title: Identification and characterization of novel genotoxic stress-inducible nuclear long noncoding RNAs in mammalian cells.
abstract: Whole transcriptome analyses have revealed a large number of novel transcripts including long and short noncoding RNAs (ncRNAs). Currently, there is great interest in characterizing the functions of the different classes of ncRNAs and their relevance to cellular processes. In particular, nuclear long ncRNAs may be involved in controlling various aspects of biological regulation, such as stress responses. By a combination of bioinformatic and experimental approaches, we identified 25 novel nuclear long ncRNAs from 6,088,565 full-length human cDNA sequences. Some nuclear long ncRNAs were conserved among vertebrates, whereas others were found only among primates. Expression profiling of the nuclear long ncRNAs in human tissues revealed that most were expressed ubiquitously. A subset of the identified nuclear long ncRNAs was induced by the genotoxic agents mitomycin C or doxorubicin, in HeLa Tet-off cells. There were no commonly altered nuclear long ncRNAs between mitomycin C- and doxorubicin-treated cells. These results suggest that distinct sets of nuclear long ncRNAs play roles in cellular defense mechanisms against specific genotoxic agents, and that particular long ncRNAs have the potential to be surrogate indicators of a specific cell stress.
authors.affiliation: Radioisotope Center, The University of Tokyo, Tokyo, Japan.
authors.forename: Rena
authors.initials: R
authors.lastname: Mizutani
authors.forename: Ai
authors.initials: A
authors.lastname: Wakamatsu
authors.forename: Noriyuki
authors.initials: N
authors.lastname: Tanaka
authors.forename: Hiroshi
authors.initials: H
authors.lastname: Yoshida
authors.forename: Naobumi
authors.initials: N
authors.lastname: Tochigi
authors.forename: Yoshio
authors.initials: Y
authors.lastname: Suzuki
authors.forename: Tadahiro
authors.initials: T
authors.lastname: Oonishi
authors.forename: Hidenori
authors.initials: H
authors.lastname: Tani
authors.forename: Keiko
authors.initials: K
authors.lastname: Tano
authors.forename: Kenichi
authors.initials: K
authors.lastname: Ijiri
authors.forename: Takao
authors.initials: T
authors.lastname: Isogai
authors.forename: Nobuyoshi
authors.initials: N
authors.lastname: Akimitsu
mesh_terms: D000818:Animals; D002458:Cell Fractionation; D002460:Cell Line; D002467:Cell Nucleus / Q000235:genetics; D004249:DNA Damage; D006367:HeLa Cells; D006801:Humans; D051379:Mice; D022661:RNA, Untranslated / Q000235:genetics* / Q000302:isolation & purification*
chemical_list: D022661:RNA, Untranslated