Slicing tRNAs to boost functional ncRNA diversity

RNA Biology

Volumn 10, Issue 12, 2013, Pages 1798-1806

  Gebetsberger, Jennifer ^a   Polacek, Norbert ^a,b  

^a UNIVERSITY OF BERN   (Switzerland)

^b INNSBRUCK MEDICAL UNIVERSITY   (Austria)

Author keywords

Non coding RNA; RNA fragmentation; RNA processing; RNA silencing; Translation regulation; tRNA halves; tRNA derived fragments

Indexed keywords

TRANSFER RNA; UNTRANSLATED RNA;

3' UNTRANSLATED REGION; 5' UNTRANSLATED REGION; APOPTOSIS; CELL FUNCTION; CELLULAR DISTRIBUTION; REVIEW; RNA CLEAVAGE;

NON-CODING RNA; RNA FRAGMENTATION; RNA PROCESSING; RNA SILENCING; TRANSLATION REGULATION; TRNA HALVES; TRNA-DERIVED FRAGMENTS;

APOPTOSIS; ARCHAEA; BACTERIA; CELL PHYSIOLOGICAL PROCESSES; EPIGENESIS, GENETIC; EUKARYOTA; NUCLEIC ACID CONFORMATION; RNA INTERFERENCE; RNA PROCESSING, POST-TRANSCRIPTIONAL; RNA, TRANSFER; RNA, UNTRANSLATED;

EID: 84893147804     PISSN: 15476286     EISSN: 15558584     Source Type: Journal    
DOI: 10.4161/rna.27177     Document Type: Review

References (85)

1. Hüttenhofer A, Kiefmann M, Meier-Ewert S, O'Brien J, Lehrach H, Bachellerie JP, Brosius J. RNomics: an experimental approach that identifies 201 candidates for novel, small, non-messenger RNAs in mouse. EMBO J 2001; 20:2943-53; PMID:11387227; http://dx.doi.org/10.1093/emboj/20.11.2943
2. Hüttenhofer A, Brosius J, Bachellerie JP. RNomics: identification and function of small, non-messenger RNAs. Curr Opin Chem Biol 2002; 6:835-43; PMID:12470739; http://dx.doi.org/10.1016/S1367-5931(02)00397-6
3. Hüttenhofer A, Schattner P, Polacek N. Non-coding RNAs: hope or hype? Trends Genet 2005; 21:289-97; PMID:15851066; http://dx.doi.org/10.1016/j. tig.2005.03.007
4. Mattick JS. RNA regulation: a new genetics? Nat Rev Genet 2004; 5:316-23; PMID:15131654; http://dx.doi.org/10.1038/nrg1321
5. Amaral PP, Dinger ME, Mercer TR, Mattick JS. The eukaryotic genome as an RNA machine. Science 2008; 319:1787-9; PMID:18369136; http://dx.doi.org/10.1126/ science.1155472
6. Sabin LR, Delás MJ, Hannon GJ. Dogma derailed: the many influences of RNA on the genome. Mol Cell 2013; 49:783-94; PMID:23473599; http://dx.doi.org/10.1016/j.molcel.2013.02.010
7. Ender C, Krek A, Friedländer MR, Beitzinger M, Weinmann L, Chen W, Pfeffer S, Rajewsky N, Meister G. A human snoRNA with microRNA-like functions. Mol Cell 2008; 32:519-28; PMID:19026782; http://dx.doi.org/10.1016/j.molcel. 2008.10.017
8. Scott MS, Avolio F, Ono M, Lamond AI, Barton GJ. Human miRNA precursors with box H/ACA snoRNA features. PLoS Comput Biol 2009; 5:e1000507; PMID:19763159; http://dx.doi.org/10.1371/journal.pcbi.1000507
9. Mercer TR, Dinger ME, Bracken CP, Kolle G, Szubert JM, Korbie DJ, Askarian-Amiri ME, Gardiner BB, Goodall GJ, Grimmond SM, et al. Regulated post-transcriptional RNA cleavage diversifies the eukaryotic transcriptome. Genome Res 2010; 20:1639-50; PMID:21045082; http://dx.doi.org/10.1101/gr.112128. 110
10. Tuck AC, Tollervey D. RNA in pieces. Trends Genet 2011; 27:422-32; PMID:21741109; http://dx.doi.org/10.1016/j.tig.2011.06.001
11. Giegé R. Toward a more complete view of tRNA biology. Nat Struct Mol Biol 2008; 15:1007-14; PMID:18836497; http://dx.doi.org/10.1038/nsmb.1498
12. Dorner S, Polacek N, Schulmeister U, Panuschka C, Barta A. Molecular aspects of the ribosomal peptidyl transferase. Biochem Soc Trans 2002; 30:1131-6; PMID:12440989; http://dx.doi.org/10.1042/BST0301131
13. Lang K, Erlacher M, Wilson DN, Micura R, Polacek N. The role of 23S ribosomal RNA residue A2451 in peptide bond synthesis revealed by atomic mutagenesis. Chem Biol 2008; 15:485-92; PMID:18439847; http://dx.doi.org/10. 1016/j.chembiol.2008.03.014
14. Zaher HS, Shaw JJ, Strobel SA, Green R. The 2′-OH group of the peptidyl-tRNA stabilizes an active conformation of the ribosomal PTC. EMBO J 2011; 30:2445-53; PMID:21552203; http://dx.doi.org/10.1038/emboj.2011.142
15. Trobro S, Aqvist J. Mechanism of peptide bond synthesis on the ribosome. Proc Natl Acad Sci U S A 2005; 102:12395-400; PMID:16116099; http://dx.doi.org/10.1073/pnas.0504043102
16. Li Y, Zhou H. tRNAs as regulators in gene expression. Sci China C Life Sci 2009; 52:245-52; PMID:19294349; http://dx.doi.org/10.1007/s11427-009-0039-y
17. Green NJ, Grundy FJ, Henkin TM. The T box mechanism: tRNA as a regulatory molecule. FEBS Lett 2010; 584:318-24; PMID:19932103; http://dx.doi.org/10.1016/ j.febslet.2009.11.056
18. Durdevic Z, Schaefer M. tRNA modifications: necessary for correct tRNA-derived fragments during the recovery from stress? Bioessays 2013; 35:323-7; PMID:23315679; http://dx.doi.org/10.1002/bies.201200158
19. Defoiche J, Zhang Y, Lagneaux L, Pettengell R, Hegedus A, Willems L, Macallan DC. Measurement of ribosomal RNA turnover in vivo by use of deuterium-labeled glucose. Clin Chem 2009; 55:1824-33; PMID:19696118; http://dx.doi.org/10.1373/clinchem.2008.119446
20. Motorin Y, Helm M. tRNA stabilization by modified nucleotides. Biochemistry 2010; 49:4934-44; PMID:20459084; http://dx.doi.org/10.1021/ bi100408z
21. Phizicky EM, Hopper AK. tRNA biology charges to the front. Genes Dev 2010; 24:1832-60; PMID:20810645; http://dx.doi.org/10.1101/gad.1956510
22. Levitz R, Chapman D, Amitsur M, Green R, Snyder L, Kaufmann G. The optional E. coli prr locus encodes a latent form of phage T4-induced anticodon nuclease. EMBO J 1990; 9:1383-9; PMID:1691706
23. Kawaji H, Nakamura M, Takahashi Y, Sandelin A, Katayama S, Fukuda S, Daub CO, Kai C, Kawai J, Yasuda J, et al. Hidden layers of human small RNAs. BMC Genomics 2008; 9:157; PMID:18402656; http://dx.doi.org/10.1186/1471-2164-9-157
24. Sobala A, Hutvagner G. Transfer RNA-derived fragments: origins, processing, and functions. Wiley Interdiscip Rev RNA 2011; 2:853-62; PMID:21976287; http://dx.doi.org/10.1002/wrna.96
25. Yamasaki S, Ivanov P, Hu GF, Anderson P. Angiogenin cleaves tRNA and promotes stress-induced translational repression. J Cell Biol 2009; 185:35-42; PMID:19332886; http://dx.doi.org/10.1083/jcb.200811106
26. Emara MM, Ivanov P, Hickman T, Dawra N, Tisdale S, Kedersha N, Hu GF, Anderson P. Angiogenininduced tRNA-derived stress-induced RNAs promote stress-induced stress granule assembly. J Biol Chem 2010; 285:10959-68; PMID:20129916; http://dx.doi.org/10.1074/jbc.M109.077560
27. Nowacka M, Strozycki PM, Jackowiak P, Hojka-Osinska A, Szymanski M, Figlerowicz M. Identification of stable, high copy number, mediumsized RNA degradation intermediates that accumulate in plants under non-stress conditions. Plant Mol Biol 2013; 83:191-204; PMID:23708952; http://dx.doi.org/10.1007/ s11103-013-0079-3
28. Fu H, Feng J, Liu Q, Sun F, Tie Y, Zhu J, Xing R, Sun Z, Zheng X. Stress induces tRNA cleavage by angiogenin in mammalian cells. FEBS Lett 2009; 583:437-42; PMID:19114040; http://dx.doi.org/10.1016/j.febslet.2008.12.043
29. Dhahbi JM, Spindler SR, Atamna H, Yamakawa A, Boffelli D, Mote P, Martin DI. 5' tRNA halves are present as abundant complexes in serum, concentrated in blood cells, and modulated by aging and calorie restriction. BMC Genomics 2013; 14:298; PMID:23638709; http://dx.doi.org/10.1186/1471-2164-14-298
30. Thompson DM, Parker R. Stressing out over tRNA cleavage. Cell 2009; 138:215-9; PMID:19632169; http://dx.doi.org/10.1016/j.cell.2009.07.001
31. Andersen KL, Collins K. Several RNase T2 enzymes function in induced tRNA and rRNA turnover in the ciliate Tetrahymena. Mol Biol Cell 2012; 23:36-44; PMID:22049026; http://dx.doi.org/10.1091/mbc.E11-08-0689
32. Thompson DM, Lu C, Green PJ, Parker R. tRNA cleavage is a conserved response to oxidative stress in eukaryotes. RNA 2008; 14:2095-103; PMID:18719243; http://dx.doi.org/10.1261/rna.1232808
33. Thompson DM, Parker R. The RNase Rny1p cleaves tRNAs and promotes cell death during oxidative stress in Saccharomyces cerevisiae. J Cell Biol 2009; 185:43-50; PMID:19332891; http://dx.doi.org/10.1083/jcb.200811119
34. Fett JW, Strydom DJ, Lobb RR, Alderman EM, Bethune JL, Riordan JF, Vallee BL. Isolation and characterization of angiogenin, an angiogenic protein from human carcinoma cells. Biochemistry 1985; 24:5480-6; PMID:4074709; http://dx.doi.org/10.1021/bi00341a030
35. Zhao H, Bojanowski K, Ingber DE, Panigrahy D, Pepper MS, Montesano R, Shing Y. New role for tRNA and its fragment purified from human urinary bladder carcinoma conditioned medium: inhibition of endothelial cell growth. J Cell Biochem 1999; 76:109-17; PMID:10581005; http://dx.doi.org/10.1002/(SICI) 1097-4644(20000101)76:1〈109::AIDJCB11〉3.0.CO;2-K
36. Saxena SK, Rybak SM, Davey RT Jr., Youle RJ, Ackerman EJ. Angiogenin is a cytotoxic, tRNA-specific ribonuclease in the RNase A superfamily. J Biol Chem 1992; 267:21982-6; PMID:1400510
37. Schaefer M, Pollex T, Hanna K, Tuorto F, Meusburger M, Helm M, Lyko F. RNA methylation by Dnmt2 protects transfer RNAs against stress-induced cleavage. Genes Dev 2010; 24:1590-5; PMID:20679393; http://dx.doi.org/10.1101/gad.586710
38. Nawrot B, Sochacka E, Düchler M. tRNA structural and functional changes induced by oxidative stress. Cell Mol Life Sci 2011; 68:4023-32; PMID:21833586; http://dx.doi.org/10.1007/s00018-011-0773-8
39. Kaufmann G. Anticodon nucleases. Trends Biochem Sci 2000; 25:70-4; PMID:10664586; http://dx.doi.org/10.1016/S0968-0004(99)01525-X
40. Lu J, Esberg A, Huang B, Byström AS. Kluyveromyces lactis gamma-toxin, a ribonuclease that recognizes the anticodon stem loop of tRNA. Nucleic Acids Res 2008; 36:1072-80; PMID:18096622; http://dx.doi.org/10.1093/ nar/gkm1121
41. Lee SR, Collins K. Starvation-induced cleavage of the tRNA anticodon loop in Tetrahymena thermophila. J Biol Chem 2005; 280:42744-9; PMID:16272149; http://dx.doi.org/10.1074/jbc.M510356200
42. Haiser HJ, Karginov FV, Hannon GJ, Elliot MA. Developmentally regulated cleavage of tRNAs in the bacterium Streptomyces coelicolor. Nucleic Acids Res 2008; 36:732-41; PMID:18084030; http://dx.doi.org/10.1093/nar/gkm1096
43. Hsieh LC, Lin SI, Shih AC, Chen JW, Lin WY, Tseng CY, Li WH, Chiou TJ. Uncovering small RNA-mediated responses to phosphate deficiency in Arabidopsis by deep sequencing. Plant Physiol 2009; 151:2120-32; PMID:19854858; http://dx.doi.org/10.1104/pp.109.147280
44. Reifur L, Garcia-Silva MR, Poubel SB, Alves LR, Arauco P, Buiar DK, Goldenberg S, Cayota A, Dallagiovanna B. Distinct subcellular localization of tRNA-derived fragments in the infective metacyclic forms of Trypanosoma cruzi. Mem Inst Oswaldo Cruz 2012; 107:816-9; PMID:22990974; http://dx.doi.org/10.1590/ S0074-02762012000600018
45. Garcia-Silva MR, Cabrera-Cabrera F, Güida MC. A. C. Hints of tRNA-Derived Small RNAs in RNA Silencing Mechanisms. Genes 2012:603-614.
46. Zywicki M, Bakowska-Zywicka K, Polacek N. Revealing stable processing products from ribo-some-associated small RNAs by deep-sequencing data analysis. Nucleic Acids Res 2012; 40:4013-24; PMID:22266655; http://dx.doi.org/10.1093/ nar/gks020
47. Franzén O, Arner E, Ferella M, Nilsson D, Respuela P, Carninci P, Hayashizaki Y, Aslund L, Andersson B, Daub CO. The short non-coding transcriptome of the protozoan parasite Trypanosoma cruzi. PLoS Negl Trop Dis 2011; 5 :e1283; PMID: 21912713; http://dx.doi.org/10.1371/journal.pntd.0001283
48. Garcia-Silva MR, Frugier M, Tosar JP, Correa-Dominguez A, Ronalte-Alves L, Parodi-Talice A, Rovira C, Robello C, Goldenberg S, Cayota A. A population of tRNA-derived small RNAs is actively produced in Trypanosoma cruzi and recruited to specific cytoplasmic granules. Mol Biochem Parasitol 2010; 171:64-73; PMID:20156490; http://dx.doi.org/10.1016/j.molbiopara.2010.02.003
49. Zhang S, Sun L, Kragler F. The phloem-delivered RNA pool contains small noncoding RNAs and interferes with translation. Plant Physiol 2009; 150:378-87; PMID:19261735; http://dx.doi.org/10.1104/pp.108.134767
50. Saikia M, Krokowski D, Guan BJ, Ivanov P, Parisien M, Hu GF, Anderson P, Pan T, Hatzoglou M. Genome-wide identification and quantitative analysis of cleaved tRNA fragments induced by cellular stress. J Biol Chem 2012; 287:42708-25; PMID:23086926; http://dx.doi.org/10.1074/jbc.M112.371799
51. Jöchl C, Rederstorff M, Hertel J, Stadler PF, Hofacker IL, Schrettl M, Haas H, Hüttenhofer A. Small ncRNA transcriptome analysis from Aspergillus fumigatus suggests a novel mechanism for regulation of protein synthesis. Nucleic Acids Res 2008; 36:2677-89; PMID:18346967; http://dx.doi.org/10.1093/nar/gkn123
52. Ivanov P, Emara MM, Villen J, Gygi SP, Anderson P. Angiogenin-induced tRNA fragments inhibit translation initiation. Mol Cell 2011; 43:613-23; PMID:21855800; http://dx.doi.org/10.1016/j.molcel.2011.06.022
53. Durdevic Z, Mobin MB, Hanna K, Lyko F, Schaefer M. The RNA methyltransferase Dnmt2 is required for efficient Dicer-2-dependent siRNA pathway activity in Drosophila. Cell Rep 2013; 4:931-7; PMID:24012760; http://dx.doi.org/10.1016/j.celrep.2013.07.046
54. Wang L, Yu X, Wang H, Lu YZ, de Ruiter M, Prins M, He YK. A novel class of heat-responsive small RNAs derived from the chloroplast genome of Chinese cabbage (Brassica rapa). BMC Genomics 2011; 12:289; PMID:21639890; http://dx.doi.org/10.1186/1471-2164-12-289
55. Couvillion MT, Sachidanandam R, Collins K. A growth-essential Tetrahymena Piwi protein carries tRNA fragment cargo. Genes Dev 2010; 24:2742-7; PMID:21106669; http://dx.doi.org/10.1101/gad.1996210
56. Chen CJ, liu Q, Zhang YC, Qu LH, Chen YQ, Gautheret D. Genome-wide discovery and analysis of microRNAs and other small RNAs from rice embryogenic callus. RNA Biol 2011; 8:538-47; PMID:21525786; http://dx.doi.org/10.4161/rna.8. 3.15199
57. Gebetsberger J, Zywicki M, Künzi A, Polacek N. tRNA-derived fragments target the ribosome and function as regulatory non-coding RNA in Haloferax volcanii. Archaea 2012; 2012:260909; PMID:23326205; http://dx.doi.org/10.1155/2012/260909
58. Moazed D. Small RNAs in transcriptional gene silencing and genome defence. Nature 2009; 457:413-20; PMID:19158787; http://dx.doi.org/10.1038/ nature07756
59. Cole C, Sobala A, Lu C, Thatcher SR, Bowman A, Brown JW, Green PJ, Barton GJ, Hutvagner G. Filtering of deep sequencing data reveals the existence of abundant Dicer-dependent small RNAs derived from tRNAs. RNA 2009; 15:2147-60; PMID:19850906; http://dx.doi.org/10.1261/rna.1738409
60. Pederson T. Regulatory RNAs derived from transfer RNA? RNA 2010; 16:1865-9; PMID:20719919; http://dx.doi.org/10.1261/rna.2266510
61. Bühler M, Spies N, Bartel DP, Moazed D. TRAMP-mediated RNA surveillance prevents spurious entry of RNAs into the Schizosaccharomyces pombe siRNA pathway. Nat Struct Mol Biol 2008; 15:1015-23; PMID:18776903; http://dx.doi.org/10.1038/nsmb.1481
62. Burroughs AM, Ando Y, de Hoon MJ, Tomaru Y, Suzuki H, Hayashizaki Y, Daub CO. Deep-sequencing of human Argonaute-associated small RNAs provides insight into miRNA sorting and reveals Argonaute association with RNA fragments of diverse origin. RNA Biol 2011; 8:158-77; PMID:21282978; http://dx.doi.org/10. 4161/rna.8.1.14300
63. Loss-Morais G, Waterhouse PM, Margis R. Description of plant tRNA-derived RNA fragments (tRFs) associated with argonaute and identification of their putative targets. Biol Direct 2013; 8:6; PMID:23402430; http://dx.doi.org/10. 1186/1745-6150-8-6
64. Sobala A, Hutvagner G. Small RNAs derived from the 52 end of tRNA can inhibit protein translation in human cells. RNA Biol 2013; 10:553-63; PMID:23563448; http://dx.doi.org/10.4161/rna.24285
65. Yeung ML, Bennasser Y, Watashi K, Le SY, Houzet L, Jeang KT. Pyrosequencing of small non-coding RNAs in HIV-1 infected cells: evidence for the processing of a viral-cellular double-stranded RNA hybrid. Nucleic Acids Res 2009; 37:6575-86; PMID:19729508; http://dx.doi.org/10.1093/nar/gkp707
66. Babiarz JE, Ruby JG, Wang Y, Bartel DP, Blelloch R. Mouse ES cells express endogenous shRNAs, siRNAs, and other Microprocessor-independent, Dicer-dependent small RNAs. Genes Dev 2008; 22:2773-85; PMID:18923076; http://dx.doi.org/10.1101/gad.1705308
67. Maute RL, Schneider C, Sumazin P, Holmes A, Califano A, Basso K, Dalla-Favera R. tRNA-derived microRNA modulates proliferation and the DNA damage response and is down-regulated in B cell lymphoma. Proc Natl Acad Sci U S A 2013; 110:1404-9; PMID:23297232; http://dx.doi.org/10.1073/pnas.1206761110
68. Li Z, Ender C, Meister G, Moore PS, Chang Y, John B. Extensive terminal and asymmetric processing of small RNAs from rRNAs, snoRNAs, snRNAs, and tRNAs. Nucleic Acids Res 2012; 40:6787-99; PMID:22492706; http://dx.doi.org/10.1093/ nar/gks307
69. Haussecker D, Huang Y, Lau A, Parameswaran P, Fire AZ, Kay MA. Human tRNA-derived small RNAs in the global regulation of RNA silencing. RNA 2010; 16:673-95; PMID:20181738; http://dx.doi.org/10.1261/rna.2000810
70. Isel C, Ehresmann C, Keith G, Ehresmann B, Marquet R. Initiation of reverse transcription of HIV-1: secondary structure of the HIV-1 RNA/tRNA(3Lys) (template/primer). J Mol Biol 1995; 247:236-50; PMID:7707372; http://dx.doi.org/10.1006/jmbi.1994.0136
71. van Rij RP, Saleh MC, Berry B, Foo C, Houk A, Antoniewski C, Andino R. The RNA silencing endonuclease Argonaute 2 mediates specific antiviral immunity in Drosophila melanogaster. Genes Dev 2006; 20:2985-95; PMID:17079687; http://dx.doi.org/10.1101/gad.1482006
72. Couvillion MT, Bounova G, Purdom E, Speed TP, Collins K. A Tetrahymena Piwi bound to mature tRNA 3 2 fragments activates the exonuclease Xrn2 for RNA processing in the nucleus. Mol Cell 2012; 48:509-20; PMID:23084833; http://dx.doi.org/10.1016/j.molcel.2012.09.010
73. Thomson T, Lin H. The biogenesis and function of PIWI proteins and piRNAs: progress and prospect. Annu Rev Cell Dev Biol 2009; 25:355-76; PMID:19575643; http://dx.doi.org/10.1146/annurev.cellbio.24.110707.175327
74. Houseley J, Tollervey D. The many pathways of RNA degradation. Cell 2009; 136:763-76; PMID:19239894; http://dx.doi.org/10.1016/j.cell.2009.01.019
75. Hasler D, Meister G. An argonaute protein directs nuclear Xrn2 function. Mol Cell 2012; 48:485-6; PMID:23200120; http://dx.doi.org/10.1016/j.molcel.2012. 11.015
76. Lee YS, Shibata Y, Malhotra A, Dutta A. A novel class of small RNAs: tRNA-derived RNA fragments (tRFs). Genes Dev 2009; 23:2639-49; PMID:19933153; http://dx.doi.org/10.1101/gad.1837609
77. Liao JY, Ma LM, Guo YH, Zhang YC, Zhou H, Shao P, Chen YQ, Qu LH. Deep sequencing of human nuclear and cytoplasmic small RNAs reveals an unexpectedly complex subcellular distribution of miRNAs and tRNA 32 trailers. PLoS One 2010; 5:e10563; PMID:20498841; http://dx.doi.org/10.1371/journal.pone.0010563
78. Hopper AK, Shaheen HH. A decade of surprises for tRNA nuclear-cytoplasmic dynamics. Trends Cell Biol 2008; 18:98-104; PMID:18262788; http://dx.doi.org/ 10.1016/j.tcb.2008.01.001
79. Elbarbary RA, Takaku H, Uchiumi N, Tamiya H, Abe M, Nishida H, Nashimoto M. Human cytosolic tRNase ZL can downregulate gene expression through miRNA. FEBS Lett 2009; 583:3241-6; PMID:19751732; http://dx.doi.org/10.1016/j.febslet. 2009.09.015
80. Morin RD, O'Connor MD, Griffith M, Kuchenbauer F, Delaney A, Prabhu AL, Zhao Y, McDonald H, Zeng T, Hirst M, et al. Application of massively parallel sequencing to microRNA profiling and discovery in human embryonic stem cells. Genome Res 2008; 18:610-21; PMID:18285502; http://dx.doi.org/10.1101/gr.7179508
81. Heyer R, Dörr M, Jellen-Ritter A, Späth B, Babski J, Jaschinski K, Soppa J, Marchfelder A. High throughput sequencing reveals a plethora of small RNAs including tRNA derived fragments in Haloferax volcanii. RNA Biol 2012; 9:1011-8; PMID:22767255; http://dx.doi.org/10.4161/rna.20826
82. Li Y, Luo J, Zhou H, Liao JY, Ma LM, Chen YQ, Qu LH. Stress-induced tRNA-derived RNAs: a novel class of small RNAs in the primitive eukaryote Giardia lamblia. Nucleic Acids Res 2008; 36:6048-55; PMID:18820301; http://dx.doi.org/10.1093/nar/gkn596
83. Müller S, Windhof IM, Maximov V, Jurkowski T, Jeltsch A, Förstner KU, Sharma CM, Gräf R, Nellen W. Target recognition, RNA methylation activity and transcriptional regulation of the Dictyostelium discoideum Dnmt2-homologue (DnmA). Nucleic Acids Res 2013; 41:8615-27; PMID:23877245; http://dx.doi.org/10.1093/nar/gkt634
84. Hanada T, Weitzer S, Mair B, Bernreuther C, Wainger BJ, Ichida J, Hanada R, Orthofer M, Cronin SJ, Komnenovic V, et al. CLP1 links tRNA metabolism to progressive motor-neuron loss. Nature 2013; 495: 474-80; PMID: 23474986; http://dx.doi.org/10.1038/nature11923
85. Aalto AP, Pasquinelli AE . Small non-coding RNAs mount a silent revolution in gene expression. Curr Opin Cell Biol 2012; 24:333-40; PMID:22464106; http://dx.doi.org/10.1016/j.ceb.2012.03.006