Long non-coding RNAs as surrogate indicators for chemical stress responses in human-induced pluripotent stem cells

PLoS ONE

Volumn 9, Issue 8, 2014, Pages

  Tani, Hidenori ^a   Onuma, Yasuko ^a   Ito, Yuzuru ^a   Torimura, Masaki ^a  

^a NATIONAL INSTITUTE OF ADVANCED INDUSTRIAL SCIENCE AND TECHNOLOGY AIST   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

ARSENIC; CADMIUM; CYCLOHEXIMIDE; HYDROGEN PEROXIDE; LONG UNTRANSLATED RNA; LONG UNTRANSLATED RNA CDKN2B AS1; LONG UNTRANSLATED RNA FLJ33630; LONG UNTRANSLATED RNA GABPB1 AS1; LONG UNTRANSLATED RNA LINC00152; LONG UNTRANSLATED RNA LINC0541471; LONG UNTRANSLATED RNA MIR22HG; MESSENGER RNA; UNCLASSIFIED DRUG; PROTEIN P53; TP53 PROTEIN, HUMAN;

ADULT; ARTICLE; BIOACCUMULATION; CELL DIFFERENTIATION; CELL RENEWAL; CELL STRESS; CHEMICAL STRESS; CONTROLLED STUDY; FEMALE; GENE EXPRESSION; GENE EXPRESSION REGULATION; GENETIC SCREENING; HUMAN; HUMAN CELL; HUMAN INDUCED PLURIPOTENT STEM CELL; MOLECULAR DYNAMICS; PLURIPOTENT STEM CELL; REAL TIME POLYMERASE CHAIN REACTION; REVERSE TRANSCRIPTION POLYMERASE CHAIN REACTION; RNA ANALYSIS; UPREGULATION; BIOSYNTHESIS; CELL LINE; CYTOLOGY; DRUG EFFECTS; INDUCED PLURIPOTENT STEM CELL; METABOLISM; PHYSIOLOGICAL STRESS;

CELL LINE; GENE EXPRESSION REGULATION; HUMANS; INDUCED PLURIPOTENT STEM CELLS; RNA, LONG NONCODING; RNA, MESSENGER; STRESS, PHYSIOLOGICAL; TUMOR SUPPRESSOR PROTEIN P53;

EID: 84939812960     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0106282     Document Type: Article

References (27)

1. Kültz D (2005) Molecular and evolutionary basis of the cellular stress response. Annu Rev Physiol 67: 225-257.
2. Ponting CP, POliver PL, W Reik (2009) Evolution and functions of long noncoding RNAs. Cell 136: 629-641.
3. Wilusz JE, Sunwoo H, Spector DL (2009) Long noncoding RNAs: functional surprises from the RNA world. Genes Dev 23: 1494-1504.
4. Bergmann JH, Spector DL (2014) Long non-coding RNAs: modulators of nuclear structure and function. Curr Opin Cell Biol 26C: 10-18.
5. Guttman M, Amit I, Garber M, French C, Lin MF, et al. (2009) Chromatin signature reveals over a thousand highly conserved large non-coding RNAs in mammals. Nature 458: 223-227.
6. Mercer TR, Dinger ME, Mattick JS (2009) Long non-coding RNAs: insights into functions. Nat Rev Genet 10: 155-159.
7. Wang KC, Chang HY (2011) Molecular mechanisms of long noncoding RNAs. Mol Cell 43: 904-914.
8. Huarte M, Guttman M, Feldser D, Garber M, Koziol MJ, et al. (2010) A large intergenic noncoding RNA induced by p53 mediates global gene repression in the p53 response. Cell 142: 409-419.
9. Hung T, Wang Y, Lin MF, Koegel AK, Kotake Y, et al. (2011) Extensive and coordinated transcription of noncoding RNAs within cell-cycle promoters. Nat Genet 43: 621-629.
10. Mizutani R, Wakamatsu A, Tanaka N, Yoshida H, Tochigi N, et al. (2012) Identification and characterization of novel genotoxic stress-inducible nuclear long noncoding RNAs in mammalian cells. PLoS One 7: e34949.
11. Kino T, Hurt DE, Ichijo T, Nader N, Chrousos GP (2010) Noncoding RNA gas5 is a growth arrest- and starvation-associated repressor of the glucocorticoid receptor. Sci Signal 3: ra8.
12. Tani H, Torimura M, Akimitsu N (2013) The RNA degradation pathway regulates the function of GAS5 a non-coding RNA in mammalian cells. PLoS One 8: e55684.
13. Anson BD, Kolaja KL, Kamp TJ (2011) Opportunities for use of human iPS cells in predictive toxicology. Clin Pharmacol Ther 89: 754-758.
14. Takahashi K, Tanabe K, Ohnuki M, Narita M, Ichisaka Y, et al. (2007) Induction of pluripotent stem cells from adult human fibroblasts by defined factors. Cell 131: 861-872. (Pubitemid 350138099)
15. Yu J, Vodyanik MA, Smuga-Otto K, Antosiewicz-Bourget J, Frane JL, et al. (2007) Thomson, Induced pluripotent stem cell lines derived from human somatic cells. Science 318: 1917-1920.
16. Park IH, Zhao R, West JA, Yabuuchi A, Huo H, et al. (2008) Reprogramming of human somatic cells to pluripotency with defined factors. Nature 451: 141-146.
17. Lowry WE, Richter L, Yachechko R, Pyle AD, Tchieu J, et al. (2008) Generation of human induced pluripotent stem cells from dermal fibroblasts. Proc Natl Acad Sci USA 105: 2883-2888. (Pubitemid 351723638)
18. Kuroda T, Yasuda S, Kusakawa S, Hirata N, Kanda Y, et al. (2012) Highly sensitive in vitro methods for detection of residual undifferentiated cells in retinal pigment epithelial cells derived from human iPS cells. PLoS One 7: e37342.
19. Tani H, Mizutani R, Salam KA, Tano K, Ijiri H, et al. (2012) Genome-wide determination of RNA stability reveals hundreds of short-lived non-coding transcripts in mammals. Genome Res 22: 947-956.
20. Tani H, Torimura M (2013) Identification of short-lived long non-coding RNAs as surrogate indicators for chemical stress response. Biochem Biophys Res Commun 439: 547-551.
21. Pang Q, Ge J, Shao Y, Sun W, Song H, et al. (2014) Increased expression of long intergenic non-coding RNA LINC00152 in gastric cancer and its clinical significance. Tumour Biol 35: 5441-5447.
22. Anson BD, Kolaja KL, Kamp TJ (2011) Opportunities for use of human iPS cells in predictive toxicology. Clin Pharmacol Ther 89: 754-758.
23. Lakhotia SC (2012) Long non-coding RNAs coordinate cellular responses to stress. Wiley Interdiscip. Rev RNA 3: 779-796.
24. Amaral PP, Dinger ME, Mattick JS (2013) Non-coding RNAs in homeostasis, disease and stress responses: an evolutionary perspective. Brief. Funct. Genomics 12: 254-278.
25. Hirose T, Virnicchi G, Tanigawa A, Naganuma T, Li T, et al. (2014) NEAT1 long noncoding RNA regulates transcription via protein sequestration within subnuclear bodies. Mol Biol Cell 25: 169-183.
26. Imamura K, Imamachi N, Akizuki G, Kumakura M, Kawaguchi A, et al. (2014) Long Noncoding RNA NEAT1-Dependent SFPQ Relocation from Promoter Region to Paraspeckle Mediates IL8 Expression upon Immune Stimuli. Mol Cell 53: 393-406.
27. Rotblat B, Leprivier G, Sorensen PH (2011) A possible role for long non-coding RNA in modulating signaling pathways. Med Hypotheses 77: 962-965.