Elsevier

Genomics

Volume 95, Issue 6, June 2010, Pages 355-362
Genomics

Identification of Long stress-induced non-coding transcripts that have altered expression in cancer

https://doi.org/10.1016/j.ygeno.2010.02.009Get rights and content
Under an Elsevier user license
open archive

Abstract

It has recently become clear that the transcriptional output of the human genome is far more abundant than previously anticipated, with the vast majority of transcripts not coding for protein. Utilizing whole-genome tiling arrays, we analyzed the transcription across the entire genome in both normal human bronchial epithelial cells (NHBE) and NHBE cells exposed to the tobacco carcinogen NNK. Our efforts focused on the characterization of non-coding transcripts that were greater than 300 nucleotides in length and whose expression was increased in response to NNK. We identified 12 Long Stress-Induced Non-coding Transcripts that we term LSINCTs. Northern blot analysis revealed that these transcripts were larger than predicted from the tiling array data. Quantitative real-time RT-PCR performed across a panel of normal cell lines indicates that these transcripts are more abundantly expressed in rapidly growing tissues or in tissues that are more prone to cellular stress. These transcripts that have increased expression after exposure to NNK also had increased expression in a number of lung cancer cell lines and also in many breast cancer cell lines. Collectively, our results identified a new class of long stress responsive non-coding transcripts, LSINCTs, which have increased expression in response to DNA damage induced by NNK. LSINCTs interestingly also have increased expression in a number of cancer-derived cell lines, indicating that the expression is increased in both, correlating cellular stress and cancer.

Keywords

Long non-coding transcripts
Non-coding RNA
NNK(4-(methylnitrosamino)-1-(3-pyridyl)-1-butanone)
Lung cancer
Breast cancer
Stress induction
Tiling arrays
Entire genome analysis

Cited by (0)

"Sequence data from this article have been deposited with the DDBJ/EMBL/GenBank Data Libraries under Accession Numbers: GU228573, GU228574, GU228575, GU228576, GU228577, GU228578, GU228579, GU228580, GU228581, GU228582, GU228583, GU228584, for LSINCT1 to LSINCT12 respectively."