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| Status |
Public on May 01, 2020 |
| Title |
NF90 Modulates Processing of a Subset of Human Pri-miRNAs |
| Organism |
Homo sapiens |
| Experiment type |
Expression profiling by high throughput sequencing
Non-coding RNA profiling by high throughput sequencing
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| Summary |
This SuperSeries is composed of the SubSeries listed below.
MicroRNAs are predicted to regulate the expression of more than 60% of mammalian genes and play fundamental roles in most biological processes. Deregulation of miRNA expression is a hallmark of most cancers and further investigation of mechanisms controlling miRNA biogenesis is needed. The dsRNA-binding protein, NF90 has been shown to act as a competitor of Microprocessor for a limited number of pri-miRNAs. Here, we show that NF90 has a more widespread effect on pri-miRNA biogenesis than previously thought. Genome-wide approaches revealed that NF90 is associated with the stem region of 38 pri-miRNAs, in a manner that is largely exclusive of Microprocessor. Following loss of NF90, 25 NF90-bound pri-miRNAs showed increased abundance of mature miRNA products. NF90-targeted pri-miRNAs are highly stable, having a lower free energy and fewer mismatches compared to all pri-miRNAs. Mutations leading to less stable structures reduced NF90 binding while increasing pri-miRNA stability led to ac quisition of NF90 association, as determined by RNA EMSA. NF90-bound and modulated pri-miRNAs are embedded in introns of host genes and expression of several is concomitantly modulated, including an oncogene implicated in metastasis of hepatocellular carcinoma, TIAM2. These data suggest that NF90 controls the processing of a subset of highly stable, intronic miRNAs.
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| Overall design |
Refer to individual Series
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| Citation(s) |
32427329 |
| Submission date |
Jun 06, 2019 |
| Last update date |
Jul 31, 2020 |
| Contact name |
Rosemary Kiernan |
| Organization name |
UMR9002 CNRS-UM
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| Lab |
Gene Regulation lab
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| Street address |
141 rue de la cardonille
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| City |
Montpellier |
| ZIP/Postal code |
34396 |
| Country |
France |
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| Platforms (2) |
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| Samples (18)
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| GSM3856525 |
HepG2, siScr Rep1 (RNA-seq) |
| GSM3856526 |
HepG2, siScr Rep2 (RNA-seq) |
| GSM3856527 |
HepG2, siScr Rep3 (RNA-seq) |
| GSM3856536 |
HEK-293t, siScr Rep1 (smallRNA-seq) |
| GSM3856537 |
HEK-293t, siScr Rep2 (smallRNA-seq) |
| GSM3856538 |
HEK-293t, siScr Rep3 (smallRNA-seq) |
| GSM3856539 |
HEK-293t, siNF90 Rep1 (smallRNA-seq) |
| GSM3856540 |
HEK-293t, siNF90 Rep2 (smallRNA-seq) |
| GSM3856541 |
HEK-293t, siNF90 Rep3 (smallRNA-seq) |
| GSM3856594 |
HepG2, siScr Rep1 (smallRNA-seq) |
| GSM3856595 |
HepG2, siScr Rep2 (smallRNA-seq) |
| GSM3856596 |
HepG2, siScr Rep3 (smallRNA-seq) |
| GSM3856597 |
HepG2, siNF90 Rep1 (smallRNA-seq) |
| GSM3856598 |
HepG2, siNF90 Rep2 (smallRNA-seq) |
| GSM3856599 |
HepG2, siNF90 Rep3 (smallRNA-seq) |
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| This SuperSeries is composed of the following SubSeries: |
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| Relations |
| BioProject |
PRJNA547631 |
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