTCA- motif	DRE1 元件 DRE1	ERE元件 ERE	GCN4 结构域GCN4 motif	GARE 结构域 GARE- motif	P盒 P-box	LTR元件 LTR	MBS 元件 MBS	富含TC重复序列 TC-rich repeats	TCA元件 TCA- element	TGA元件 TGA- element	TGACG结构域 TGACG- motif	W盒 W-box	WUN 结构域WUN-motif	as-1 元件 as-1
AhSWEET1a	3	1		1		4		1		1	1
AhSWEET1b	3	1		1		4					1	1		1
AhSWEET1c	3			3		4			1			1			1	2	1	1
AhSWEET1d	7	2		2		4			1		2	2				2		1
AhSWEET2a	1			3	1	2					1				3	1		1
AhSWEET2b	3	1		4		2				1					2	1	1	1
AhSWEET2c	3	1		3		2		1	1		1	1	4		3	3	2	1
AhSWEET3a	5	1				2					1		1	1
AhSWEET3b	3					4								1
AhSWEET3c	5	1		1				1			1	1			1		1	1
AhSWEET3d	2			1		1					2	1	1		1		1	1
AhSWEET4a	3					3				3	1		2				3
AhSWEET4b	3	2				3	1			2	1					1	2
AhSWEET4c	3					2				3	1	1	1
AhSWEET4d		3		3						1	6		2		3	2		1
AhSWEET4e		2				3	1			1	1	2	1			1
AhSWEET4f		1				5				1	1	1	2			2
AhSWEET4g	5	1				3						1	1			1	4
AhSWEET4h	6	1	1	1	1							1		1	1			1
AhSWEET4i	2	3									2	1	2				2
AhSWEET5a	9	4			2	2						1	2		2	1	1	2
AhSWEET5b	8	3		2							1	1			1			1
AhSWEET7		1				2		1		1	2	1	1		2		1	2
AhSWEET9a		3		7	1	2		1			1				7	1		7
AhSWEET9b	2		1	3		1					1		2		3	1		3
AhSWEET9c	2		1	3		1					1			2	3	1		3
AhSWEET10a	3			1		3		1	1		1		1		1	1	1	1
AhSWEET10b	1	2			1						2		1				1
AhSWEET10c	4	3	1	1							2	1		1	1		1	1
AhSWEET10d	6		1	2		5		1			2	1	2	2	2	1	1	2
AhSWEET10e	2	1								1		2	1				1
AhSWEET10f	2					2						3	2			2
AhSWEET10g		3			1						1			2		1	1
AhSWEET10h		1				2					1				2			2
AhSWEET10i		7		1	6								1		1		1	1
AhSWEET10j		6		1	1	5									1		1	1
AhSWEET14a	10	2				1					2						1
AhSWEET14b	4	4				4						1
AhSWEET14c	10	1				2	2					1				1	1
AhSWEET14d	10	3				1	1					2	1			1
AhSWEET15a	1	3		3		1								1	3	1	1	3
AhSWEET15b	1	2		3		1							1		3	1	1	3
AhSWEET15c	1	3		2		1								1	2	1	1	2
AhSWEET15d	1	3		2		1			1					1	2	1	1	2
AhSWEET15e	6	2		1		3		1			1		1	1	1	2	1	1
AhSWEET15f	4	2		2		3							1		2	1	1	2
AhSWEET15g	4	1		1		7		1	1					1	1	1	1	1
AhSWEET15h	4	1		1		7		1	1		2			1	1	1	1	1
AhSWEET15i	8	1		1		1		1	1		2	1	1		1	1		1
AhSWEET15j	6	3		1		1			1		2	1			1			1
AhSWEET15k	6					8	1					3				1	1
AhSWEET15l		2		2		6	1					1				4		2
AhSWEET15m						2									2		1
AhSWEET17a	2	2		1		6			1		1		2	1	1		1	1
AhSWEET17b	2	2		1		4			1	1	1		2		1	1		1
AhSWEET17c	6	1				2								1		1	1
AhSWEET17d	5	1				2		1		1

Table 3

Fig. 4

Fig. 5

Fig. 6

References 33

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基因 Gene	正向引物 Forward sequence (5°-3°)	反向引物 Reverse sequence (5°-3°)
AhSWEET3a	GATATATTCGTTGCGGGAC	TGTCTTTCCTTTTCCAGTATC
AhSWEET3c	ATATTTGTTGCGGGACCAAGT	CTTTTCCGGTATTTGCAGTG
AhSWEET4e	CTCTTTGTCCTGATAAGCAAT	TTCCTTGCAGGAGCAATAG
AhSWEET14a	CTACGTTACTCTCCCGAAC	GTAGCTTCTCATCTTGAACC
AhSWEET14b	CAACATCGAAGAAAGCAAGTT	CCTTAATAATTCCAAACTCTC
AhSWEET14d	GGATATCTATGTTACACTTCC	CTCACGGGCTTGTTCTTC
AhSWEET15h	CATATGCATTGCTCTGCCAAA	TCTCTTCCTTTGTTTTGTTGC
AhSWEET17a	CTCCAAAAGGCACTTTCTTT	CATGATTTTTCTTCTGGCCAA

Genome-wide identification and expression analysis of SWEET genes from peanut genomes

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