MicroRNA profiling analysis throughout tomato fruit development and ripening reveals potential regulatory role of RIN on microRNAs accumulation

doi:10.1111/pbi.12297

	MicroRNA profiling analysis throughout tomato fruit development and ripening reveals potential regulatory role of RIN on microRNAs accumulation
	Gao, Chao ; Ju, Zheng ; Cao, Dongyan ; Zhai, Baiqiang ; Qin, Guozheng1 ; Zhu, Hongliang ; Fu, Daqi ; Luo, Yunbo ; Zhu, Benzhong
	2015
发表期刊	PLANT BIOTECHNOLOGY JOURNAL
ISSN	1467-7644
卷号	13 期号:3 页码:370-382
摘要	The development and ripening of tomato fruit are complex processes involving many gene regulatory pathways at the transcriptional and post-transcriptional level. Ripening inhibitor (RIN) is a vital transcription factor, which targets numerous ripening-related genes at the transcriptional level during tomato fruit ripening. MicroRNAs (miRNAs) are a class of short noncoding RNAs that play important roles in post-transcriptional gene regulation. To elucidate the potential regulatory relationship between rin and miRNAs during fruit development and ripening, we identified known miRNAs and profiled their expression in wild-type tomato and rin mutant using a deep sequencing approach combined with quantitative RT-PCR. A total of 33 known miRNA families were identified, of which 14 miRNA families were differently accumulated. Subsequent promoter analysis showed that possible RIN-binding motifs (CArG-box) tended to occur frequently in the promoter regions of partial differently expressed miRNAs. In addition, ethylene may participate in the regulation of miRNAs accumulation during tomato fruit ripening. Chromatin immunoprecipitation (ChIP) and electrophoretic mobility shift assay confirmed the direct binding of RIN to the promoter of MIR172a. Collectively, these results showed a close correlation between miRNA expression and RIN as well as ethylene, which further elucidated the regulatory roles of miRNAs during fruit development and ripening and enriched the regulatory network of RIN in tomato fruit.
关键词	RIN microRNA fruit ripening ethylene high-throughput sequencing tomato
学科领域	Biotechnology & Applied Microbiology ; Plant Sciences
DOI	10.1111/pbi.12297
收录类别	SCI
语种	英语
WOS关键词	SOLANUM-LYCOPERSICON ; DEGRADOME ANALYSIS ; GENETIC-REGULATION ; PLANT MICRORNAS ; READ ALIGNMENT ; SHORT RNAS ; TRANSCRIPTION ; ARABIDOPSIS ; IDENTIFICATION ; EXPRESSION
WOS研究方向	Science Citation Index Expanded (SCI-EXPANDED)
WOS记录号	WOS:000352586600009
出版者	WILEY
文献子类	Article
出版地	HOBOKEN
EISSN	1467-7652
资助机构	National Natural Sciences Foundation of China [31271959] ; National Basic Research Program ('973' program) of China [2011CB100604] ; Chinese Universities Scientific Fund [2014RC006]
作者邮箱	hlzhu@cau.edu.cn ; zbz@cau.edu.cn
作品OA属性	Bronze
引用统计	被引频次：76[WOS] [WOS记录] [WOS相关记录]
文献类型	期刊论文
条目标识符	http://ir.ibcas.ac.cn/handle/2S10CLM1/25787
专题	中科院北方资源植物重点实验室
作者单位	1.China Agr Univ, Coll Food Sci & Nutr Engn, Dept Food Biotechnol, Beijing 100094, Peoples R China 2.Chinese Acad Sci, Inst Bot, Key Lab Plant Resources, Beijing, Peoples R China
推荐引用方式 GB/T 7714	Gao, Chao,Ju, Zheng,Cao, Dongyan,et al. MicroRNA profiling analysis throughout tomato fruit development and ripening reveals potential regulatory role of RIN on microRNAs accumulation[J]. PLANT BIOTECHNOLOGY JOURNAL,2015,13(3):370-382.
APA	Gao, Chao.,Ju, Zheng.,Cao, Dongyan.,Zhai, Baiqiang.,Qin, Guozheng.,...&Zhu, Benzhong.(2015).MicroRNA profiling analysis throughout tomato fruit development and ripening reveals potential regulatory role of RIN on microRNAs accumulation.PLANT BIOTECHNOLOGY JOURNAL,13(3),370-382.
MLA	Gao, Chao,et al."MicroRNA profiling analysis throughout tomato fruit development and ripening reveals potential regulatory role of RIN on microRNAs accumulation".PLANT BIOTECHNOLOGY JOURNAL 13.3(2015):370-382.

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