MicroRNAs and long non-coding RNAs during transcriptional regulation and latency of HIV and HTLV

Deeks SG, Overbaugh J, Phillips A, Buchbinder S. HIV infection. Nat Rev Dis Primers. 2015;1:15035.

Article  PubMed  Google Scholar 

Eusebio-Ponce E, Anguita E, Paulino-Ramirez R, Candel FJ. HTLV-1 infection: an emerging risk. Pathogenesis, epidemiology, diagnosis and associated diseases. Rev Esp Quimioter. 2019;32:485–96.

CAS  PubMed  PubMed Central  Google Scholar 

Kapranov P, Cheng J, Dike S, Nix DA, Duttagupta R, Willingham AT, Stadler PF, Hertel J, Hackermüller J, Hofacker IL, et al. RNA maps reveal new RNA classes and a possible function for pervasive transcription. Science. 2007;316:1484–8.

Article  ADS  CAS  PubMed  Google Scholar 

Statello L, Guo CJ, Chen LL, Huarte M. Gene regulation by long non-coding RNAs and its biological functions. Nat Rev Mol Cell Biol. 2021;22:96–118.

Article  CAS  PubMed  Google Scholar 

Isoda T, Moore AJ, He Z, Chandra V, Aida M, Denholtz M, Piet van Hamburg J, Fisch KM, Chang AN, Fahl SP, et al. Non-coding transcription instructs chromatin folding and compartmentalization to dictate enhancer-promoter communication and T cell fate. Cell. 2017;171:103–19.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Mumbach MR, Granja JM, Flynn RA, Roake CM, Satpathy AT, Rubin AJ, Qi Y, Jiang Z, Shams S, Louie BH, et al. HiChIRP reveals RNA-associated chromosome conformation. Nat Methods. 2019;16:489–92.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Hutchinson JN, Ensminger AW, Clemson CM, Lynch CR, Lawrence JB, Chess A. A screen for nuclear transcripts identifies two linked noncoding RNAs associated with SC35 splicing domains. BMC Genomics. 2007;8:39.

Article  PubMed  PubMed Central  Google Scholar 

Yamazaki T, Souquere S, Chujo T, Kobelke S, Chong YS, Fox AH, Bond CS, Nakagawa S, Pierron G, Hirose T. Functional domains of NEAT1 architectural lncRNA induce paraspeckle assembly through phase separation. Mol Cell. 2018;70:1038-1053.e1037.

Article  CAS  PubMed  Google Scholar 

Tripathi V, Song DY, Zong X, Shevtsov SP, Hearn S, Fu XD, Dundr M, Prasanth KV. SRSF1 regulates the assembly of pre-mRNA processing factors in nuclear speckles. Mol Biol Cell. 2012;23:3694–706.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Nguyen VT, Kiss T, Michels AA, Bensaude O. 7SK small nuclear RNA binds to and inhibits the activity of CDK9/cyclin T complexes. Nature. 2001;414:322–5.

Article  ADS  CAS  PubMed  Google Scholar 

Romero-Barrios N, Legascue MF, Benhamed M, Ariel F, Crespi M. Splicing regulation by long noncoding RNAs. Nucleic Acids Res. 2018;46:2169–84.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Bartel DP. MicroRNAs: target recognition and regulatory functions. Cell. 2009;136:215–33.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Fire A, Xu S, Montgomery MK, Kostas SA, Driver SE, Mello CC. Potent and specific genetic interference by double-stranded RNA in Caenorhabditis elegans. Nature. 1998;391:806–11.

Article  ADS  CAS  PubMed  Google Scholar 

Elbashir SM, Lendeckel W, Tuschl T. RNA interference is mediated by 21- and 22-nucleotide RNAs. Genes Dev. 2001;15:188–200.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Elbashir SM, Harborth J, Lendeckel W, Yalcin A, Weber K, Tuschl T. Duplexes of 21-nucleotide RNAs mediate RNA interference in cultured mammalian cells. Nature. 2001;411:494–8.

Article  ADS  CAS  PubMed  Google Scholar 

Standart N, Weil D. P-bodies: cytosolic droplets for coordinated mRNA storage. Trends Genet. 2018;34:612–26.

Article  CAS  PubMed  Google Scholar 

Salmena L, Poliseno L, Tay Y, Kats L, Pandolfi PP. A ceRNA hypothesis: the Rosetta Stone of a hidden RNA language? Cell. 2011;146:353–8.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Cesana M, Cacchiarelli D, Legnini I, Santini T, Sthandier O, Chinappi M, Tramontano A, Bozzoni I. A long noncoding RNA controls muscle differentiation by functioning as a competing endogenous RNA. Cell. 2011;147:358–69.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Yamamura S, Imai-Sumida M, Tanaka Y, Dahiya R. Interaction and cross-talk between non-coding RNAs. Cell Mol Life Sci. 2018;75:467–84.

Article  CAS  PubMed  Google Scholar 

Zhou X, Ye F, Yin C, Zhuang Y, Yue G, Zhang G. The interaction between MiR-141 and lncRNA-H19 in regulating cell proliferation and migration in gastric cancer. Cell Physiol Biochem. 2015;36:1440–52.

Article  PubMed  Google Scholar 

Yoon JH, Abdelmohsen K, Gorospe M. Functional interactions among microRNAs and long noncoding RNAs. Semin Cell Dev Biol. 2014;34:9–14.

Article  CAS  PubMed  Google Scholar 

Zhang X, Ma X, Jing S, Zhang H, Zhang Y. Non-coding RNAs and retroviruses. Retrovirology. 2018;15:20.

Article  PubMed  PubMed Central  Google Scholar 

Wu H, Yang L, Chen LL. The diversity of long noncoding RNAs and their generation. Trends Genet. 2017;33:540–52.

Article  CAS  PubMed  Google Scholar 

Schlackow M, Nojima T, Gomes T, Dhir A, Carmo-Fonseca M, Proudfoot NJ. Distinctive patterns of transcription and RNA processing for human lincRNAs. Mol Cell. 2017;65:25–38.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Guo CJ, Ma XK, Xing YH, Zheng CC, Xu YF, Shan L, Zhang J, Wang S, Wang Y, Carmichael GG, et al. Distinct processing of lncRNAs contributes to non-conserved functions in stem cells. Cell. 2020;181:621-636.e622.

Article  CAS  PubMed  Google Scholar 

Melé M, Mattioli K, Mallard W, Shechner DM, Gerhardinger C, Rinn JL. Chromatin environment, transcriptional regulation, and splicing distinguish lincRNAs and mRNAs. Genome Res. 2017;27:27–37.

Article  PubMed  PubMed Central  Google Scholar 

Zuckerman B, Ulitsky I. Predictive models of subcellular localization of long RNAs. RNA. 2019;25:557–72.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Zuckerman B, Ron M, Mikl M, Segal E, Ulitsky I. Gene architecture and sequence composition underpin selective dependency of nuclear export of long RNAs on NXF1 and the TREX complex. Mol Cell. 2020;79:251-267.e256.

Article  CAS  PubMed  Google Scholar 

Dueva R, Akopyan K, Pederiva C, Trevisan D, Dhanjal S, Lindqvist A, Farnebo M. Neutralization of the positive charges on histone tails by RNA promotes an open chromatin structure. Cell Chem Biol. 2019;26:1436-1449.e1435.

Article  CAS  PubMed  Google Scholar 

Saldaña-Meyer R, Rodriguez-Hernaez J, Escobar T, Nishana M, Jácome-López K, Nora EP, Bruneau BG, Tsirigos A, Furlan-Magaril M, Skok J, Reinberg D. RNA interactions are essential for CTCF-mediated genome organization. Mol Cell. 2019;76:412-422.e415.

Article  PubMed  PubMed Central  Google Scholar 

Beckedorff FC, Ayupe AC, Crocci-Souza R, Amaral MS, Nakaya HI, Soltys DT, Menck CF, Reis EM, Verjovski-Almeida S. The intronic long noncoding RNA ANRASSF1 recruits PRC2 to the RASSF1A promoter, reducing the expression of RASSF1A and increasing cell proliferation. PLoS Genet. 2013;9: e1003705.

Article  CAS  PubMed  PubMed Central  Google Scholar 

O’Leary VB, Ovsepian SV, Carrascosa LG, Buske FA, Radulovic V, Niyazi M, Moertl S, Trau M, Atkinson MJ, Anastasov N. PARTICLE, a triplex-forming long ncRNA, regulates locus-specific methylation in response to low-dose irradiation. Cell Rep. 2015;11:474–85.

Article  CAS  PubMed  Google Scholar 

Niehrs C, Luke B. Regulatory R-loops as facilitators of gene expression and genome stability. Nat Rev Mol Cell Biol. 2020;21:167–78.

Article  CAS  PubMed  PubMed Central  Google Scholar 

Latos PA, Pauler FM, Koerner MV, Şenergin HB, Hudson QJ, Stocsits RR, Allhoff W, Stricker SH, Klement RM, Warczok KE, et al. Airn transcriptional overlap, but not its lncRNA products, induces imprinted Igf2r silencing. Science. 2012;338:1469–72.

Article  ADS  CAS  PubMed 

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