Identification of Zinc Deficiency-Responsive MicroRNAs in Brassica juncea Roots by Small RNA Sequencing

doi:10.1016/S2095-3119(13)60641-3

Journal of Integrative Agriculture ›› 2013, Vol. 12 ›› Issue (11): 2036-2044.DOI: 10.1016/S2095-3119(13)60641-3

Identification of Zinc Deficiency-Responsive MicroRNAs in Brassica juncea Roots by Small RNA Sequencing

SHI Dong-qing, ZHANG Yuan, MA Jin-hu, LI Yu-long , XU Jin

1.Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Mengla 666303, P.R.China
2.College of Life Sciences, Henan University, Kaifeng 475001, P.R.China
3.College of Life Science and Geography, Qinghai Normal University, Xining 810008, P.R.China
4.College of Agronomy, Shanxi Agricultural University, Taigu 030801, P.R.China
5.Key Laboratory of Agricultural Water Resources, Center for Agricultural Resources Research/Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang 050021, P.R.China

收稿日期:2013-06-09 出版日期:2013-11-01 发布日期:2013-12-08
通讯作者: Correspondence XU Jin, E-mail: xujin@sjziam.ac.cn
基金资助:
This work was supported by the Knowledge Innovation Program of the Chinese Academy of Sciences (KSCX2- EW-Q-25), the National Natural Sciences Foundation of China (31170228, 31272239), the Key Project of State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography of Chinese Academy of Sciences, and Hebei Province Natural Sciences Foundation for Distinguished Young Scientists, China (C2013503042).

Identification of Zinc Deficiency-Responsive MicroRNAs in Brassica juncea Roots by Small RNA Sequencing

SHI Dong-qing, ZHANG Yuan, MA Jin-hu, LI Yu-long , XU Jin

1.Xishuangbanna Tropical Botanical Garden, Chinese Academy of Sciences, Mengla 666303, P.R.China
2.College of Life Sciences, Henan University, Kaifeng 475001, P.R.China
3.College of Life Science and Geography, Qinghai Normal University, Xining 810008, P.R.China
4.College of Agronomy, Shanxi Agricultural University, Taigu 030801, P.R.China
5.Key Laboratory of Agricultural Water Resources, Center for Agricultural Resources Research/Institute of Genetics and Developmental Biology, Chinese Academy of Sciences, Shijiazhuang 050021, P.R.China

Received:2013-06-09 Online:2013-11-01 Published:2013-12-08
Contact: Correspondence XU Jin, E-mail: xujin@sjziam.ac.cn
Supported by:
This work was supported by the Knowledge Innovation Program of the Chinese Academy of Sciences (KSCX2- EW-Q-25), the National Natural Sciences Foundation of China (31170228, 31272239), the Key Project of State Key Laboratory of Desert and Oasis Ecology, Xinjiang Institute of Ecology and Geography of Chinese Academy of Sciences, and Hebei Province Natural Sciences Foundation for Distinguished Young Scientists, China (C2013503042).

摘要/Abstract

摘要： The importance of zinc (Zn) as a micronutrient essential for plant growth and development is becoming increasingly apparent. Much of the world’s soil is Zn-deficient, and soil-based Zn deficiency is often accompanied by Zn deficiency in human populations. MicroRNAs (miRNAs) play important roles in the regulation of plant gene expression at the level of translation. Many miRNAs involved in the modulation of heavy metal toxicity responses in plants have been identified; however, the role of miRNAs in the plant Zn deficiency response is almost completely unknown. Using high-throughput Solexa sequencing, we identified several miRNAs that respond to Zn deficiency in Brassica juncea roots. At least 21 conserved candidate miRNA families, and 101 individual members within those families, were identified in both the control and the Zn-deficient B. juncea roots. Among this, 15 miRNAs from 9 miRNA families were differentially expressed in the control and Zn-deficient plants. Of the 15 differentially expressed miRNAs, 13 were up-regulated in the Zn-deficient B. juncea roots, and only two, miR399b and miR845a, were down-regulated. Bioinformatics analysis indicated that these miRNAs were involved in modulating phytohormone response, plant growth and development, and abiotic stress responses in B. juncea roots. These data help to lay the foundation for further understanding of miRNA function in the regulation of the plant Zn deficiency response and its impact on plant growth and development.

关键词: Zn deficiency , Brassica juncea , microRNA , deep sequencing

Abstract: The importance of zinc (Zn) as a micronutrient essential for plant growth and development is becoming increasingly apparent. Much of the world’s soil is Zn-deficient, and soil-based Zn deficiency is often accompanied by Zn deficiency in human populations. MicroRNAs (miRNAs) play important roles in the regulation of plant gene expression at the level of translation. Many miRNAs involved in the modulation of heavy metal toxicity responses in plants have been identified; however, the role of miRNAs in the plant Zn deficiency response is almost completely unknown. Using high-throughput Solexa sequencing, we identified several miRNAs that respond to Zn deficiency in Brassica juncea roots. At least 21 conserved candidate miRNA families, and 101 individual members within those families, were identified in both the control and the Zn-deficient B. juncea roots. Among this, 15 miRNAs from 9 miRNA families were differentially expressed in the control and Zn-deficient plants. Of the 15 differentially expressed miRNAs, 13 were up-regulated in the Zn-deficient B. juncea roots, and only two, miR399b and miR845a, were down-regulated. Bioinformatics analysis indicated that these miRNAs were involved in modulating phytohormone response, plant growth and development, and abiotic stress responses in B. juncea roots. These data help to lay the foundation for further understanding of miRNA function in the regulation of the plant Zn deficiency response and its impact on plant growth and development.

Key words: Zn deficiency , Brassica juncea , microRNA , deep sequencing

SHI Dong-qing, ZHANG Yuan, MA Jin-hu, LI Yu-long , XU Jin. Identification of Zinc Deficiency-Responsive MicroRNAs in Brassica juncea Roots by Small RNA Sequencing[J]. Journal of Integrative Agriculture, 2013, 12(11): 2036-2044.

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Identification of Zinc Deficiency-Responsive MicroRNAs in Brassica juncea Roots by Small RNA Sequencing

Identification of Zinc Deficiency-Responsive MicroRNAs in Brassica juncea Roots by Small RNA Sequencing

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