Combined small RNA and degradome sequencing reveals novel miRNAs and their targets in response to low nitrate availability in maize

doi:10.1093/aob/mct133

	Combined small RNA and degradome sequencing reveals novel miRNAs and their targets in response to low nitrate availability in maize
	Zhao, Yongping 1; Xu, Zhenhua 1,4; Mo, Qiaocheng 1,3; Zou, Cheng 1; Li, Wenxue 1; Xu, Yunbi 1,2; Xie, Chuanxiao 1
刊名	ANNALS OF BOTANY
	2013
卷号	112 期号:3 页码:633-642
关键词	Maize Zea mays low-nitrate stress adaptation miRNA degradome combined analysis
ISSN号	0305-7364
DOI	10.1093/aob/mct133
通讯作者	Zhao, Yongping
英文摘要	MicroRNAs (miRNAs) play an important role in the responses and adaptation of plants to many stresses including low nitrogen (LN). Characterizing relevant miRNAs will improve our understanding of nitrogen (N) use efficiency and LN tolerance and thus contribute to sustainable maize production. The objective of this study was to identify novel and known miRNAs and their targets involved in the response and adaptation of maize (Zea mays) to LN stress.MiRNAs and their targets were identified by combined analysis of deep sequencing of small RNA and degradome libraries. The identity of target genes was confirmed by gene-specific RNA ligase-mediated rapid amplification of 5 cDNA ends (RLM-RACE) and by quantitative expression analysis.Over 150 million raw reads of small RNA and degradome sequence data were generated. A total of 46 unique mature miRNA sequences belonging to 23 maize miRNA families were sequenced. Eighty-five potentially new miRNAs were identified, with corresponding miRNA also identified for 65 of them. Twenty-five new miRNAs showed 2-fold relative change in response to LN. In addition to known miR169 species, two novel putative miR169 species were identified. Deep sequencing of miRNAs and the degradome, and RLM-RACE and quantitative polymerase chain reaction (PCR) analyses of their targets showed that miRC10- and miRC68-mediated target cleavage may play a major role among miR169 families in the adaptation to LN by maize seedlings.Small RNA and degradome sequencing combined with quantitative reverse transcriptionPCR and RLM-RACE verification enabled the efficient identification of miRNAs and their target genes. The generated data sets and the two novel miR169 species that were identified will contribute to our understanding of the physiological basis of adaptation to LN stress in maize plants.
学科主题	Plant Sciences ; PLANT SCIENCES
语种	英语
出版者	OXFORD UNIV PRESS
WOS记录号	WOS:000322337800015
内容类型	期刊论文
源URL	[http://111.203.20.206/handle/2HMLN22E/5023]
专题	作物科学研究所_遗传育种系
作者单位	1.Chinese Acad Agr Sci, Inst Crop Sci, Natl Key Facil Crop Gene Resources & Genet Improv, Beijing 100081, Peoples R China 2.Int Maize & Wheat Improvement Ctr CIMMYT, El Batan, Mexico 3.Anhui Agr Univ, Hefei 230036, Anhui, Peoples R China 4.Univ Guelph, Dept Mol & Cellular Biol, Guelph, ON N1G 2W1, Canada
推荐引用方式 GB/T 7714	Zhao, Yongping,Xu, Zhenhua,Mo, Qiaocheng,et al. Combined small RNA and degradome sequencing reveals novel miRNAs and their targets in response to low nitrate availability in maize[J]. ANNALS OF BOTANY,2013,112(3):633-642.
APA	Zhao, Yongping.,Xu, Zhenhua.,Mo, Qiaocheng.,Zou, Cheng.,Li, Wenxue.,...&Xie, Chuanxiao.(2013).Combined small RNA and degradome sequencing reveals novel miRNAs and their targets in response to low nitrate availability in maize.ANNALS OF BOTANY,112(3),633-642.
MLA	Zhao, Yongping,et al."Combined small RNA and degradome sequencing reveals novel miRNAs and their targets in response to low nitrate availability in maize".ANNALS OF BOTANY 112.3(2013):633-642.