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Series GSE114075 Query DataSets for GSE114075
Status Public on Jul 06, 2018
Title Biogenesis of a young, 22-nt microRNA in Phaseoleae species by precursor-programmed uridylation
Organisms Arabidopsis thaliana; Cajanus cajan; Vigna radiata
Experiment type Non-coding RNA profiling by high throughput sequencing
Summary Phased, secondary siRNAs (phasiRNAs) represent a class of small RNAs in plants generated via distinct biogenesis pathways, predominantly dependent on the activity of 22 nt miRNAs. Most 22 nt miRNAs are processed by DCL1 from miRNA precursors containing an asymmetric bulge, yielding a 22/21 nt miRNA/miRNA* duplex. Here we show that miR1510, a soybean miRNA capable of triggering phasiRNA production from numerous NB-LRRs, previously described as 21 nt in its mature form, primarily accumulates as a 22 nt isoform via monouridylation. We demonstrate that in Arabidopsis, this uridylation is performed by HESO1. Biochemical experiments showed that the 3' terminus of miR1510 is only partially 2'-O-methylated, because of the terminal mispairing in the miR1510/miR1510* duplex that inhibits HEN1 activity in soybean. miR1510 emerged in the Phaseoleae ~41 to 42 MYA with a conserved precursor structure yielding a 22 nt monouridylated form, yet a variant in mung bean is processed directly in a 22 nt mature form. This analysis of miR1510 yields two observations: (1) plants can utilize post-processing modification to generate abundant 22 nt miRNA isoforms to more efficiently regulate target mRNA abundances; (2) comparative analysis demonstrates an example of selective optimization of precursor processing of a young plant miRNA.
 
Overall design Small RNA sequencing from pigeon pea, mung bean, and Arabidopsis (with soybean MIR1510a transgene) leaves.
 
Contributor(s) Meyers BC, Fei Q
Citation(s) 30012624
Submission date May 04, 2018
Last update date Jan 23, 2019
Contact name Blake C. Meyers
E-mail(s) bmeyers@danforthcenter.org
Phone 314-587-1422
Organization name Donald Danforth Plant Science Center
Lab Meyers lab
Street address 975 N Warson Road
City St. Louis
State/province MO
ZIP/Postal code 63132
Country USA
 
Platforms (4)
GPL17639 Illumina HiSeq 2500 (Arabidopsis thaliana)
GPL19580 Illumina NextSeq 500 (Arabidopsis thaliana)
GPL24964 Illumina HiSeq 2500 (Cajanus cajan)
Samples (5)
GSM3132401 Pigeon pea leaf
GSM3132402 Mung bean leaf
GSM3132403 Arabidopsis Col-0 miR1510
Relations
BioProject PRJNA464063
SRA SRP144663

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Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE114075_RAW.tar 94.2 Mb (http)(custom) TAR (of TXT)
SRA Run SelectorHelp
Raw data are available in SRA
Processed data provided as supplementary file

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