Biophysical characterisation of human LincRNA-p21 sense and antisense Alu inverted repeats

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dc.contributor.authorD'Souza, Michael H.
dc.contributor.authorMrozowich, Tyler
dc.contributor.authorBadmalia, Maulik D.
dc.contributor.authorGeeraert, Mitchell
dc.contributor.authorFrederickson, Angela
dc.contributor.authorHenrickson, Amy
dc.contributor.authorDemeler, Borries
dc.contributor.authorWolfinger, Michael T.
dc.contributor.authorPatel, Trushar R.
dc.date.accessioned2022-08-26T21:36:15Z
dc.date.available2022-08-26T21:36:15Z
dc.date.issued2022
dc.descriptionOpen access article. Creative Commons Attribution-NonCommercial 4.0 International license (CC BY-NC 4.0) appliesen_US
dc.description.abstractHuman Long Intergenic Noncoding RNA-p21 (LincRNA-p21) is a regulatory noncoding RNA that plays an important role in promoting apoptosis. LincRNA-p21 is also critical in down-regulating many p53 target genes through its interaction with a p53 repressive complex. The interaction between LincRNA-p21 and the repressive complex is likely dependent on the RNA tertiary structure. Previous studies have determined the two-dimensional secondary structures of the sense and antisense human LincRNA-p21 AluSx1 IRs using SHAPE. However, there were no insights into its three-dimensional structure. Therefore, we in vitro transcribed the sense and antisense regions of LincRNA-p21 AluSx1 Inverted Repeats (IRs) and performed analytical ultracentrifugation, size exclusion chromatography, light scattering, and small angle X-ray scattering (SAXS) studies. Based on these studies, we determined low-resolution, three-dimensional structures of sense and antisense LincRNA-p21. By adapting previously known two-dimensional information, we calculated their sense and antisense high-resolution models and determined that they agree with the low-resolution structures determined using SAXS. Thus, our integrated approach provides insights into the structure of LincRNA-p21 Alu IRs. Our study also offers a viable pipeline for combining the secondary structure information with biophysical and computational studies to obtain high-resolution atomistic models for long noncoding RNAs.en_US
dc.description.peer-reviewYesen_US
dc.identifier.citationD'Souza, M. H., Mrozowich, T., Badmalia, M. D., Geeraert, M., Frederickson, A., Henrickson, A., Demeler, B., Wolfinger, M. T., & Patel, T. R. (2022). Biophysical characterisation of human LincRNA-p21 sense and antisense Alu inverted repeats. Nucleic Acids Research, 50(10), 5881-5898. https://doi.org/10.1093/nar/gkac414en_US
dc.identifier.urihttps://hdl.handle.net/10133/6327
dc.language.isoen_CAen_US
dc.publisherOxford University Pressen_US
dc.publisher.departmentDepartment of Chemistry and Biochemistryen_US
dc.publisher.facultyArts and Scienceen_US
dc.publisher.institutionUniversity of Lethbridgeen_US
dc.publisher.institutionUniversity of Calgaryen_US
dc.publisher.institutionUniversity of Montanaen_US
dc.publisher.institutionUniversity of Viennaen_US
dc.publisher.institutionUniversity of Albertaen_US
dc.publisher.urlhttps://doi.org/10.1093/nar/gkac414en_US
dc.subjectRNA characterisationen_US
dc.subjectRNA manipulationen_US
dc.subjectLong noncoding RNA
dc.subjectThree-dimensional structure
dc.subject.lcshUltracentrifugation
dc.subject.lcshSmall-angle x-ray scattering
dc.subject.lcshLight--Scattering
dc.subject.lcshGal permeation chromatography
dc.titleBiophysical characterisation of human LincRNA-p21 sense and antisense Alu inverted repeatsen_US
dc.typeArticleen_US
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