An intergenic non-coding rRNA correlated with expression of the rRNA and frequency of an rRNA single nucleotide polymorphism in lung cancer cells.
<h4>Background</h4>Ribosomal RNA (rRNA) is a central regulator of cell growth and may control cancer development. A cis noncoding rRNA (nc-rRNA) upstream from the 45S rRNA transcription start site has recently been implicated in control of rRNA transcription in mouse fibroblasts. We inve...
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Public Library of Science (PLoS)
2009-10-01
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| Series: | PLoS ONE |
| Online Access: | https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0007505&type=printable |
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| author | Yih-Horng Shiao Sorin T Lupascu Yuhan D Gu Wojciech Kasprzak Christopher J Hwang Janet R Fields Robert M Leighty Octavio Quiñones Bruce A Shapiro W Gregory Alvord Lucy M Anderson |
| author_facet | Yih-Horng Shiao Sorin T Lupascu Yuhan D Gu Wojciech Kasprzak Christopher J Hwang Janet R Fields Robert M Leighty Octavio Quiñones Bruce A Shapiro W Gregory Alvord Lucy M Anderson |
| author_sort | Yih-Horng Shiao |
| collection | DOAJ |
| description | <h4>Background</h4>Ribosomal RNA (rRNA) is a central regulator of cell growth and may control cancer development. A cis noncoding rRNA (nc-rRNA) upstream from the 45S rRNA transcription start site has recently been implicated in control of rRNA transcription in mouse fibroblasts. We investigated whether a similar nc-rRNA might be expressed in human cancer epithelial cells, and related to any genomic characteristics.<h4>Methodology/principal findings</h4>Using quantitative rRNA measurement, we demonstrated that a nc-rRNA is transcribed in human lung epithelial and lung cancer cells, starting from approximately -1000 nucleotides upstream of the rRNA transcription start site (+1) and extending at least to +203. This nc-rRNA was significantly more abundant in the majority of lung cancer cell lines, relative to a nontransformed lung epithelial cell line. Its abundance correlated negatively with total 45S rRNA in 12 of 13 cell lines (P = 0.014). During sequence analysis from -388 to +306, we observed diverse, frequent intercopy single nucleotide polymorphisms (SNPs) in rRNA, with a frequency greater than predicted by chance at 12 sites. A SNP at +139 (U/C) in the 5' leader sequence varied among the cell lines and correlated negatively with level of the nc-rRNA (P = 0.014). Modelling of the secondary structure of the rRNA 5'-leader sequence indicated a small increase in structural stability due to the +139 U/C SNP and a minor shift in local configuration occurrences.<h4>Conclusions/significance</h4>The results demonstrate occurrence of a sense nc-rRNA in human lung epithelial and cancer cells, and imply a role in regulation of the rRNA gene, which may be affected by a +139 SNP in the 5' leader sequence of the primary rRNA transcript. |
| format | Article |
| id | doaj-art-8f2e7461c53b47b7b36b8ffa0babccbc |
| institution | OA Journals |
| issn | 1932-6203 |
| language | English |
| publishDate | 2009-10-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj-art-8f2e7461c53b47b7b36b8ffa0babccbc2025-08-20T02:01:56ZengPublic Library of Science (PLoS)PLoS ONE1932-62032009-10-01410e750510.1371/journal.pone.0007505An intergenic non-coding rRNA correlated with expression of the rRNA and frequency of an rRNA single nucleotide polymorphism in lung cancer cells.Yih-Horng ShiaoSorin T LupascuYuhan D GuWojciech KasprzakChristopher J HwangJanet R FieldsRobert M LeightyOctavio QuiñonesBruce A ShapiroW Gregory AlvordLucy M Anderson<h4>Background</h4>Ribosomal RNA (rRNA) is a central regulator of cell growth and may control cancer development. A cis noncoding rRNA (nc-rRNA) upstream from the 45S rRNA transcription start site has recently been implicated in control of rRNA transcription in mouse fibroblasts. We investigated whether a similar nc-rRNA might be expressed in human cancer epithelial cells, and related to any genomic characteristics.<h4>Methodology/principal findings</h4>Using quantitative rRNA measurement, we demonstrated that a nc-rRNA is transcribed in human lung epithelial and lung cancer cells, starting from approximately -1000 nucleotides upstream of the rRNA transcription start site (+1) and extending at least to +203. This nc-rRNA was significantly more abundant in the majority of lung cancer cell lines, relative to a nontransformed lung epithelial cell line. Its abundance correlated negatively with total 45S rRNA in 12 of 13 cell lines (P = 0.014). During sequence analysis from -388 to +306, we observed diverse, frequent intercopy single nucleotide polymorphisms (SNPs) in rRNA, with a frequency greater than predicted by chance at 12 sites. A SNP at +139 (U/C) in the 5' leader sequence varied among the cell lines and correlated negatively with level of the nc-rRNA (P = 0.014). Modelling of the secondary structure of the rRNA 5'-leader sequence indicated a small increase in structural stability due to the +139 U/C SNP and a minor shift in local configuration occurrences.<h4>Conclusions/significance</h4>The results demonstrate occurrence of a sense nc-rRNA in human lung epithelial and cancer cells, and imply a role in regulation of the rRNA gene, which may be affected by a +139 SNP in the 5' leader sequence of the primary rRNA transcript.https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0007505&type=printable |
| spellingShingle | Yih-Horng Shiao Sorin T Lupascu Yuhan D Gu Wojciech Kasprzak Christopher J Hwang Janet R Fields Robert M Leighty Octavio Quiñones Bruce A Shapiro W Gregory Alvord Lucy M Anderson An intergenic non-coding rRNA correlated with expression of the rRNA and frequency of an rRNA single nucleotide polymorphism in lung cancer cells. PLoS ONE |
| title | An intergenic non-coding rRNA correlated with expression of the rRNA and frequency of an rRNA single nucleotide polymorphism in lung cancer cells. |
| title_full | An intergenic non-coding rRNA correlated with expression of the rRNA and frequency of an rRNA single nucleotide polymorphism in lung cancer cells. |
| title_fullStr | An intergenic non-coding rRNA correlated with expression of the rRNA and frequency of an rRNA single nucleotide polymorphism in lung cancer cells. |
| title_full_unstemmed | An intergenic non-coding rRNA correlated with expression of the rRNA and frequency of an rRNA single nucleotide polymorphism in lung cancer cells. |
| title_short | An intergenic non-coding rRNA correlated with expression of the rRNA and frequency of an rRNA single nucleotide polymorphism in lung cancer cells. |
| title_sort | intergenic non coding rrna correlated with expression of the rrna and frequency of an rrna single nucleotide polymorphism in lung cancer cells |
| url | https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0007505&type=printable |
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