Article ; Online: Principles of long noncoding RNA evolution derived from direct comparison of transcriptomes in 17 species.
2015 Volume 11, Issue 7, Page(s) 1110–1122
Abstract: The inability to predict long noncoding RNAs from genomic sequence has impeded the use of comparative genomics for studying their biology. Here, we develop methods that use RNA sequencing (RNA-seq) data to annotate the transcriptomes of 16 vertebrates ... ...
Abstract | The inability to predict long noncoding RNAs from genomic sequence has impeded the use of comparative genomics for studying their biology. Here, we develop methods that use RNA sequencing (RNA-seq) data to annotate the transcriptomes of 16 vertebrates and the echinoid sea urchin, uncovering thousands of previously unannotated genes, most of which produce long intervening noncoding RNAs (lincRNAs). Although in each species, >70% of lincRNAs cannot be traced to homologs in species that diverged >50 million years ago, thousands of human lincRNAs have homologs with similar expression patterns in other species. These homologs share short, 5'-biased patches of sequence conservation nested in exonic architectures that have been extensively rewired, in part by transposable element exonization. Thus, over a thousand human lincRNAs are likely to have conserved functions in mammals, and hundreds beyond mammals, but those functions require only short patches of specific sequences and can tolerate major changes in gene architecture. |
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MeSH term(s) | Base Sequence ; Conserved Sequence/genetics ; Evolution, Molecular ; Humans ; RNA, Long Noncoding/genetics ; Sequence Analysis, RNA ; Transcriptome/genetics |
Chemical Substances | RNA, Long Noncoding |
Language | English |
Publishing date | 2015-05-19 |
Publishing country | United States |
Document type | Comparative Study ; Journal Article ; Research Support, N.I.H., Extramural ; Research Support, Non-U.S. Gov't |
ZDB-ID | 2649101-1 |
ISSN | 2211-1247 ; 2211-1247 |
ISSN (online) | 2211-1247 |
ISSN | 2211-1247 |
DOI | 10.1016/j.celrep.2015.04.023 |
Database | MEDical Literature Analysis and Retrieval System OnLINE |
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