Author Correction: The mitochondrial genome encodes abundant small noncoding RNAs (Cell Research, (2013), 23, 6, (759-774), 10.1038/cr.2013.37);The mitochondrial genome encodes abundant small noncoding RNAs

Cell Research

Volumn 23, Issue 6, 2013, Pages 759-774

  Ro, Seungil ^a   Ma, Hsiu Yen ^a,b   Park, Chanjae ^a   Ortogero, Nicole ^a   Song, Rui ^a,e   Hennig, Grant W ^a   Zheng, Huili ^a   Lin, Yung Ming ^b   Moro, Loredana ^c   Hsieh, Jer Tsong ^d   Yan, Wei ^a  

^a UNIVERSITY OF NEVADA SCHOOL OF MEDICINE   (United States)

^b NATIONAL CHENG KUNG UNIVERSITY   (Taiwan)

^c CNR   (Italy)

^d UNIVERSITY OF TEXAS SOUTHWESTERN MEDICAL CENTER   (United States)

^e UNIVERSITY OF CALIFORNIA   (United States)

Author keywords

Circular genome; Gene expression; Mitochondria; RNA interference; Small noncoding RNAs; Transcription

Indexed keywords

MAMMALIA; MURINAE;

EID: 84878692183     PISSN: 10010602     EISSN: 17487838     Source Type: Journal    
DOI: 10.1038/s41422-021-00571-0     Document Type: Erratum

References (70)

1. Taylor RW, Turnbull DM. Mitochondrial DNA transcription: regulating the power supply. Cell 2007; 130:211-213.
2. Scarpulla RC. Transcriptional paradigms in mammalian mitochondrial biogenesis and function. Physiol Rev 2008; 88:611- 638.
3. Guarente L. Mitochondria - a nexus for aging, calorie restriction, and sirtuins? Cell 2008; 132:171-176.
4. Chan DC. Mitochondria: dynamic organelles in disease, aging, and development. Cell 2006; 125:1241-1252.
5. Balaban RS, Nemoto S, Finkel T. Mitochondria, oxidants, and aging. Cell 2005; 120:483-495.
6. Newmeyer DD, Ferguson-Miller S. Mitochondria: releasing power for life and unleashing the machineries of death. Cell 2003; 112:481-490.
7. Fernandez-Silva P, Enriquez JA, Montoya J. Replication and transcription of mammalian mitochondrial DNA. Exp Physiol 2003; 88:41-56.
8. Gaspari M, Larsson NG, Gustafsson CM. The transcription machinery in mammalian mitochondria. Biochim Biophys Acta 2004; 1659:148-152.
9. Montoya J, Lopez-Perez MJ, Ruiz-Pesini E. Mitochondrial DNA transcription and diseases: past, present and future. Biochim Biophys Acta 2006; 1757:1179-1189.
10. Wallace DC. Mitochondrial diseases in man and mouse. Science 1999; 283:1482-1488.
11. Lagos-Quintana M, Rauhut R, Yalcin A, Meyer J, Lendeckel W, Tuschl T. Identification of tissue-specific microRNAs from mouse. Curr Biol 2002; 12:735-739.
12. Jones L. Revealing micro-RNAs in plants. Trends Plant Sci 2002; 7:473-475.
13. Lim LP, Lau NC, Weinstein EG, et al. The microRNAs of Caenorhabditis elegans. Genes Dev 2003; 17:991-1008.
14. Aravin A, Gaidatzis D, Pfeffer S, et al. A novel class of small RNAs bind to MILI protein in mouse testes. Nature 2006; 442:203-207.
15. Girard A, Sachidanandam R, Hannon GJ, Carmell MA. A germline-specific class of small RNAs binds mammalian Piwi proteins. Nature 2006; 442:199-202.
16. Lau NC, Seto AG, Kim J, et al. Characterization of the piRNA complex from rat testes. Science 2006; 313:363-367.
17. Song R, Hennig GW, Wu Q, Jose C, Zheng H, Yan W. Male germ cells express abundant endogenous siRNAs. Proc Natl Acad Sci USA 2011; 108:13159-13164.
18. Suh N, Blelloch R. Small RNAs in early mammalian development: from gametes to gastrulation. Development 2011; 138:1653-1661.
19. Suh N, Baehner L, Moltzahn F, et al. MicroRNA function is globally suppressed in mouse oocytes and early embryos. Current Biol 2010; 20:271-277.
20. 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; 22:2773-2785.
21. Taft RJ, Kaplan CD, Simons C, Mattick JS. Evolution, biogenesis and function of promoter-associated RNAs. Cell Cycle 2009; 8:2332-2338.
22. Napoli S, Pastori C, Magistri M, Carbone GM, Catapano CV. Promoter-specific transcriptional interference and c-myc gene silencing by siRNAs in human cells. EMBO J 2009; 28:1708- 1719.
23. Hawkins PG, Santoso S, Adams C, Anest V, Morris KV. Promoter targeted small RNAs induce long-term transcriptional gene silencing in human cells. Nucleic Acids Res 2009; 37:2984-2995.
24. Kim VN, Han J, Siomi MC. Biogenesis of small RNAs in animals. Nat Rev Mol Cell Biol 2009; 10:126-139.
25. Han J, Pedersen JS, Kwon SC, et al. Posttranscriptional crossregulation between Drosha and DGCR8. Cell 2009; 136:75- 84.
26. Babiarz JE, Blelloch R. Small RNAs - their biogenesis, regulation and function in embryonic stem cells. StemBook. Cambridge (MA) 2008.
27. Ro S, Song R, Park C, Zheng H, Sanders KM, Yan W. Cloning and expression profiling of small RNAs expressed in the mouse ovary. RNA 2007; 13:2366-2380.
28. Ro S, Park C, Jin J, Sanders KM, Yan W. A PCR-based method for detection and quantification of small RNAs. Biochem Biophys Res Commun 2006; 351:756-763.
29. Zamore PD, Tuschl T, Sharp PA, Bartel DP. RNAi: doublestranded RNA directs the ATP-dependent cleavage of mRNA at 21 to 23 nucleotide intervals. Cell 2000; 101:25-33.
30. Perna NT, Kocher TD. Mitochondrial DNA: molecular fossils in the nucleus. Current Biol 1996; 6:128-129.
31. Yao YG, Kong QP, Salas A, Bandelt HJ. Pseudomitochondrial genome haunts disease studies. J Med Genet 2008; 45:769- 772.
32. Yuan JD, Shi JX, Meng GX, An LG, Hu GX. Nuclear pseudogenes of mitochondrial DNA as a variable part of the human genome. Cell Res 1999; 9:281-290.
33. Moro L, Arbini AA, Yao JL, di Sant'Agnese PA, Marra E, Greco M. Mitochondrial DNA depletion in prostate epithelial cells promotes anoikis resistance and invasion through activation of PI3K/Akt2. Cell Death Differ 2009; 16:571-583.
34. Wu Q, Song R, Ortogero N, et al. The RNase III enzyme DROSHA is essential for microRNA production and spermatogenesis. J Biol Chem 2012; 287:25173-25190.
35. Papaioannou MD, Pitetti JL, Ro S, et al. Sertoli cell Dicer is essential for spermatogenesis in mice. Dev Biol 2009; 326:250-259.
36. Agrawal N, Dasaradhi PV, Mohmmed A, Malhotra P, Bhatnagar RK, Mukherjee SK. RNA interference: biology, mechanism, and applications. Microbiol Mol Biol Rev 2003; 67:657- 685.
37. Taylor SW, Fahy E, Zhang B, et al. Characterization of the human heart mitochondrial proteome. Nat Biotechnol 2003; 21:281-286.
38. Da Cruz S, Xenarios I, Langridge J, Vilbois F, Parone PA, Martinou JC. Proteomic analysis of the mouse liver mitochondrial inner membrane. J Biol Chem 2003; 278:41566-41571.
39. Zhang J, Li X, Mueller M, et al. Systematic characterization of the murine mitochondrial proteome using functionally validated cardiac mitochondria. Proteomics 2008; 8:1564-1575.
40. Chakrabarti A, Jha BK, Silverman RH. New insights into the role of RNase L in innate immunity. J Interferon Cytokine Res 2011; 31:49-57.
41. Barber GN. Host defense, viruses and apoptosis. Cell Death Differ 2001; 8:113-126.
42. Shock LS, Thakkar PV, Peterson EJ, Moran RG, Taylor SM. DNA methyltransferase 1, cytosine methylation, and cytosine hydroxymethylation in mammalian mitochondria. Proc Natl Acad Sci USA 2011; 108:3630-3635.
43. Babiarz JE, Hsu R, Melton C, Thomas M, Ullian EM, Blelloch R. A role for noncanonical microRNAs in the mammalian brain revealed by phenotypic differences in Dgcr8 versus Dicer1 knockouts and small RNA sequencing. RNA 2011; 17:1489-1501.
44. Bezman NA, Cedars E, Steiner DF, Blelloch R, Hesslein DG, Lanier LL. Distinct requirements of microRNAs in NK cell activation, survival, and function. J Immunol 2010; 185:3835- 3846.
45. Damiani D, Alexander JJ, O'Rourke JR, et al. Dicer inactivation leads to progressive functional and structural degeneration of the mouse retina. J Neurosci 2008; 28:4878-4887.
46. Georgi SA, Reh TA. Dicer is required for the transition from early to late progenitor state in the developing mouse retina. J Neurosci 2010; 30:4048-4061.
47. Harvey SJ, Jarad G, Cunningham J, et al. Podocyte-specific deletion of dicer alters cytoskeletal dynamics and causes glomerular disease. J Am Soc Nephrol 2008; 19:2150-2158.
48. Hayashi K, Chuva de Sousa Lopes SM, Kaneda M, et al. MicroRNA biogenesis is required for mouse primordial germ cell development and spermatogenesis. PLoS One 2008; 3:e1738.
49. Huang T, Liu Y, Huang M, Zhao X, Cheng L. Wnt1-cremediated conditional loss of Dicer results in malformation of the midbrain and cerebellum and failure of neural crest and dopaminergic differentiation in mice. J Mol Cell Biol 2010; 2:152-163.
50. Iida A, Shinoe T, Baba Y, Mano H, Watanabe S. Dicer plays essential roles for retinal development by regulation of survival and differentiation. Invest Ophthalmol Vis Sci 2011; 52:3008-3017.
51. Kim GJ, Georg I, Scherthan H, et al. Dicer is required for Sertoli cell function and survival. Int J Dev Biol 2010; 54:867- 875.
52. Lei L, Jin S, Gonzalez G, Behringer RR, Woodruff TK. The regulatory role of Dicer in folliculogenesis in mice. Mol Cell Endocrinol 2010; 315:63-73.
53. Mudhasani R, Puri V, Hoover K, Czech MP, Imbalzano AN, Jones SN. Dicer is required for the formation of white but not brown adipose tissue. J Cell Physiol 2011; 226:1399-1406.
54. Nagaraja AK, Andreu-Vieyra C, Franco HL, et al. Deletion of Dicer in somatic cells of the female reproductive tract causes sterility. Mol Endocrinol 2008; 22:2336-2352.
55. Pan Y, Balazs L, Tigyi G, Yue J. Conditional deletion of Dicer in vascular smooth muscle cells leads to the developmental delay and embryonic mortality. Biochem Biophys Res Commun 2011; 408:369-374.
56. Sekine S, Ogawa R, Ito R, et al. Disruption of Dicer1 induces dysregulated fetal gene expression and promotes hepatocarcinogenesis. Gastroenterology 2009; 136:2304-2315. e1-4.
57. Sequeira-Lopez ML, Weatherford ET, Borges GR, et al. The microRNA-processing enzyme dicer maintains juxtaglomerular cells. J Am Soc Nephrol 2010; 21:460-467.
58. Zhao J, Lee MC, Momin A, et al. Small RNAs control sodium channel expression, nociceptor excitability, and pain thresholds. J Neurosci 2010; 30:10860-10871.
59. Zhou X, Jeker LT, Fife BT, et al. Selective miRNA disruption in T reg cells leads to uncontrolled autoimmunity. J Exp Med 2008; 205:1983-1991.
60. Ro S, Park C, Song R, et al. Cloning and expression profiling of testis-expressed piRNA-like RNAs. RNA 2007; 13:1693- 1702.
61. Ortogero N, Hennig GW, Langille C, Ro S, McCarrey JR, Yan W. Computer-Assisted Annotation of Murine Sertoli Cell Small RNA Transcriptome. Biol Reprod 2013; 3;88:3
62. Ro S, Park C, Young D, Sanders KM, Yan W. Tissue-dependent paired expression of miRNAs. Nucleic Acids Res 2007; 35:5944-5953.
63. Entelis NS, Kolesnikova OA, Dogan S, Martin RP, Tarassov IA. 5S rRNA and tRNA import into human mitochondria. Comparison of in vitro requirements. J Biol Chem 2001; 276:45642-45653.
64. Entelis NS, Kolesnikova OA, Martin RP, Tarassov IA. RNA delivery into mitochondria. Adv Drug Deliv Rev 2001; 49:199-215.
65. Magalhaes PJ, Andreu AL, Schon EA. Evidence for the presence of 5S rRNA in mammalian mitochondria. Mol Biol Cell 1998; 9:2375-2382.
66. Yoshionari S, Koike T, Yokogawa T, et al. Existence of nuclear-encoded 5S-rRNA in bovine mitochondria. FEBS Lett 1994; 338:137-142.
67. Song R, Ro S, Michaels JD, Park C, McCarrey JR, Yan W. Many X-linked microRNAs escape meiotic sex chromosome inactivation. Nat Genet 2009; 41:488-493.
68. Zheng H, Stratton CJ, Morozumi K, Jin J, Yanagimachi R, Yan W. Lack of Spem1 causes aberrant cytoplasm removal, sperm deformation, and male infertility. Proc Natl Acad Sci USA 2007; 104:6852-6857.
69. Yan W, Ma L, Burns KH, Matzuk MM. Haploinsufficiency of kelch-like protein homolog 10 causes infertility in male mice. Proc Natl Acad Sci USA 2004; 101:7793-7798.
70. Yan W, Ma L, Burns KH, Matzuk MM. HILS1 is a spermatidspecific linker histone H1-like protein implicated in chromatin remodeling during mammalian spermiogenesis. Proc Natl Acad Sci USA 2003; 100:10546-10551.