1. Huang CR, Burns KH, Boeke JD. Active transposition in genomes. Ann Rev Genet 2012; 46: 651-675.
2.
De Koning JAP, Gu W, Castoe TA, Batzer MA, Pollock DD. Repetitive elements may comprise over two-thirds of the human genome. PLoS Genet 2011; 7: e1002384.
3.
Hancks DC, Kazazian HH Jr. Active human retrotransposons: variation and disease. Curr Opin Genet Dev 2012; 22: 191-203.
4.
Rodić N, Sharma R, Sharma R, et al. Long interspersed element-1 protein expression is a hallmark of many human cancers. Am J Pathol 2014; 184: 1280-1286.
5.
Erwin JA, Marchetto MC, Gage FH. Mobile DNA elements in the generation of diversity and complexity in the brain. Nat Rev Neurosci 2014; 15: 497-506.
6.
De Cecco M, Criscione SW, Peckham EJ, et al. Genomes of replicatively senescent cells undergo global epigenetic changes leading to gene silencing and activation of transposable elements. Aging Cell 2013; 12: 247-256.
7.
Van Meter M, Kashyap M, Rezazadeh S, et al. SIRT6 represses LINE1 retrotransposons by ribosylating KAP1 but this repression fails with stress and age. Nat Commun 2014; 5: 5011.
8.
De Cecco M, Ito T, Petrashen AP, et al. Author Correction: L1 drives IFN in senescent cells and promotes age-associated inflammation. Nature 2019; 572: E5.
9.
Volkman HE, Stetson DB. The enemy within: endogenous retroelements and autoimmune disease. Nature Immunol 2014; 15: 415-422.
10.
Salama R, Sadaie M, Hoare M, Narita M. Cellular senescence and its effector programs. Genes Dev 2014; 28: 99-114.
11.
Maxwell PH. What might retrotransposons teach us about aging? Current Genetics 2016; 62: 277-282.
12.
Cardelli M. The epigenetic alterations of endogenous retroelements in aging. Mech Ageing Dev 2018; 174: 30-46.
13.
Sedivy JM, Kreiling JA, Neretti N, et al. Death by transposition – the enemy within? Bioessays 2013; 35: 1035-1043.
14.
Lenart P, Novak J, Bienertova-Vasku J. PIWI-piRNA pathway: setting the pace of aging by reducing DNA damage. Mech Ageing Dev 2018; 173: 29-38.
15.
Tóth KF, Pezic D, Stuwe E, et al. The piRNA pathway guards the germline genome against transposable elements. Adv Exp Med Biol; 2016: 886: 51-77.
16.
Wang J, Geesman GJ, Hostikka SL, et al. Inhibition of activated pericentromeric SINE/Alu repeat transcription in senescent human adult stem cells reinstates self-renewal. Cell Cycle 2011; 10: 3016-3030.
17.
Khan M, Shah S, Lv B, et al. Molecular mechanisms of Alu and LINE-1 interspersed repetitive sequences reveal diseases of visual system dysfunction. Ocul Immunol Inflamm 2023; 31: 1848-1858.
18.
De Cecco M, Ito T, Petrashen AP, et al. L1 drives IFN in senescent cells and promotes age-associated inflammation. Nature 2019; 566: 73-78.
19.
Gentili M, Lahaye X, Nadalin F, et al. The N-terminal domain of cGAS determines preferential association with centromeric DNA and innate immune activation in the nucleus. Cell Reports 2019; 26: 2377-2393.e13.
20.
Thomas CA, Tejwani L, Trujillo CA, et al. Modeling of TREX1-dependent autoimmune disease using human stem cells highlights L1 accumulation as a source of neuroinflammation. Cell Stem Cell 2017; 21: 319-331.e8.
21.
Ishak CA, Marshall AE, Passos DT, et al. An RB-EZH2 complex mediates silencing of repetitive DNA sequences. Molecular Cell 2016; 64: 1074-1087.
22.
Li Q, Zhang Y, Fu J, et al. FOXA1 mediates p16(INK4a) activation during cellular senescence. EMBO J 2013; 32: 858-873.
23.
Denli AM, Narvaiza I, Kerman BE, et al. Primate-specific ORF0 contributes to retrotransposon-mediated diversity. Cell 2015; 163: 583-593.
24.
Wallace NA, Belancio VP, Deininger PL. L1 mobile element expression causes multiple types of toxicity. Gene 2008; 419: 75-81.
25.
Boissinot S, Roos C, Furano AV. Different rates of LINE-1 (L1) retrotransposon amplification and evolution in New World monkeys. J Mol Evol 2004; 58: 122-130.
26.
Bratthauer GL, Cardiff RD, Fanning TG. Expression of LINE-1 retrotransposons in human breast cancer. Cancer 1994; 73: 2333-2336.
27.
Ergün S, Buschmann C, Heukeshoven J, et al. Cell type-specific expression of LINE-1 open reading frames 1 and 2 in fetal and adult human tissues. J Biol Chem 2004; 279: 27753-27763.
28.
Dai L, Huang Q, Boeke JD. Effect of reverse transcriptase inhibitors on LINE-1 and Ty1 reverse transcriptase activities and on LINE-1 retrotransposition. BMC Biochem 2011; 12: 18.
29.
Dhanwani R, Takahashi M, Sharma S. Cytosolic sensing of immuno-stimulatory DNA, the enemy within. Curr Op Immunol 2018; 50: 82-87.
30.
Fowler BJ, Gelfand BD, Kim Y, et al. Nucleoside reverse transcriptase inhibitors possess intrinsic anti-inflammatory activity. Science 2014; 346: 1000-1003.
31.
Mehmood A, Ali W, Din ZU, et al. Clustered regularly interspaced short palindromic repeats as an advanced treatment for Parkinson’s disease. Brain Behav 2021; 11: e2280.
32.
Brouha B, Schustak J, Badge RM, et al. Hot L1s account for the bulk of retrotransposition in the human population. Proc Natl Acad Sci U S A 2003; 100: 5280-5285.
33.
Kazazian HH Jr. An estimated frequency of endogenous insertional mutations in humans. Nat Genet 1999;. 22: 130.
34.
Gasior SL, Wakeman TP, Xu B, et al. The human LINE-1 retrotransposon creates DNA double-strand breaks. J Mol Biol 2006; 357: 1383-1393.
35.
Scaffidi P, Misteli T. Lamin A-dependent nuclear defects in human aging. Science 2006; 312: 1059-1063.
36.
Gilbert N, Lutz-Prigge S, Moran JV. Genomic deletions created upon LINE-1 retrotransposition. Cell 2002; 110: 315-325.
37.
Symer DE, Connelly C, Szak ST, et al. Human l1 retrotransposition is associated with genetic instability in vivo. Cell 2002; 110: 327-338.
38.
Gilbert N, Lutz S, Morrish TA, Moran JV. Multiple fates of L1 retrotransposition intermediates in cultured human cells. Mol Cell Biol 2005; 25: 7780-7795.
39.
Lumpkin CK Jr, McGill JR, Riabowol KT, et al. Extrachromosomal circular DNA and aging cells. Adv Exp Med Biol 1985; 190: 479-4793.
40.
Herbig U, Ferreira M, Condel L, et al. Cellular senescence in aging primates. Science 2006; 311: 1257.
41.
Coppé JP, Desprez PY, Krtolica A, et al., The senescence-associated secretory phenotype: the dark side of tumor suppression. Annu Rev Pathol 2010; 5: 99-118.
42.
Mehmood A, Song S, Du X, et al. mRNA expression profile reveals differentially expressed genes in splenocytes of experimental autoimmune encephalomyelitis model. Int J Exp Pathol 2023; 104: 247-257.
43.
Chang J, Wang Y, Shao L, et al. Clearance of senescent cells by ABT263 rejuvenates aged hematopoietic stem cells in mice. Nat Med 2016; 22: 78-83.
44.
Zhu Y, Tchkonia T, Pirtskhalava T, et al. The Achilles’ heel of senescent cells: from transcriptome to senolytic drugs. Aging Cell 2015; 14: 644-658.
45.
Tchkonia T, Morbeck DE, von Zglinicki T, et al. Fat tissue, aging, and cellular senescence. Aging Cell 2010; 9: 667-684.
46.
Mattson MP. Perspective: does brown fat protect against diseases of aging? Ageing Res Rev 2010; 9: 69-76.
47.
Baker DJ, Wijshake T, Tchkonia T, et al. Clearance of p16Ink4a-positive senescent cells delays ageing-associated disorders. Nature 2011; 479: 232-236.
48.
Baker DJ, Childs BG, Durik M, et al. Naturally occurring p16(Ink4a)-positive cells shorten healthy lifespan. Nature 2016; 530: 184-189.
49.
Frasca D, Blomberg BB. Inflammaging decreases adaptive and innate immune responses in mice and humans. Biogerontology 2016; 17: 7-19.
50.
Lander ES, Linton LM, Birren B, et al. Initial sequencing and analysis of the human genome. Nature 2001; 409: 860-921.
51.
Chinwalla AT, Cook LL, Kimberly D. Delehaunty, et al. Initial sequencing and comparative analysis of the mouse genome. Nature 2002; 420: 520-562.
52.
Dewannieux M, Esnault C, Heidmann T. LINE-mediated retrotransposition of marked Alu sequences. Nat Genet 2003; 35: 41-48.
53.
Richardson SR, Doucet AJ, Kopera HC, Moldovan JB, Garcia-Perez JL, Moran JV. The influence of LINE-1 and SINE retrotransposons on mammalian genomes. Microbiol Spectr 2015; 3: Mdna3-0061-2014.
54.
Iskow RC, McCabe MT, Mills RE, et al. Natural mutagenesis of human genomes by endogenous retrotransposons. Cell 2010; 141: 1253-1261.
55.
Lee E, Iskow R, Yang L, et al. Landscape of somatic retrotransposition in human cancers. Science 2012; 337: 967-971.
56.
Reilly MT, Faulkner GJ, Dubnau J, et al. The role of transposable elements in health and diseases of the central nervous system. J Neurosci 2013; 33: 17577-17586.
57.
Levin HL, Moran JV. Dynamic interactions between transposable elements and their hosts. Nat Rev Genet 2011; 12: 615-627.
58.
Crichton JH, Dunican DS, Maclennan M, et al. Defending the genome from the enemy within: mechanisms of retrotransposon suppression in the mouse germline. Cell Mol Life Sci 2014; 71: 1581-1605.
59.
Laurent GS, Hammell N, McCaffrey TA. A LINE-1 component to human aging: do LINE elements exact a longevity cost for evolutionary advantage? Mech Ageing Dev 2010; 131: 299-305.
60.
Oberdoerffer P, Michan S, McVay M, et al. SIRT1 redistribution on chromatin promotes genomic stability but alters gene expression during aging. Cell 2008; 135: 907-918.
61.
Ablasser A, Hemmerling I, Schmid-Burgk JL, et al. TREX1 deficiency triggers cell-autonomous immunity in a cGAS-dependent manner. J Immunol 2014;192: 5993-5997.
62.
Shah S, Yu S, Zhang C, et al. Retrotransposon SINEs in age-related diseases: mechanisms and therapeutic implications. Ageing Res Rev 2024; 101: 102539.
63.
Dou Z, Ghosh K, Vizioli MG, et al. Cytoplasmic chromatin triggers inflammation in senescence and cancer. Nature 2017; 550: 402-406.
64.
West AP, Shadel GS. Mitochondrial DNA in innate immune responses and inflammatory pathology. Nat Rev Immunol 2017; 17: 363-375.
65.
Franceschi C, Campisi J. Chronic inflammation (inflammaging) and its potential contribution to age-associated diseases. J Gerontol A Biol Sci Med Sci 2014; 69: S4-9.
66.
López-Otín C, Blasco MA, Partridge L, et al. The hallmarks of aging. Cell 2013; 153: 1194-1217.