ДЛИННЫЕ НЕКОДИРУЮЩИЕ РНК И ИХ ФУНКЦИИ
Аннотация
В обзоре рассматривается роль длинных некодирующих РНК (lncRNA) в регуляции генных сетей с высокой степенью сложности. Приводится классификация всех не кодирующих белок РНК (вовлеченных в синтез белка, участвующих в посттранскрипционном изменении мРНК либо репликации ДНК, регуляторных). Обсуждается роль различных lncRNA в регуляции геноспецифической транскрипции, посттранскрипционной регуляции, инактивации Х-хромосомы (такова, например, HOTAIR – перепрограммирующая состояние хроматина или Xist РНК, кото- рая связывается с белковым комплексом PRC2, обусловливая инактивацию генов Х-хромосомы). Рассматривается роль lncRNA, в частности TelRNA, в регуляции длины теломер и в репликативном старении. Обсуждается также характер экспрессии lncRNA в тканях нервной системы на примере такого эволюционно консервативного транскрипта, как TUNA. Кроме того, приводятся литературные данные о возможном участии различных типов lncRNA в развитии ряда заболеваний, в том числе онкологических и сердечно-сосудистых.
Об авторах
Н. А. Балашенко
Институт генетики и цитологии НАН Беларуси, Минск
Беларусь
Беларусь
магистр биол. наук, аспирант
ул. Академическая, 27, 220072
С. Е. Дромашко
Институт генетики и цитологии НАН Беларуси, Минск
Беларусь
Беларусь
д-р биол. наук, профессор, заведующий лабораторией
ул. Академическая, 27, 220072
Список литературы
1. Mattick, J. S. Non-coding RNAs: the architects of eukaryotic complexity / J. S. Mattick // EMBO Rep. – 2001. – Vol. 2, N 11. – P. 986–991.
2. Perkel, J. M. Visiting “noncodarnia” / J. M. Perkel // BioTechniques. – 2013. – Vol. 54, N 6. – P. 301, 303–304.
3. Lafontaine, D. L. Ribosomal RNA / D. L. Lafontaine, D. Tollervey [Electronic resource] / Wiley Online Library. – 2001. – Mode of access: http://onlinelibrary.wiley.com/doi/10.1038/npg.els. 0000877/abstract. – Date of access: 19.04.2017.
4. Ullu, E. Alu sequences are processed 7SL RNA genes / E. Ullu, C. Tschudi // Nature. – 1984. – Vol. 312, N 5990. – P. 171–172.
5. Structure and transcription of eukaryotic tRNA genes / S. J. Sharp [et al.] // CRC Critical Rev. Biochem. – 1985. – Vol. 19, N 2. – P. 107–144.
6. The ClpXP and ClpAP proteases degrade proteins with carboxy-terminal peptide tails added by the SsrA-tagging system / S. Gottesman [et al.] // Genes Dev. – 1998. – Vol. 12, N 9. – P. 1338–1347.
7. Hadjiolov, A. A. Ribonucleic acids fractionation by density-gradient centrifugation and by agar gel electrophoresis: а comparison / A. A. Hadjiolov, P. V. Venkov, R. G. Tsanev // Anal. Biochem. – 1966. – Vol. 17, N 2. – P. 263–267.
8. Maden, B. E. Eukaryotic ribosomal RNA: the recent excitement in the nucleotide modification problem / B. E. Maden, J. M. Hughes // Chromosoma. – 1997. – Vol. 105, N 7–8. – P. 391–400.
9. Sno/scaRNAbase: a curated database for small nucleolar RNAs and cajal body-specific RNAs / J. Xie [et al.] // Nucleic Acids Res. – 2007. – Vol. 35, Suppl. 1 (Database issue). – P. D183– D187.
10. A survey of nematode SmY RNAs / T. A. Jones [et al.] // RNA Biol. – 2009. – Vol. 6, N 1. – P. 5–8.
11. Jády, B. E. A small nucleolar guide RNA functions both in 2′-O-ribose methylation and pseudouridylation of the U5 spliceosomal RNA / B. E. Jády, T. Kiss // EMBO J. – 2001. – Vol. 20, N 3. – P. 541–551.
12. Kinetoplastid RNA editing: complexes and catalysts / K. Stuart [et al.] // Curr. Opin. Chem. Biol. – 1997. – Vol. 1, N 3. – P. 340–346.
13. The RNA moiety of ribonuclease P is the catalytic subunit of the enzyme / C. Guerrier-Takada [et al.] // Cell. – 1983. – Vol. 35, N 3, pt. 2. – P. 849–857.
14. Kiss, T. 7-2/MRP RNAs in plant and mammalian cells: association with higher order structures in the nucleolus / T. Kiss, C. Marshallsay, W. Filipowicz // EMBO J. – 1992. – Vol. 11, N 10. – P. 3737–3746.
15. Hall, A. E. Y RNAs: recent developments / A. E. Hall, C. Turnbull, T. Dalmay // Biomol. Concepts. – 2013. – Vol. 4, N 2. – P. 103–110.
16. The RNA component of human telomerase / J. Feng [et al.] // Science. – 1995. – Vol. 269, N 5228. – P. 1236–1241.
17. Dassanayake, R. S. Trans-spliced leader RNA, 5S-rRNA genes and novel variant orphan spliced-leader of the lymphatic filarial nematode Wuchereria bancrofti, and a sensitive polymerase chain reaction based detection assay / R. S. Dassanayake, N. V. Chandrasekharan, E. H. Karunanayake // Gene. – 2001. – Vol. 269, N 1–2. – P. 185–193.
18. Mizuno, T. A unique mechanism regulating gene expression: Translational inhibition by a complementary RNA transcript (micRNA) / T. Mizuno, M. Y. Chou, M. Inouye // Proc. Natl. Acad. Sci. USA. – 1984. – Vol. 81, N 7. – P. 1966–1970.
19. Transcriptional interferences in cis natural antisense transcripts of humans and mice / N. Osato [et al.] // Genetics. – 2007. – Vol. 176, N 12. – P. 1299–1306.
20. CRISPR RNA maturation by trans-encoded small RNA and host factor RNase III / E. Deltcheva [et al.] // Nature. – 2011. – Vol. 471, N 7340. – P. 602–607.
21. Ma, L. On the classification of long non-coding RNAs / L. Ma, V. B. Bajic, Z. Zhang // RNA Biol. – 2014. – Vol. 10, N 6. – P. 924–933.
22. Chen, K. The evolution of gene regulation by transcription factors and microRNAs / K. Chen, N. Rajewsky // Nat. Rev. Genet. – 2007. – Vol. 8, N 2. – P. 93–103.
23. Seto, A. G. The coming of age for Piwi proteins / A. G. Seto, R. E. Kingston, N. C. Lau // Mol. Cell. – 2007. – Vol. 26, N 5. – P. 603–609.
24. Kim, V. N. Small RNAs: classification, biogenesis, and function / V. N. Kim // Mol. and Cells. – 2005. – Vol. 19, N 1. – P. 1–15.
25. Endogenous trans-acting siRNAs regulate the accumulation of Arabidopsis mRNAs / F. Vazquez [et al.] // Mol. Cell. – 2004. – Vol. 16, N 1. – P. 69–79.
26. SGS3 and SGS2/SDE1/RDR6 are required for juvenile development and the production of trans-acting siRNAs in Arabidopsis / A. Peragine [et al.] // Genes and Dev. – 2004. – Vol. 18, N 19. – P. 2368–2379.
27. Double-stranded RNA-mediated silencing of genomic tandem repeats and transposable elements in the D. melanogaster germline / A. A. Aravin [et al.] // Curr. Biol. – 2001. – Vol. 11, N 13. – P. 1017–1027.
28. Diribarne, G. 7SK RNA, a non-coding RNA regulating P-TEFb, a general transcription factor / G. Diribarne, O. Bensaude // RNA Biol. – 2009. – Vol. 6, N 2. – P. 122–128.
29. Francia, S. Non-coding RNA: Sequence-specific guide for chromatin modification and DNA damage signaling / S. Francia // Front. Genet. – 2015. – Vol. 6. – P. 320.
30. Quinodoz, S. Long non-coding RNAs: An emerging link between gene regulation and nuclear organization / S. Quinodoz, M. Guttman // Trends Cell Biol. – 2014. – Vol. 24, N 11. – P. 651–663.
31. Kapranov, P. Genome-wide transcription and the implications for genomic organization / P. Kapranov, A. T. Willingham, T. R. Gingeras // Nat. Rev. Genet. – 2007. – Vol. 8, N 6. – P. 413–423.
32. Expression of Xist RNA is sufficient to initiate macrochromatin body formation / T. P. Rasmussen [et al.] // Chromosoma. – 2001. – Vol. 110, N 6. – P. 411–420.
33. Braveheart, a long noncoding RNA required for cardiovascular lineage commitment / C. A. Klattenhoff [et al.] // Cell. – 2013. – Vol. 152, N 3. – P. 570–583.
34. The Air noncoding RNA epigenetically silences transcription by targeting G9a to chromatin / T. Nagano [et al.] // Science. – 2008. – Vol. 322, N 5908. – P. 1717–1720.
35. Neuron-specific relaxation of Igf2r imprinting is associated with neuron-specific histone modifications and lack of its antisense transcript Air / Y. Yamasaki [et al.] // Hum. Mol. Genet. – 2005. – Vol. 14, N 17. – P. 2511–2520.
36. Long non-coding RNA HOTAIR reprograms chromatin state to promote cancer metastasis / R. A. Gupta [et al.] // Nature. – 2010. – Vol. 464. – P. 1071–1076.
37. Genomic maps of long noncoding RNA occupancy reveal principles of RNA-chromatin interactions / C. Chu [et al.] // Mol. Cell. – 2011. – Vol. 344, N 4. – P. 667–678.
38. LincRNAs act in the circuitry controlling pluripotency and differentiation / M. Guttman [et al.] // Nature. – 2011. – Vol. 477, N 7364. – P. 295–300.
39. Multiple knockout mouse models reveal lincRNAs are required for life and brain development / M. Sauvageau [et al.] // Elife. – 2013. – Vol. 2. – e01749.
40. Conserved function of lincRNAs in vertebrate embryonic development despite rapid sequence evolution / I. Ulitsky [et al.] // Cell. – 2011. – Vol. 147, N 7. – P. 1537–1550.
41. Kulinski, T. M. Imprinted silencing is extended over broad chromosomal domains in mouse extra-embryonic lineages / T. M. Kulinski, D. P. Barlow, Q. J. Hudson // Curr. Opin. Cell. Biol. – 2013. – Vol. 25, N 3. – P. 297–304.
42. A long noncoding RNA mediates both activation and repression of immune response genes / S. Carpenter [et al.] // Science. – 2013. – Vol. 341, N 6147. – P. 789–792.
43. A long noncoding RNA protects the heart from pathological hypertrophy / P. Han [et al.] // Nature. – 2014. – Vol. 514, N 7520. – P. 102–106.
44. The STAT3-binding long noncoding RNA lnc-DC controls human dendritic cell differentiation / P. Wang [et al.] // Science. – 2014. – Vol. 344, N 6181. – P. 310–313.
45. The noncoding RNA MALAT1 is a critical regulator of the metastasis phenotype of lung cancer cells / T. Gutschner [et al.] // Cancer Res. – 2013. – Vol. 73, N 3. – P. 1180–1189.
46. A large intergenic noncoding RNA induced by p53 mediates global gene repression in the p53 response / M. Huarte [et al.] // Cell. – 2010. – Vol. 142, N 3. – P. 409–419.
47. Genome-wide mapping and characterization of notch-regulated long noncoding RNAs in acute leukemia / T. Trimarchi [et al.] // Cell. – 2014. – Vol. 158, N 3. – P. 593–606.
48. LncRNA-dependent mechanisms of androgen-receptor-regulated gene activation programs / L. Yang [et al.] // Nature. – 2013. – Vol. 500, N 7464. – P. 598–602.
49. A long noncoding RNA maintains active chromatin to coordinate homeotic gene expression / K. C. Wang [et al.] // Nature. – 2011. – Vol. 472, N 7341. – P. 120–124.
50. Functional demarcation of active and silent chromatin domains in human HOX loci by noncoding RNAs / J. L. Rinn [et al.] // Cell. – 2007. – Vol. 129, N 7. – P. 1311–1323.
51. Activating RNAs associate with mediator to enhance chromatin architecture and transcription / F. Lai [et al.] // Nature. – 2013. – Vol. 494, N 7438. – P. 497–501.
52. Xist RNA and the mechanism of X chromosome inactivation / K. Plath [et al.] // Annu. Rev. Genet. – 2002. – Vol. 36. – P. 233–278.
53. PNA interference mapping demonstrates functional domains in the noncoding RNA Xist / A. Beletskii [et al.] // Proc. Natl. Acad. Sci. USA. – 2001. – Vol. 98, N 16. – P. 9215–9220.
54. Wutz, A. Chromosomal silencing and localization are mediated by different domains of Xist RNA / A. Wutz, T. P. Rasmussen, R. Jaenisch // Nat. Genet. – 2002. – Vol. 30, N 2. – P. 167–174.
55. Disruption of a conserved region of Xist exon 1 impairs Xist RNA localisation and X-linked gene silencing during random and imprinted X chromosome inactivation / C. E. Senner [et al.] // Development. – 2011. – Vol. 138, N 8. – P. 1541–1550.
56. Translating dosage compensation to trisomy 21 / J. Jiang [et al.] // Nature. – 2013. – Vol. 500. – P. 296–300.
57. Regulation of apoptosis by a prostate-specific and prostate cancer-associated noncoding gene, PCGEM1 / X. Fu [et al.] // DNA Cell Biol. – 2006. – Vol. 25, N 3. – P. 135–141.
58. Identification and characterization of a novel, psoriasis susceptibility-related noncoding RNA gene, PRINS / E. Sonkoly [et al.] // J. Biol. Chem. – 2005. – Vol. 280, N 25. – P. 24159–24167.
59. Ultraconserved regions encoding ncRNAs are altered in human leukemias and carcinomas / G. A. Calin [et al.] // Cancer Cell. – 2007. – Vol. 12, N 3. – P. 215–229.
60. Identification of a novel non-coding RNA, MIAT, that confers risk of myocardial infarction / N. Ishii [et al.] // J. Hum. Genet. – 2006. – Vol. 51, N 12. – P. 1087–1099.
61. Schoeftner, S. Developmentally regulated transcription of mammalian telomeres by DNA-dependent RNA polymerase II / S. Schoeftner, M. A. Blasco // Nat. Cell Biol. – 2008. – Vol. 10, N 2. – P. 228–236.
62. Telomeric repeat containing RNA and RNA surveillance factors at mammalian chromosome ends / C. M. Azzalin [et al.] // Science. – 2015. – Vol. 318, N 5851. – P. 798–801.
63. The GENCODE v7 catalog of human long noncoding RNAs: analysis of their gene structure, evolution, and expression / T. Derrien [et al.] // Genome Res. – 2012. – Vol. 22, N 9. – P. 1775–1789.
64. RNA sequencing of transcriptomes in human brain regions: protein-coding and non-coding RNAs, isoforms and alleles / A. Webb [et al.] // BMC Genomics. – 2015. – Vol. 16. – P. 990.
65. An evolutionarily conserved long noncoding RNA TUNA controls pluripotency and neural lineage commitment / N. Lin [et al.] // Mol. Cell. – 2014. – Vol. 53, N 6. – P. 1005–1019.
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