Regulation of hematopoiesis and immune responses by long non-coding RNAs

被引:2
作者
Seo, Wooseok [1 ]
Taniuchi, Ichiro [1 ]
机构
[1] RIKEN, Ctr Integrat Med Sci IMS, Lab Transcript Regulat, Tsurumi Ku, 1-7-22 Suehiro Cho, Yokohama, Kanagawa 2300045, Japan
关键词
acquired immunity; hematopoiesis; innate immunity; GROWTH-ARREST; GENE-EXPRESSION; HUMAN GENOME; LANDSCAPE; TRANSCRIPTION; EVOLUTION; DIFFERENTIATION; ELEMENTS; REVEALS; GENCODE;
D O I
10.1093/intimm/dxx021
中图分类号
R392 [医学免疫学]; Q939.91 [免疫学];
学科分类号
100102 ;
摘要
Since the first draft of the human genome sequence was released in 2001, unprecedentedly rapid progress has been made in whole genome-wide approaches by utilizing next-generation-sequencing technologies. The last decade alone has generated enormous data in the forms of exome sequencing, transcriptomes, transcription factor occupancy, genomic variation profiling and epigenetic modifications. One of the most striking realizations from sequencing studies has been the discovery and characterization of non-coding RNAs (ncRNAs). Although the extent to which ncRNAs are functional in vivo is still a controversial topic, there is at least a consensus that some ncRNAs are functional and that they play various roles in biology. Among the several kinds of ncRNAs, long ncRNAs (lncRNAs) in particular have received more attention because they have a larger potential to act as multifunctional regulators. Not surprisingly, researchers in the field of immunology have started to examine ncRNAs as new regulatory mechanisms. In this review, we will summarize some lncRNAs that have been reported to function in the immune system and then argue that there is still a long way to go before we can achieve a complete understanding of lncRNAs.
引用
收藏
页码:165 / 172
页数:8
相关论文
共 60 条
[1]   Global discovery of erythroid long noncoding RNAs reveals novel regulators of red cell maturation [J].
Alvarez-Dominguez, Juan R. ;
Hu, Wenqian ;
Yuan, Bingbing ;
Shi, Jiahai ;
Park, Staphany S. ;
Gromatzky, Austin A. ;
van Oudenaarden, Alexander ;
Lodish, Harvey F. .
BLOOD, 2014, 123 (04) :570-581
[2]   A Micropeptide Encoded by a Putative Long Noncoding RNA Regulates Muscle Performance [J].
Anderson, Douglas M. ;
Anderson, Kelly M. ;
Chang, Chi-Lun ;
Makarewich, Catherine A. ;
Nelson, Benjamin R. ;
McAnally, John R. ;
Kasaragod, Prasad ;
Shelton, John M. ;
Liou, Jen ;
Bassel-Duby, Rhonda ;
Olson, Eric N. .
CELL, 2015, 160 (04) :595-606
[3]   Extensive translation of small Open Reading Frames revealed by Poly-Ribo-Seq [J].
Aspden, Julie L. ;
Eyre-Walker, Ying Chen ;
Philips, Rose J. ;
Amin, Unum ;
Mumtaz, Muhammad Ali S. ;
Brocard, Michele ;
Couso, Juan Pablo .
ELIFE, 2014, 3 :1-19
[4]   A Long Noncoding RNA lincRNA-EPS Acts as a Transcriptional Brake to Restrain Inflammation [J].
Atianand, Maninjay K. ;
Hu, Wenqian ;
Satpathy, Ansuman T. ;
Shen, Ying ;
Ricci, Emiliano P. ;
Alvarez-Dominguez, Juan R. ;
Bhatta, Ankit ;
Schattgen, Stefan A. ;
McGowan, Jason D. ;
Blin, Juliana ;
Braun, Joerg E. ;
Gandhi, Pallavi ;
Moore, Melissa J. ;
Chang, Howard Y. ;
Lodish, Harvey F. ;
Caffrey, Daniel R. ;
Fitzgerald, Katherine A. .
CELL, 2016, 165 (07) :1672-1685
[5]   Identification and analysis of functional elements in 1% of the human genome by the ENCODE pilot project [J].
Birney, Ewan ;
Stamatoyannopoulos, John A. ;
Dutta, Anindya ;
Guigo, Roderic ;
Gingeras, Thomas R. ;
Margulies, Elliott H. ;
Weng, Zhiping ;
Snyder, Michael ;
Dermitzakis, Emmanouil T. ;
Stamatoyannopoulos, John A. ;
Thurman, Robert E. ;
Kuehn, Michael S. ;
Taylor, Christopher M. ;
Neph, Shane ;
Koch, Christoph M. ;
Asthana, Saurabh ;
Malhotra, Ankit ;
Adzhubei, Ivan ;
Greenbaum, Jason A. ;
Andrews, Robert M. ;
Flicek, Paul ;
Boyle, Patrick J. ;
Cao, Hua ;
Carter, Nigel P. ;
Clelland, Gayle K. ;
Davis, Sean ;
Day, Nathan ;
Dhami, Pawandeep ;
Dillon, Shane C. ;
Dorschner, Michael O. ;
Fiegler, Heike ;
Giresi, Paul G. ;
Goldy, Jeff ;
Hawrylycz, Michael ;
Haydock, Andrew ;
Humbert, Richard ;
James, Keith D. ;
Johnson, Brett E. ;
Johnson, Ericka M. ;
Frum, Tristan T. ;
Rosenzweig, Elizabeth R. ;
Karnani, Neerja ;
Lee, Kirsten ;
Lefebvre, Gregory C. ;
Navas, Patrick A. ;
Neri, Fidencio ;
Parker, Stephen C. J. ;
Sabo, Peter J. ;
Sandstrom, Richard ;
Shafer, Anthony .
NATURE, 2007, 447 (7146) :799-816
[6]   The transcriptional landscape of the mammalian genome [J].
Carninci, P ;
Kasukawa, T ;
Katayama, S ;
Gough, J ;
Frith, MC ;
Maeda, N ;
Oyama, R ;
Ravasi, T ;
Lenhard, B ;
Wells, C ;
Kodzius, R ;
Shimokawa, K ;
Bajic, VB ;
Brenner, SE ;
Batalov, S ;
Forrest, ARR ;
Zavolan, M ;
Davis, MJ ;
Wilming, LG ;
Aidinis, V ;
Allen, JE ;
Ambesi-Impiombato, X ;
Apweiler, R ;
Aturaliya, RN ;
Bailey, TL ;
Bansal, M ;
Baxter, L ;
Beisel, KW ;
Bersano, T ;
Bono, H ;
Chalk, AM ;
Chiu, KP ;
Choudhary, V ;
Christoffels, A ;
Clutterbuck, DR ;
Crowe, ML ;
Dalla, E ;
Dalrymple, BP ;
de Bono, B ;
Della Gatta, G ;
di Bernardo, D ;
Down, T ;
Engstrom, P ;
Fagiolini, M ;
Faulkner, G ;
Fletcher, CF ;
Fukushima, T ;
Furuno, M ;
Futaki, S ;
Gariboldi, M .
SCIENCE, 2005, 309 (5740) :1559-1563
[7]   Post-transcriptional regulation of gene expression in innate immunity [J].
Carpenter, Susan ;
Ricci, Emiliano P. ;
Mercier, Blandine C. ;
Moore, Melissa J. ;
Fitzgerald, Katherine A. .
NATURE REVIEWS IMMUNOLOGY, 2014, 14 (06) :361-376
[8]   PU.1-Regulated Long Noncoding RNA lnc-MC Controls Human Monocyte/Macrophage Differentiation through Interaction with MicroRNA 199a-5p [J].
Chen, Ming-Tai ;
Lin, Hai-Shuang ;
Shen, Chao ;
Ma, Yan-Ni ;
Wang, Fang ;
Zhao, Hua-Lu ;
Yu, Jia ;
Zhang, Jun-Wu .
MOLECULAR AND CELLULAR BIOLOGY, 2015, 35 (18) :3212-3224
[9]   Cutting Edge: Influence of Tmevpg1, a Long Intergenic Noncoding RNA, on the Expression of Ifng by Th1 Cells [J].
Collier, Sarah P. ;
Collins, Patrick L. ;
Williams, Christopher L. ;
Boothby, Mark R. ;
Aune, Thomas M. .
JOURNAL OF IMMUNOLOGY, 2012, 189 (05) :2084-2088
[10]   The GENCODE v7 catalog of human long noncoding RNAs: Analysis of their gene structure, evolution, and expression [J].
Derrien, Thomas ;
Johnson, Rory ;
Bussotti, Giovanni ;
Tanzer, Andrea ;
Djebali, Sarah ;
Tilgner, Hagen ;
Guernec, Gregory ;
Martin, David ;
Merkel, Angelika ;
Knowles, David G. ;
Lagarde, Julien ;
Veeravalli, Lavanya ;
Ruan, Xiaoan ;
Ruan, Yijun ;
Lassmann, Timo ;
Carninci, Piero ;
Brown, James B. ;
Lipovich, Leonard ;
Gonzalez, Jose M. ;
Thomas, Mark ;
Davis, Carrie A. ;
Shiekhattar, Ramin ;
Gingeras, Thomas R. ;
Hubbard, Tim J. ;
Notredame, Cedric ;
Harrow, Jennifer ;
Guigo, Roderic .
GENOME RESEARCH, 2012, 22 (09) :1775-1789