MapToCleave: High-throughput profiling of microRNA biogenesis in living cells
Summary: Previous large-scale studies have uncovered many features that determine the processing of microRNA (miRNA) precursors; however, they have been conducted in vitro. Here, we introduce MapToCleave, a method to simultaneously profile processing of thousands of distinct RNA structures in living...
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Elsevier
2021
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oai:doaj.org-article:a48756e75c7e4b9698433294be9c47f42021-11-18T04:47:57ZMapToCleave: High-throughput profiling of microRNA biogenesis in living cells2211-124710.1016/j.celrep.2021.110015https://doaj.org/article/a48756e75c7e4b9698433294be9c47f42021-11-01T00:00:00Zhttp://www.sciencedirect.com/science/article/pii/S2211124721014972https://doaj.org/toc/2211-1247Summary: Previous large-scale studies have uncovered many features that determine the processing of microRNA (miRNA) precursors; however, they have been conducted in vitro. Here, we introduce MapToCleave, a method to simultaneously profile processing of thousands of distinct RNA structures in living cells. We find that miRNA precursors with a stable lower basal stem are more efficiently processed and also have higher expression in vivo in tissues from 20 animal species. We systematically compare the importance of known and novel sequence and structural features and test biogenesis of miRNA precursors from 10 animal and plant species in human cells. Lastly, we provide evidence that the GHG motif better predicts processing when defined as a structure rather than sequence motif, consistent with recent cryogenic electron microscopy (cryo-EM) studies. In summary, we apply a screening assay in living cells to reveal the importance of lower basal stem stability for miRNA processing and in vivo expression.Wenjing KangBastian FrommAnna J. HoubenEirik HøyeDaniela BezdanCarme ArnanKim ThraneMichaela AspRory JohnsonInna BiryukovaMarc R. FriedländerElsevierarticlemiRNAmicroRNAbiogenesislarge-scalecomparative biologyRNA structureBiology (General)QH301-705.5ENCell Reports, Vol 37, Iss 7, Pp 110015- (2021) |
| institution |
DOAJ |
| collection |
DOAJ |
| language |
EN |
| topic |
miRNA microRNA biogenesis large-scale comparative biology RNA structure Biology (General) QH301-705.5 |
| spellingShingle |
miRNA microRNA biogenesis large-scale comparative biology RNA structure Biology (General) QH301-705.5 Wenjing Kang Bastian Fromm Anna J. Houben Eirik Høye Daniela Bezdan Carme Arnan Kim Thrane Michaela Asp Rory Johnson Inna Biryukova Marc R. Friedländer MapToCleave: High-throughput profiling of microRNA biogenesis in living cells |
| description |
Summary: Previous large-scale studies have uncovered many features that determine the processing of microRNA (miRNA) precursors; however, they have been conducted in vitro. Here, we introduce MapToCleave, a method to simultaneously profile processing of thousands of distinct RNA structures in living cells. We find that miRNA precursors with a stable lower basal stem are more efficiently processed and also have higher expression in vivo in tissues from 20 animal species. We systematically compare the importance of known and novel sequence and structural features and test biogenesis of miRNA precursors from 10 animal and plant species in human cells. Lastly, we provide evidence that the GHG motif better predicts processing when defined as a structure rather than sequence motif, consistent with recent cryogenic electron microscopy (cryo-EM) studies. In summary, we apply a screening assay in living cells to reveal the importance of lower basal stem stability for miRNA processing and in vivo expression. |
| format |
article |
| author |
Wenjing Kang Bastian Fromm Anna J. Houben Eirik Høye Daniela Bezdan Carme Arnan Kim Thrane Michaela Asp Rory Johnson Inna Biryukova Marc R. Friedländer |
| author_facet |
Wenjing Kang Bastian Fromm Anna J. Houben Eirik Høye Daniela Bezdan Carme Arnan Kim Thrane Michaela Asp Rory Johnson Inna Biryukova Marc R. Friedländer |
| author_sort |
Wenjing Kang |
| title |
MapToCleave: High-throughput profiling of microRNA biogenesis in living cells |
| title_short |
MapToCleave: High-throughput profiling of microRNA biogenesis in living cells |
| title_full |
MapToCleave: High-throughput profiling of microRNA biogenesis in living cells |
| title_fullStr |
MapToCleave: High-throughput profiling of microRNA biogenesis in living cells |
| title_full_unstemmed |
MapToCleave: High-throughput profiling of microRNA biogenesis in living cells |
| title_sort |
maptocleave: high-throughput profiling of microrna biogenesis in living cells |
| publisher |
Elsevier |
| publishDate |
2021 |
| url |
https://doaj.org/article/a48756e75c7e4b9698433294be9c47f4 |
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