Spatiotemporal expression profiling of long intervening noncoding RNAs in Caenorhabditis elegans

Abstract To better understand the biological function of long noncoding RNAs, it is critical to determine their spatiotemporal expression patterns. We generated transgenic reporter strains for 149 out of the 170 annotated C. elegans long intervening noncoding RNAs (lincRNAs) and profiled their tempo...

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Autores principales:	Weihong Liu, Enchao Yu, Siyu Chen, Xiaopeng Ma, Yiwen Lu, Xiao Liu
Formato:	article
Lenguaje:	EN
Publicado:	Nature Portfolio 2017
Materias:	Medicine R Science Q
Acceso en línea:	https://doaj.org/article/e6deff6fb45445b591e173c3fa44dac6
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spelling	oai:doaj.org-article:e6deff6fb45445b591e173c3fa44dac62021-12-02T16:06:03ZSpatiotemporal expression profiling of long intervening noncoding RNAs in Caenorhabditis elegans10.1038/s41598-017-05427-52045-2322https://doaj.org/article/e6deff6fb45445b591e173c3fa44dac62017-07-01T00:00:00Zhttps://doi.org/10.1038/s41598-017-05427-5https://doaj.org/toc/2045-2322Abstract To better understand the biological function of long noncoding RNAs, it is critical to determine their spatiotemporal expression patterns. We generated transgenic reporter strains for 149 out of the 170 annotated C. elegans long intervening noncoding RNAs (lincRNAs) and profiled their temporal activity. For the 68 lincRNAs with integrated reporter lines, we profiled their expression at the resolution of single cells in L1 larvae, and revealed that the expression of lincRNAs is more specific, heterogeneous and at lower level than transcription factors (TFs). These expression patterns can be largely attributed to transcriptional regulation because they were observed in assays using reporters of promoter activity. The spatial expression patterns of the 68 lincRNAs were further examined in 18 tissue categories throughout eight developmental stages. We compared the expression dynamics of lincRNAs, miRNAs and TFs during development. lincRNA and miRNA promoters are less active at embryo stage than those of TFs, but become comparable to TFs after embryogenesis. Finally, the lincRNA gene set shows a similar tissue distribution to that of miRNAs and TFs. We also generated a database, CELE, for the storage and retrieval of lincRNA reporter expression patterns and other relevant information. The data and strains described here will provide a valuable guide and resource for future functional exploration of C. elegans lincRNAs.Weihong LiuEnchao YuSiyu ChenXiaopeng MaYiwen LuXiao LiuNature PortfolioarticleMedicineRScienceQENScientific Reports, Vol 7, Iss 1, Pp 1-9 (2017)
institution	DOAJ
collection	DOAJ
language	EN
topic	Medicine R Science Q
spellingShingle	Medicine R Science Q Weihong Liu Enchao Yu Siyu Chen Xiaopeng Ma Yiwen Lu Xiao Liu Spatiotemporal expression profiling of long intervening noncoding RNAs in Caenorhabditis elegans
description	Abstract To better understand the biological function of long noncoding RNAs, it is critical to determine their spatiotemporal expression patterns. We generated transgenic reporter strains for 149 out of the 170 annotated C. elegans long intervening noncoding RNAs (lincRNAs) and profiled their temporal activity. For the 68 lincRNAs with integrated reporter lines, we profiled their expression at the resolution of single cells in L1 larvae, and revealed that the expression of lincRNAs is more specific, heterogeneous and at lower level than transcription factors (TFs). These expression patterns can be largely attributed to transcriptional regulation because they were observed in assays using reporters of promoter activity. The spatial expression patterns of the 68 lincRNAs were further examined in 18 tissue categories throughout eight developmental stages. We compared the expression dynamics of lincRNAs, miRNAs and TFs during development. lincRNA and miRNA promoters are less active at embryo stage than those of TFs, but become comparable to TFs after embryogenesis. Finally, the lincRNA gene set shows a similar tissue distribution to that of miRNAs and TFs. We also generated a database, CELE, for the storage and retrieval of lincRNA reporter expression patterns and other relevant information. The data and strains described here will provide a valuable guide and resource for future functional exploration of C. elegans lincRNAs.
format	article
author	Weihong Liu Enchao Yu Siyu Chen Xiaopeng Ma Yiwen Lu Xiao Liu
author_facet	Weihong Liu Enchao Yu Siyu Chen Xiaopeng Ma Yiwen Lu Xiao Liu
author_sort	Weihong Liu
title	Spatiotemporal expression profiling of long intervening noncoding RNAs in Caenorhabditis elegans
title_short	Spatiotemporal expression profiling of long intervening noncoding RNAs in Caenorhabditis elegans
title_full	Spatiotemporal expression profiling of long intervening noncoding RNAs in Caenorhabditis elegans
title_fullStr	Spatiotemporal expression profiling of long intervening noncoding RNAs in Caenorhabditis elegans
title_full_unstemmed	Spatiotemporal expression profiling of long intervening noncoding RNAs in Caenorhabditis elegans
title_sort	spatiotemporal expression profiling of long intervening noncoding rnas in caenorhabditis elegans
publisher	Nature Portfolio
publishDate	2017
url	https://doaj.org/article/e6deff6fb45445b591e173c3fa44dac6
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Spatiotemporal expression profiling of long intervening noncoding RNAs in Caenorhabditis elegans

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