Pervasive transcription of the human genome results in a heterogeneous mix of coding RNAs and long noncoding RNAs (lncRNAs). Only a small fraction of lncRNAs have demonstrated regulatory functions, thus making functional lncRNAs difficult to distinguish from nonfunctional transcriptional byproducts. This difficulty has resulted in numerous competing human lncRNA classifications that are complicated by a steady increase in the number of annotated lncRNAs. To address these challenges, we quantitatively examined transcription, splicing, degradation, localization and translation for coding and noncoding human genes. We observed that annotated lncRNAs had lower synthesis and higher degradation rates than mRNAs and discovered mechanistic differences explaining slower lncRNA splicing. We grouped genes into classes with similar RNA metabolism profiles, containing both mRNAs and lncRNAs to varying extents. These classes exhibited distinct RNA metabolism, different evolutionary patterns and differential sensitivity to cellular RNA-regulatory pathways. Our classification provides an alternative to genomic context-driven annotations of lncRNAs.

Mukherjee, N., Calviello, L., Hirsekorn, A., De Pretis, S., Pelizzola, M., Ohler, U. (2017). Integrative classification of human coding and noncoding genes through RNA metabolism profiles. NATURE STRUCTURAL & MOLECULAR BIOLOGY, 24(1), 86-96 [10.1038/nsmb.3325].

Integrative classification of human coding and noncoding genes through RNA metabolism profiles

Pelizzola M;
2017

Abstract

Pervasive transcription of the human genome results in a heterogeneous mix of coding RNAs and long noncoding RNAs (lncRNAs). Only a small fraction of lncRNAs have demonstrated regulatory functions, thus making functional lncRNAs difficult to distinguish from nonfunctional transcriptional byproducts. This difficulty has resulted in numerous competing human lncRNA classifications that are complicated by a steady increase in the number of annotated lncRNAs. To address these challenges, we quantitatively examined transcription, splicing, degradation, localization and translation for coding and noncoding human genes. We observed that annotated lncRNAs had lower synthesis and higher degradation rates than mRNAs and discovered mechanistic differences explaining slower lncRNA splicing. We grouped genes into classes with similar RNA metabolism profiles, containing both mRNAs and lncRNAs to varying extents. These classes exhibited distinct RNA metabolism, different evolutionary patterns and differential sensitivity to cellular RNA-regulatory pathways. Our classification provides an alternative to genomic context-driven annotations of lncRNAs.
Articolo in rivista - Articolo scientifico
lncRNAs, non coding transcription, RNA dynamics, RNA degradation
English
2017
24
1
86
96
reserved
Mukherjee, N., Calviello, L., Hirsekorn, A., De Pretis, S., Pelizzola, M., Ohler, U. (2017). Integrative classification of human coding and noncoding genes through RNA metabolism profiles. NATURE STRUCTURAL & MOLECULAR BIOLOGY, 24(1), 86-96 [10.1038/nsmb.3325].
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Utilizza questo identificativo per citare o creare un link a questo documento: https://hdl.handle.net/10281/447280
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