Long non-coding RNAs: definitions, functions, challenges and recommendations

被引：834

作者：

Mattick, John S. S. ^{[1
,2
]}

Amaral, Paulo P. P. ^{[3
]}

Carninci, Piero ^{[4
,5
]}

Carpenter, Susan ^{[6
]}

Chang, Howard Y. Y. ^{[7
,8
,9
,10
]}

Chen, Ling-Ling ^{[11
]}

Chen, Runsheng ^{[12
]}

Dean, Caroline ^{[13
]}

Dinger, Marcel E. E. ^{[1
,2
]}

Fitzgerald, Katherine A. A. ^{[14
]}

Gingeras, Thomas R. R. ^{[15
]}

Guttman, Mitchell ^{[16
]}

Hirose, Tetsuro ^{[17
]}

Huarte, Maite ^{[18
,19
]}

Johnson, Rory ^{[20
,21
]}

Kanduri, Chandrasekhar ^{[22
]}

Kapranov, Philipp ^{[23
]}

Lawrence, Jeanne B. B. ^{[24
]}

Lee, Jeannie T. T. ^{[25
,26
]}

Mendell, Joshua T. T. ^{[27
,28
]}

Mercer, Timothy R. R. ^{[29
]}

Moore, Kathryn J. J. ^{[30
]}

Nakagawa, Shinichi ^{[31
]}

Rinn, John L. L. ^{[32
,33
,34
]}

Spector, David L. L. ^{[35
]}

Ulitsky, Igor ^{[35
]}

Wan, Yue ^{[36
,37
]}

Wilusz, Jeremy E. E. ^{[38
]}

Wu, Mian ^{[39
]}

机构：

[1] UNSW, Sch Biotechnol & Biomol Sci, Sydney, NSW, Australia

[2] UNSW, RNA Inst, Sydney, NSW, Australia

[3] INSPER Inst Educ & Res, Sao Paulo, Brazil

[4] RIKEN Ctr Integrat Med Sci, Yokohama, Japan

[5] Human Technopole, Milan, Italy

[6] Univ Calif Santa Cruz, Dept Mol Cell & Dev Biol, Santa Cruz, CA USA

[7] Stanford Univ, Ctr Personal Dynam Regulomes, Sch Med, Stanford, CA USA

[8] Dept Dermatol, Stanford, CA USA

[9] Stanford Univ, Dept Genet, Sch Med, Stanford, CA USA

[10] Stanford Univ, Howard Hughes Med Inst, Sch Med, Stanford, CA USA

[11] Chinese Acad Sci, Shanghai Inst Biochem & Cell Biol, Ctr Excellence Mol Cell Sci, Shanghai, Peoples R China

[12] Chinese Acad Sci, Inst Biophys, Ctr Big Data Res Hlth, Key Lab RNA Biol, Beijing, Peoples R China

[13] John Innes Ctr, Norwich Res Pk, Norwich, England

[14] Univ Massachusetts Chan Med Sch, Dept Med, Div Innate Immun, Worcester, MA USA

[15] Cold Spring Harbour Lab, Cold Spring Harbour, NY USA

[16] CALTECH, Div Biol & Biol Engn, Pasadena, CA USA

[17] Osaka Univ, Grad Sch Frontier Biosci, Osaka, Japan

[18] Univ Navarra, Ctr Appl Med Res, Dept Gene Therapy & Regulat Gene Express, Pamplona, Spain

[19] Inst Hlth Res Navarra, Pamplona, Spain

[20] Univ Coll Dublin, Sch Biol & Environm Sci, Dublin, Ireland

[21] Univ Coll Dublin, Conway Inst Biomol & Biomed Res, Dublin, Ireland

[22] Univ Gothenburg, Inst Biomed, Sahlgrenska Acad, Dept Med Biochem & Cell Biol, Gothenburg, Sweden

[23] Huaqiao Univ, Inst Genom, Sch Med, Xiamen, Peoples R China

[24] Univ Massachusetts Chan Med Sch, Dept Neurol, Worcester, MA USA

[25] Harvard Med Sch, Massachusetts Gen Hosp, Dept Mol Biol, Boston, MA USA

[26] Harvard Med Sch, Dept Genet, Boston, MA USA

[27] UT Southwestern Med Ctr, Howard Hughes Med Inst, Dallas, TX USA

[28] UT Southwestern Med Ctr, Dept Mol Biol, Dallas, TX USA

[29] Univ Queensland, Australian Inst Bioengn & Nanotechnol, Brisbane, Qld, Australia

[30] New York Univ, Dept Med, Grossman Sch Med, New York, NY USA

[31] Hokkaido Univ, Fac Pharmaceut Sci, RNA Biol Lab, Sapporo, Japan

[32] Univ Colorado Boulder, Dept Biochem, Boulder, CO USA

[33] Univ Colorado Boulder, BioFrontiers Inst, Boulder, CO USA

[34] Univ Colorado Boulder, Howard Hughes Med Inst, Boulder, CO USA

[35] Weizmann Inst Sci, Dept Biol Regulat, Rehovot, Israel

[36] ASTAR, Genome Inst Singapore, Lab RNA Genom & Struct, Singapore, Singapore

[37] Natl Univ Singapore, Dept Biochem, Singapore, Singapore

[38] Baylor Coll Med, Therapeut Innovat Ctr, Verna & Marrs McLean Dept Biochem & Mol Biol, Houston, TX USA

[39] Zhengzhou Univ, Henan Prov Peoples Hosp, Translat Res Inst, Acad Med Sci, Zhengzhou, Peoples R China

来源：

NATURE REVIEWS MOLECULAR CELL BIOLOGY | 2023年 / 24卷 / 06期

基金：

英国生物技术与生命科学研究理事会;

关键词：

GENOME-WIDE ANALYSIS; MESSENGER-RNA; PHASE-SEPARATION; TRANSCRIPTIONAL REGULATION; ANTISENSE RNA; GENE-EXPRESSION; XIST RNA; TRANSPOSABLE ELEMENTS; ACCESSIBLE CHROMATIN; DOSAGE COMPENSATION;

D O I：

10.1038/s41580-022-00566-8

中图分类号：

Q2 [细胞生物学];

学科分类号：

071009 ; 090102 ;

摘要：

Genes specifying long non-coding RNAs (lncRNAs) occupy a large fraction of the genomes of complex organisms. The term 'lncRNAs' encompasses RNA polymerase I (Pol I), Pol II and Pol III transcribed RNAs, and RNAs from processed introns. The various functions of lncRNAs and their many isoforms and interleaved relationships with other genes make lncRNA classification and annotation difficult. Most lncRNAs evolve more rapidly than protein-coding sequences, are cell type specific and regulate many aspects of cell differentiation and development and other physiological processes. Many lncRNAs associate with chromatin-modifying complexes, are transcribed from enhancers and nucleate phase separation of nuclear condensates and domains, indicating an intimate link between lncRNA expression and the spatial control of gene expression during development. lncRNAs also have important roles in the cytoplasm and beyond, including in the regulation of translation, metabolism and signalling. lncRNAs often have a modular structure and are rich in repeats, which are increasingly being shown to be relevant to their function. In this Consensus Statement, we address the definition and nomenclature of lncRNAs and their conservation, expression, phenotypic visibility, structure and functions. We also discuss research challenges and provide recommendations to advance the understanding of the roles of lncRNAs in development, cell biology and disease.

引用

页码：430 / 447

页数：18

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