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| Status |
Public on Nov 28, 2018 |
| Title |
Genome-wide analysis of RNAs associated with Populus euphratica Oliv. heterophyll morphogenesis [miRNA-Seq] |
| Organism |
Populus euphratica |
| Experiment type |
Non-coding RNA profiling by high throughput sequencing
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| Summary |
The desert plant Populus euphratica Oliv. has typical heterophylly; linear (Li), lanceolate (La), ovate (Ov) and broad-ovate (Bo) leaves grow in turn from young to adult trees. It is therefore a potential model organism for leaf development. To investigate the roles of RNAs (including mRNAs, miRNAs, lncRNAs and circRNAs) in the morphogenesis of P. euphratica heterophyll, the juvenile heterophyll were respectively sampled, and then their expression patterns were analyzed by small RNA sequencing and strand-specific RNA sequencing. We found that 1374 mRNAs, 19 miRNAs, 71 lncRNAs and 2 circRNAs were P. euphratica heterophyll morphogenesis associated (PHMA) RNAs, among them, 17 PHMA miRNAs could disturb the expression of 46 PHMA mRNAs, furthermore, 11 lncRNAs and 2 circRNAs interacted with 27 PHMA mRNAs by ceRNA hypothesis, respectively. According to GO and KEGG pathway analysis, PHMA RNAs were mainly involved in metabolic, response to stimulus and developmental processes. Our results indicated that both external environmental factors and genetic factors of P. euphratica co-regulated the expression of PHMA RNAs, caused the cell division was repressed, while cell growth was reinforced, and resulted in the morphogenesis of P. euphratica heterophyll, ultimately.
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| Overall design |
Small RNA-seq of linear (Li), lanceolate (La), ovate (Ov) and broad-ovate (Bo) leaf groups of Populus euphratica, every group including three biology replicates, were named Li1, Li2, Li3, La1, La2, La3, Ov1, Ov2, Ov3, Bo1, Bo2 and Bo3, respectively.And all the raw data of miRNA-seq have been submitted to Sqeuence Read Archive(SRA) of NCBI under accession number SRP162961.
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| Contributor(s) |
Zhao LF, Qin SW, Li CL, Guo ZZ, Bao LH |
| Citation(s) |
30467318 |
| BioProject |
PRJNA494027 |
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| Submission date |
Oct 04, 2018 |
| Last update date |
Nov 28, 2018 |
| Contact name |
Shaowei Qin |
| E-mail(s) |
qinshaowei2005@126.com
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| Organization name |
Tarim University
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| Department |
College of Life Sciences
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| Street address |
Hongqiao Road 705
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| City |
Alar |
| State/province |
Xinjiang |
| ZIP/Postal code |
843300 |
| Country |
China |
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| Platforms (1) |
| GPL25640 |
Illumina HiSeq 2500 (Populus euphratica) |
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| Samples (12)
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| This SubSeries is part of SuperSeries: |
| GSE120822 |
Genome-wide analysis of RNAs associated with Populus euphratica Oliv. heterophyll morphogenesis |
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| Relations |
| SRA |
SRP162961 |
| Supplementary file |
Size |
Download |
File type/resource |
| GSE120821_RAW.tar |
50.0 Kb |
(http)(custom) |
TAR (of TXT) |
SRA Run Selector |
| Raw data are available in SRA |
| Processed data provided as supplementary file |
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