Comparative expression analysis of heavy metal ATPase subfamily genes between Cd-tolerant and Cd-sensitive turnip landraces

doi:10.1016/j.pld.2019.02.001

Plant Diversity ›› 2019, Vol. 41 ›› Issue (04): 275-283.DOI: 10.1016/j.pld.2019.02.001

• Articles • 上一篇

Comparative expression analysis of heavy metal ATPase subfamily genes between Cd-tolerant and Cd-sensitive turnip landraces

Yuansheng Wu^a,b, Xiong Li^a,c, Di Chen^a,d, Xi Han^b, Boqun Li^a,c, Yonghong Yang^b, Yongping Yang^a,c

a China Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China;
b College of Plant Protection, Yunnan Agricultural University, Kunming 650201, China;
c Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China;
d School of Life Sciences, Yunnan University, Kunming 650091, China

收稿日期:2018-11-12 修回日期:2019-01-30 出版日期:2019-08-25 发布日期:2019-09-17
通讯作者: Yongping Yang,E-mail address:yangyp@mail.kib.ac.cn
基金资助:
This work was financially supported by the Western Youth Project B of the "Light of West China" Program of Chinese Academy of Sciences (Y7260411W1) and the National Natural Science Foundation of China (31590823).

Comparative expression analysis of heavy metal ATPase subfamily genes between Cd-tolerant and Cd-sensitive turnip landraces

Yuansheng Wu^a,b, Xiong Li^a,c, Di Chen^a,d, Xi Han^b, Boqun Li^a,c, Yonghong Yang^b, Yongping Yang^a,c

a China Germplasm Bank of Wild Species, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China;
b College of Plant Protection, Yunnan Agricultural University, Kunming 650201, China;
c Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, China;
d School of Life Sciences, Yunnan University, Kunming 650091, China

Received:2018-11-12 Revised:2019-01-30 Online:2019-08-25 Published:2019-09-17
Contact: Yongping Yang,E-mail address:yangyp@mail.kib.ac.cn
Supported by:
This work was financially supported by the Western Youth Project B of the "Light of West China" Program of Chinese Academy of Sciences (Y7260411W1) and the National Natural Science Foundation of China (31590823).

摘要/Abstract

摘要： The heavy metal ATPase (HMA) subfamily is mainly involved in heavy metal (HM) tolerance and transport in plants, but an understanding of the definite roles and mechanisms of most HMA members are still limited. In the present study, we identified 14 candidate HMA genes named BrrHMA1-BrrHMA8 from the turnip genome and analyzed the phylogeny, gene structure, chromosome distribution, and conserved domains and motifs of HMAs in turnip (Brassica rapa var. rapa). According to our phylogenetic tree, the BrrHMAs are divided into a Zn/Cd/Co/Pb subclass and Cu/Ag subclass. The BrrHMA members show similar structural characteristics within subclasses. To explore the roles of BrrHMAs in turnip, we compared the gene sequences and expression patterns of the BrrHMA genes between a Cd-tolerant landrace and a Cd-sensitive landrace. Most BrrHMA genes showed similar spatial expression patterns in both Cd-tolerant and Cd-sensitive turnip landraces; some BrrHMA genes, however, were differentially expressed in specific tissue in Cd-tolerant and Cd-sensitive turnip. Specifically, BrrHMA genes in the Zn/Cd/Co/Pb subclass shared the same coding sequence but were differentially expressed in Cd-tolerant and Cd-sensitive turnip landraces under Cd stress. Our findings suggest that the stable expression and up-regulated expression of BrrHMA Zn/Cd/Co/Pb subclass genes under Cd stress may contribute to the higher Cd tolerance of turnip landraces.

关键词: Heavy metal ATPase, Cadmium, Turnip, Transmembrane helix, Differential gene expression

Abstract: The heavy metal ATPase (HMA) subfamily is mainly involved in heavy metal (HM) tolerance and transport in plants, but an understanding of the definite roles and mechanisms of most HMA members are still limited. In the present study, we identified 14 candidate HMA genes named BrrHMA1-BrrHMA8 from the turnip genome and analyzed the phylogeny, gene structure, chromosome distribution, and conserved domains and motifs of HMAs in turnip (Brassica rapa var. rapa). According to our phylogenetic tree, the BrrHMAs are divided into a Zn/Cd/Co/Pb subclass and Cu/Ag subclass. The BrrHMA members show similar structural characteristics within subclasses. To explore the roles of BrrHMAs in turnip, we compared the gene sequences and expression patterns of the BrrHMA genes between a Cd-tolerant landrace and a Cd-sensitive landrace. Most BrrHMA genes showed similar spatial expression patterns in both Cd-tolerant and Cd-sensitive turnip landraces; some BrrHMA genes, however, were differentially expressed in specific tissue in Cd-tolerant and Cd-sensitive turnip. Specifically, BrrHMA genes in the Zn/Cd/Co/Pb subclass shared the same coding sequence but were differentially expressed in Cd-tolerant and Cd-sensitive turnip landraces under Cd stress. Our findings suggest that the stable expression and up-regulated expression of BrrHMA Zn/Cd/Co/Pb subclass genes under Cd stress may contribute to the higher Cd tolerance of turnip landraces.

Key words: Heavy metal ATPase, Cadmium, Turnip, Transmembrane helix, Differential gene expression

Yuansheng Wu, Xiong Li, Di Chen, Xi Han, Boqun Li, Yonghong Yang, Yongping Yang. Comparative expression analysis of heavy metal ATPase subfamily genes between Cd-tolerant and Cd-sensitive turnip landraces[J]. Plant Diversity, 2019, 41(04): 275-283.

图/表 7

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建群种 Constructive species	原生林 Primary forest			次生林 Secondary forest
建群种 Constructive species	圆果化香树 Platycarya longipes	伞花木 Eurycorymbus cavaleriei	青檀 Pteroceltis tatarinowii	圆叶乌桕 Sapium rotundifolium	八角枫 Alangium chinense	黄荆 Vitex negundo
裸岩率 Bare rock (%)	48	55	70	15	35	12
建群种高 (m) (平均值±标准误差) Height of constructive species (m) (mean ± SE)	4.92 ± 0.56	7.67 ± 0.63	8.88 ± 0.71	4.74 ± 0.45	3.56 ± 0.38	1.86 ± 0.23
郁闭度 Canopy closure	0.55	0.61	0.48	0.67	0.82	0.74
物种数 Species number	13	17	9	38	33	42
香农-威尔指数 Shannon-Winner index	3.22	3.14	3.48	1.67	1.91	1.54
均匀度 Evenness	0.83	0.77	0.89	0.58	0.62	0.55
辛普森指数 Simpson’s index	0.81	0.78	0.95	0.55	0.64	0.52

建群种 Constructive species	原生林 Primary forest			次生林 Secondary forest
建群种 Constructive species	圆果化香树 Platycarya longipes	伞花木 Eurycorymbus cavaleriei	青檀 Pteroceltis tatarinowii	圆叶乌桕 Sapium rotundifolium	八角枫 Alangium chinense	黄荆 Vitex negundo
裸岩率 Bare rock (%)	48	55	70	15	35	12
建群种高 (m) (平均值±标准误差) Height of constructive species (m) (mean ± SE)	4.92 ± 0.56	7.67 ± 0.63	8.88 ± 0.71	4.74 ± 0.45	3.56 ± 0.38	1.86 ± 0.23
郁闭度 Canopy closure	0.55	0.61	0.48	0.67	0.82	0.74
物种数 Species number	13	17	9	38	33	42
香农-威尔指数 Shannon-Winner index	3.22	3.14	3.48	1.67	1.91	1.54
均匀度 Evenness	0.83	0.77	0.89	0.58	0.62	0.55
辛普森指数 Simpson’s index	0.81	0.78	0.95	0.55	0.64	0.52

含量 Content	项目 Item	原生林 Primary forest			次生林 Secondary forest
含量 Content	项目 Item	圆果化香树 Platycarya longipes	伞花木 Eurycorymbus cavaleriei	青檀 Pteroceltis tatarinowii	圆叶乌桕 Sapium rotundifolium	八角枫 Alangium chinense	黄荆 Vitex negundo
碳 C (mg·g^-1)	植物 Plant	429.3 ± 9.7^aA	438.8 ± 10.3^aA	432.3 ± 9.3^aA	422.3 ± 11.3^abA	416.6 ± 12.0^bA	425.9 ± 12.4^abA
	凋落物 Litter	395.1 ± 8.9^B	412.9 ± 9.0^A	399.4 ± 10.5^B	392.8 ± 10.6^B	385.2 ± 11.1^B	391.5 ± 12.5^B
	土壤 Soil	106.4 ± 6.2^abC	112.4 ± 7.1^aB	100.0 ± 6.6^bC	83.5 ± 7.4^cC	76.9 ± 6.0^cdC	72.9 ± 5.2^dC
氮 N (mg·g^-1)	植物 Plant	22.6 ± 4.4^aA	23.0 ± 4.1^aA	22.1 ± 3.7^aA	18.7 ±3.1^cA	19.9 ± 2.7^bcA	20.7 ± 2.7^bA
	凋落物 Litter	13.1 ± 2.3^B	12.5 ± 1.8^B	13.2 ± 2.1^B	12.7 ± 2.0^B	12.1 ± 3.1^B	12.8 ± 2.4^B
	土壤 Soil	6.4 ± 1.2^abC	5.7 ± 0.8^bC	5.9 ± 1.1^abC	7.2 ± 1.2^aC	6.8 ± 1.0^abC	6.1 ± 1.4^abC
磷 P (mg·g^-1)	植物 Plant	1.3 ± 0.4^A	1.4 ± 0.4^B	1.2 ± 0.4^B	1.1 ± 0.3	1.1 ± 0.4^A	1.2 ± 0.5
	凋落物 Litter	1.0 ± 0.1^B	1.1 ± 0.3^C	1.0 ± 0.3^C	0.8 ± 0.2	0.7 ± 0.4^B	0.8 ± 0.4
	土壤 Soil	1.4 ± 0.5^abA	1.7 ± 0.6^aA	1.6 ± 0.6^abA	1.2 ± 0.4^b	1.5 ± 0.5^abA	1.3 ± 0.4^b

含量 Content	项目 Item	原生林 Primary forest			次生林 Secondary forest
含量 Content	项目 Item	圆果化香树 Platycarya longipes	伞花木 Eurycorymbus cavaleriei	青檀 Pteroceltis tatarinowii	圆叶乌桕 Sapium rotundifolium	八角枫 Alangium chinense	黄荆 Vitex negundo
碳 C (mg·g^-1)	植物 Plant	429.3 ± 9.7^aA	438.8 ± 10.3^aA	432.3 ± 9.3^aA	422.3 ± 11.3^abA	416.6 ± 12.0^bA	425.9 ± 12.4^abA
	凋落物 Litter	395.1 ± 8.9^B	412.9 ± 9.0^A	399.4 ± 10.5^B	392.8 ± 10.6^B	385.2 ± 11.1^B	391.5 ± 12.5^B
	土壤 Soil	106.4 ± 6.2^abC	112.4 ± 7.1^aB	100.0 ± 6.6^bC	83.5 ± 7.4^cC	76.9 ± 6.0^cdC	72.9 ± 5.2^dC
氮 N (mg·g^-1)	植物 Plant	22.6 ± 4.4^aA	23.0 ± 4.1^aA	22.1 ± 3.7^aA	18.7 ±3.1^cA	19.9 ± 2.7^bcA	20.7 ± 2.7^bA
	凋落物 Litter	13.1 ± 2.3^B	12.5 ± 1.8^B	13.2 ± 2.1^B	12.7 ± 2.0^B	12.1 ± 3.1^B	12.8 ± 2.4^B
	土壤 Soil	6.4 ± 1.2^abC	5.7 ± 0.8^bC	5.9 ± 1.1^abC	7.2 ± 1.2^aC	6.8 ± 1.0^abC	6.1 ± 1.4^abC
磷 P (mg·g^-1)	植物 Plant	1.3 ± 0.4^A	1.4 ± 0.4^B	1.2 ± 0.4^B	1.1 ± 0.3	1.1 ± 0.4^A	1.2 ± 0.5
	凋落物 Litter	1.0 ± 0.1^B	1.1 ± 0.3^C	1.0 ± 0.3^C	0.8 ± 0.2	0.7 ± 0.4^B	0.8 ± 0.4
	土壤 Soil	1.4 ± 0.5^abA	1.7 ± 0.6^aA	1.6 ± 0.6^abA	1.2 ± 0.4^b	1.5 ± 0.5^abA	1.3 ± 0.4^b

对象 Item	研究区域 Region	C (mg·g^-1)	N (mg·g^-1)	P (mg·g^-1)	C:N	C:P	N:P	文献 References
植物 Plant	广西喀斯特地区 Karst region, Guangxi	427.5	21.2	1.2	19.8	356	18	This study
	北京及其周边 Beijing and it’s periphery	451.0	26.1	2.0	17.4	226	13	Han et al., 2009
	吉林长白山 Changbaishan, Jilin	481.5	19.5	1.5	24.7	321	13	王晶苑等, 2011 Wang et al., 2011
	广东鼎湖山 Dinghushan, Guangdong	504.9	19.8	0.9	25.5	561	22	王晶苑等, 2011 Wang et al., 2011
	中国 China	-	18.6	1.2	-	-	16	Han et al., 2005
凋落物 Litter	广西喀斯特地区 Karst region, Guangxi	396.2	12.7	0.9	31.4	440	14	This study
	北京东灵山 Donglingshan, Beijing	447.3	8.0	0.4	55.9	1 118	20	Wang & Huang, 2001
	吉林长白山 Changbaishan, Jilin	496.8	12.9	0.9	39.4	552	14	王晶苑等, 2011 Wang et al., 2011
	广东鼎湖山 Dinghushan, Guangdong	522.1	14.2	0.4	37.3	1 305	35	王晶苑等, 2011 Wang et al., 2011
	全球 Global	-	10.9	0.9	-	-	12	Kang et al., 2010
土壤 Soil	广西喀斯特地区 Karst region, Guangxi (0-10 cm)	92.0	6.4	1.5	15.3	61	4	This study
	广西喀斯特地区 Karst region, Guangxi (0-20 cm)	48.4	5.4	0.5	8.8	97	11	Yu et al., 2014
	内蒙古草原 Steppe in Inner Mongolia (0-10 cm)	25.3	1.7	0.1	14.9	253	17	Yin et al., 2010
	闽江河口湿地 Wetlands in Minjiang river estuary (0-15 cm)	18.8	2.1	0.8	8.9	24	3	王维奇等, 2011 Wang et al., 2011
	甘肃民勤绿洲 Minqin oasis, Gansu (0-20 cm)	3.0	0.3	0.3	10.0	10	1	Yang et al., 2011

Comparative expression analysis of heavy metal ATPase subfamily genes between Cd-tolerant and Cd-sensitive turnip landraces

Comparative expression analysis of heavy metal ATPase subfamily genes between Cd-tolerant and Cd-sensitive turnip landraces

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