Identification and Expression Analysis of the Vacuolar Iron Transporter Gene Family in Apple

doi:10.16420/j.issn.0513-353x.2020-0272

Acta Horticulturae Sinica ›› 2021, Vol. 48 ›› Issue (2): 205-218.doi: 10.16420/j.issn.0513-353x.2020-0272

• Research Papers • Next Articles

Identification and Expression Analysis of the Vacuolar Iron Transporter Gene Family in Apple

YANG Yaming, DING Yuduan, CHEN Lijuan, TIAN Xueting, YIN Weijie, PENG Honghui, DU Wei, LIANG Liping, REN Xiaolin^*()

College of Horticulture,Northwest A & F University,Yangling,Shaanxi 712100,China

Received:2020-09-07 Revised:2020-11-11 Online:2021-02-25 Published:2021-03-09
Contact: REN Xiaolin E-mail:renxl@nwsuaf.edu.cn

Abstract

Abstract:

Vacuolar iron transporter（VIT）is involved in iron storage and transport,it plays important roles in plant photosynthesis,nitrogen fixation,respiration,DNA and hormone synthesis. In this study,nine apple VIT genes were identified,and the phylogenetic relationship of these genes was analyzed by phylogeny,the results showed that the VIT protein of apple was closely related to the evolution of Arabidopsis thaliana. Chromosome mapping showed that nine VIT genes are distributed on seven chromosomes,bioinformatic analysis of VIT genes promoter region showed many cis-elements related to environmental stresses,photoresponse and plant hormone response. Expression profile analysis showed that the expression of VIT gene was relatively high in flowers and fruits. In addition,the physical and chemical properties,protein interaction network and gene structure of MdVIT family were analyzed,the results showed that the main factors for VIT family amplification in apple were tandem duplication and segmental duplication,cationic co-transporters（XP_008372221.1 and XP_008383418.1）were mainly involved in the interaction of VIT proteins in apple. The qRT-PCR analysis showed that the expression levels of MdVIT1 and MdVIT2 in leaves of‘M26’apple rootstock seedlings treated with 2 000 μmol · L^-1 FeSO₄· 7H₂O for 24 h were 6.6 and 12 times higher than those of the control. After 6 h treatment with 2 000 μmol · L^-1 FeSO₄· 7H₂O,the relative expression level of MdVIT4 showed in the stem was the highest,which was 237 times higher than that of the control. Taken together,among the characterized apple VIT genes MdVIT1,MdVIT2 and MdVIT4 were speculated closely related to iron stress in apple,which provide useful information for further study the mechanisms of metal iron caused stress in apple.

Key words: apple, genome-wide, vacuolar iron transporter, VIT gene, gene expression

CLC Number:

S661.1

YANG Yaming, DING Yuduan, CHEN Lijuan, TIAN Xueting, YIN Weijie, PENG Honghui, DU Wei, LIANG Liping, REN Xiaolin. Identification and Expression Analysis of the Vacuolar Iron Transporter Gene Family in Apple[J]. Acta Horticulturae Sinica, 2021, 48(2): 205-218.

Figures/Tables 13

References 36

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用途Usage	基因Gene	上游引物（5′-3′）Forward primer	下游引物（5′-3′）Reverse primer
qRT-PCR	MdVIT1	CTCCAATCCCCGAAGACGA	GCGATGCAACGGAAACCA
	MdVIT2	TCCGCTTCTCCCGTTAATATT	CGAGGTCGTTTGTGGTCATT
	MdVIT3	CACCAAACAACGCTAGACCAA	TCACAGCTCCGACTCCCAT
	MdVIT4	TTCGATTACTCCCAGAGGACAC	AGCGATGCAACAGAAACCAG
	MdVIT5	AATCCCAGAAGGCGACGAA	GAGCGATGCAACAGAAACCAGCCCA
	MdVIT6	TCTTACCGTGCCGTTTGCT	ATATCCGCCGAGTCCCATG
	MdVIT7	CAAGGACCGAGCAAGTGCA	CATCAAGGACGTGGTTGACAGT
	MdVIT8	CGACGGTCTCACTGTCCCTT	GGCGGCAACTTCAGCAAT
	MdVIT9	ACCGCGAGAAGCAAGCACT	AGCGAACGGCACGGTAAGA
克隆基因及启动子 Clone primers	MD04G1208900	ATGGCTTCCCAACGTGACCA	TCAGATTCCCAAACCACTAGACC
	MD05G1023100	ATGTGTCCTCCACACTTCTCCAA	TCATAGCCCACTTGAGCCAATC
	MD12G1223300	ATGGCTTCCCAACGTGACCA	TCACACCTGCATACCACTAGAC

用途Usage	基因Gene	上游引物（5′-3′）Forward primer	下游引物（5′-3′）Reverse primer
qRT-PCR	MdVIT1	CTCCAATCCCCGAAGACGA	GCGATGCAACGGAAACCA
	MdVIT2	TCCGCTTCTCCCGTTAATATT	CGAGGTCGTTTGTGGTCATT
	MdVIT3	CACCAAACAACGCTAGACCAA	TCACAGCTCCGACTCCCAT
	MdVIT4	TTCGATTACTCCCAGAGGACAC	AGCGATGCAACAGAAACCAG
	MdVIT5	AATCCCAGAAGGCGACGAA	GAGCGATGCAACAGAAACCAGCCCA
	MdVIT6	TCTTACCGTGCCGTTTGCT	ATATCCGCCGAGTCCCATG
	MdVIT7	CAAGGACCGAGCAAGTGCA	CATCAAGGACGTGGTTGACAGT
	MdVIT8	CGACGGTCTCACTGTCCCTT	GGCGGCAACTTCAGCAAT
	MdVIT9	ACCGCGAGAAGCAAGCACT	AGCGAACGGCACGGTAAGA
克隆基因及启动子 Clone primers	MD04G1208900	ATGGCTTCCCAACGTGACCA	TCAGATTCCCAAACCACTAGACC
	MD05G1023100	ATGTGTCCTCCACACTTCTCCAA	TCATAGCCCACTTGAGCCAATC
	MD12G1223300	ATGGCTTCCCAACGTGACCA	TCACACCTGCATACCACTAGAC

基因名 Gene name	登录号 Gene ID	序列位置 Sequence position	染色体位置 Chr	开放阅读区/bp ORF	氨基酸数/aa Length of amino acid	分子量/ kD Molecular weigh	不稳定系数 Instability index	理论等电点 pI	蛋白质疏水性 Hydroph- obicity	脂肪指数 Aliphatic index	跨膜结构域 TMD
MdVIT1	MD04G1208900	29415642..29416325	Chr04	684	227	23.71	42.66	6.13	0.29	97.14	4
MdVIT2	MD05G1023100	3872852..3873643	Chr05	792	263	27.68	41.63	6.96	0.25	97.91	5
MdVIT3	MD10G1024000	3007772..3008458	Chr10	687	228	24.01	34.11	6.13	0.28	101.05	4
MdVIT4	MD12G1223300	30004855..30005538	Chr12	684	227	23.87	43.44	7.78	0.30	96.26	4
MdVIT5	MD12G1223400	30015123..30015806	Chr12	684	227	23.90	45.02	6.30	0.28	96.26	4
MdVIT6	MD13G1018700	1174829..1178506	Chr13	744	247	26.36	36.99	5.18	0.19	101.30	4
MdVIT7	MD15G1227000	18449646..18451051	Chr15	798	265	27.99	42.77	8.34	0.01	89.51	5
MdVIT8	MD16G1016500	1240143..1242202	Chr16	747	248	26.52	36.31	5.00	0.38	105.16	4
MdVIT9	MD16G1016600	1243044..1245822	Chr16	744	247	26.41	35.57	5.89	0.21	105.63	4

基因名 Gene name	登录号 Gene ID	序列位置 Sequence position	染色体位置 Chr	开放阅读区/bp ORF	氨基酸数/aa Length of amino acid	分子量/ kD Molecular weigh	不稳定系数 Instability index	理论等电点 pI	蛋白质疏水性 Hydroph- obicity	脂肪指数 Aliphatic index	跨膜结构域 TMD
MdVIT1	MD04G1208900	29415642..29416325	Chr04	684	227	23.71	42.66	6.13	0.29	97.14	4
MdVIT2	MD05G1023100	3872852..3873643	Chr05	792	263	27.68	41.63	6.96	0.25	97.91	5
MdVIT3	MD10G1024000	3007772..3008458	Chr10	687	228	24.01	34.11	6.13	0.28	101.05	4
MdVIT4	MD12G1223300	30004855..30005538	Chr12	684	227	23.87	43.44	7.78	0.30	96.26	4
MdVIT5	MD12G1223400	30015123..30015806	Chr12	684	227	23.90	45.02	6.30	0.28	96.26	4
MdVIT6	MD13G1018700	1174829..1178506	Chr13	744	247	26.36	36.99	5.18	0.19	101.30	4
MdVIT7	MD15G1227000	18449646..18451051	Chr15	798	265	27.99	42.77	8.34	0.01	89.51	5
MdVIT8	MD16G1016500	1240143..1242202	Chr16	747	248	26.52	36.31	5.00	0.38	105.16	4
MdVIT9	MD16G1016600	1243044..1245822	Chr16	744	247	26.41	35.57	5.89	0.21	105.63	4

蛋白	液泡	质膜	内质网	高尔基体	胞外
Protein	Vacuolar	Plasma membrane	Endoplasmic reticulum	Golgi apparatus	Extracellular
MdVIT1	9	4			1
MdVIT2	2	7		1
MdVIT3	12	2
MdVIT4	4	5.5	1	2
MdVIT5	7	5		1	1
MdVIT6	1	12
MdVIT7	2	5	6		1
MdVIT8	2	8	3	1
MdVIT9	2	12

Identification and Expression Analysis of the Vacuolar Iron Transporter Gene Family in Apple

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基因 Gene	基因 Gene	同义替换率 Ka	非同义替换率 Ks	选择性压力 Ka/Ks	分离时间/Mya Divergence Time	复制类型 Duplication Types
MdVIT1（MD04G1208900）	MdVIT5（MD12G1223400）	0.055	0.226	0.245	7.527	片段复制 Segmental duplication
MdVIT1（MD04G1208900）	MdVIT4（MD12G1223300）	0.071	0.190	0.371	6.347	片段复制 Segmental duplication
MdVIT2（MD05G1023100）	MdVIT3（MD10G1024000）	1.030	0.912	1.130	30.387	串联重复 Tandem dupication
MdVIT4（MD12G1223300）	MdVIT5（MD12G1223400）	0.036	0.103	0.349	3.425	片段复制 Segmental duplication

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