High-throughput degradome sequencing can be used to gain insights into microRNA precursor metabolism

Journal of Experimental Botany

Volumn 61, Issue 14, 2010, Pages 3833-3837

  Meng, Yijun ^a   Gou, Lingfeng ^a   Chen, Dijun ^a   Wu, Ping ^a   Chen, Ming ^a  

^a ZHEJIANG UNIVERSITY   (China)

Author keywords

Degradome; high throughput sequencing; metabolism; miRNA; plant; pre miRNA; pri miRNA; self regulation

Indexed keywords

COMPLEMENTARY DNA; MICRORNA; PLANT RNA; RNA PRECURSOR;

ARTICLE; CHEMISTRY; GENETICS; HIGH THROUGHPUT SCREENING; METABOLISM; PLANT; SEQUENCE ANALYSIS;

DNA, COMPLEMENTARY; HIGH-THROUGHPUT SCREENING ASSAYS; MICRORNAS; PLANTS; RNA PRECURSORS; RNA, PLANT; SEQUENCE ANALYSIS, RNA;

EID: 77956584277     PISSN: 00220957     EISSN: 14602431     Source Type: Journal    
DOI: 10.1093/jxb/erq209     Document Type: Article

References (13)

1. Addo-Quaye C, Eshoo TW, Bartel DP, Axtell MJ. 2008. Endogenous siRNA and miRNA targets identified by sequencing of the Arabidopsis degradome. Current Biology 18, 758-762.
2. Buhtz A, Springer F, Chappell L, Baulcombe DC, Kehr J. 2008. Identification and characterization of small RNAs from the phloem of Brassica napus. The Plant Journal 53, 739-749.
3. Carthew RW, Sontheimer EJ. 2009. Origins and mechanisms of miRNAs and siRNAs. Cell 136, 642-655.
4. German MA, Pillay M, Jeong DH, et al. 2008. Global identification of microRNA-target RNA pairs by parallel analysis of RNA ends. Nature Biotechnology 26, 941-946.
5. Griffiths-Jones S, Grocock RJ, van Dongen S, Bateman A, Enright AJ. 2006. miRBase: microRNA sequences, targets and gene nomenclature. Nucleic Acids Research 34, D140-D144.
6. Ji X. 2008. The mechanism of RNase III action: how dicer dices. Current Topics in Microbiology and Immunology 320, 99-116.
7. Jones-Rhoades MW, Bartel DP, Bartel B. 2006. MicroRNAs and their regulatory roles in plants. Annual Review of Plant Biology 57, 19-53.
8. Lee Y, Kim M, Han J, Yeom KH, Lee S, Baek SH, Kim VN. 2004. MicroRNA genes are transcribed by RNA polymerase II. EMBO Journal 23, 4051-4060.
9. Li YF, Zheng Y, Addo-Quaye C, Zhang L, Saini A, Jagadeeswaran G, Axtell MJ, Zhang W, Sunkar R. 2010. Transcriptome-wide identification of microRNA targets in rice. The Plant Journal 62, 742-759.
10. Meng Y, Huang F, Shi Q, Cao J, Chen D, Zhang J, Ni J, Wu P, Chen M. 2009. Genome-wide survey of rice microRNAs and microRNA-target pairs in the root of a novel auxin-resistant mutant. Planta 230, 883-898.
11. Nakano M, Nobuta K, Vemaraju K, Tej SS, Skogen JW, Meyers BC. 2006. Plant MPSS databases: signature-based transcriptional resources for analyses of mRNA and small RNA. Nucleic Acids Research 34, D731-D735.
12. Voinnet O. 2009. Origin, biogenesis, and activity of plant microRNAs. Cell 136, 669-687.
13. Zhou M, Gu L, Li P, Song X, Wei L, Chen Z, Cao X. 2010. Degradome sequencing reveals endogenous small RNA targets in rice (Oryza sativa L. ssp. indica). Frontiers of Biology 5, 67-90.