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| Item Type: | Article |
|---|---|
| Title: | High-resolution expression map of the arabidopsis root reveals alternative splicing and lincRNA regulation |
| Creators Name: | Li, S., Yamada, M., Han, X., Ohler, U. and Benfey, P.N. |
| Abstract: | The extent to which alternative splicing and long intergenic noncoding RNAs (lincRNAs) contribute to the specialized functions of cells within an organ is poorly understood. We generated a comprehensive dataset of gene expression from individual cell types of the Arabidopsis root. Comparisons across cell types revealed that alternative splicing tends to remove parts of coding regions from a longer, major isoform, providing evidence for a progressive mechanism of splicing. Cell-type-specific intron retention suggested a possible origin for this common form of alternative splicing. Coordinated alternative splicing across developmental stages pointed to a role in regulating differentiation. Consistent with this hypothesis, distinct isoforms of a transcription factor were shown to control developmental transitions. lincRNAs were generally lowly expressed at the level of individual cell types, but co-expression clusters provided clues as to their function. Our results highlight insights gained from analysis of expression at the level of individual cell types. |
| Keywords: | RNA-seq, Arabidopsis, Alternative Splicing, lincRNA, Transcriptome, Proteome, PacBio Sequencing, Root Development, Intron Retention, Co-Expression Network |
| Source: | Developmental Cell |
| ISSN: | 1534-5807 |
| Publisher: | Cell Press / Elsevier |
| Volume: | 39 |
| Number: | 4 |
| Page Range: | 508-522 |
| Date: | 21 November 2016 |
| Additional Information: | Copyright © 2016 Elsevier Inc. All rights reserved. |
| Official Publication: | https://doi.org/10.1016/j.devcel.2016.10.012 |
| External Fulltext: | View full text on PubMed Central |
| PubMed: | View item in PubMed |
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