Cargando…

A Comparative Transcriptomic Analysis of Uveal Melanoma and Normal Uveal Melanocyte

BACKGROUND: Uveal melanoma is the most common primary intraocular tumor in adults in western countries. It is associated with very severe visual morbidity and may lead to distant metastases even after successful treatment of the primary tumor. In order to gain better insight into molecular mechanism...

Descripción completa

Detalles Bibliográficos
Autores principales: An, Jianhong, Wan, Haolei, Zhou, Xiangtian, Hu, Dan-Ning, Wang, Ledan, Hao, Lili, Yan, Dongsheng, Shi, Fanjun, Zhou, Zhonglou, Wang, Jiao, Hu, Songnian, Yu, Jun, Qu, Jia
Formato: Texto
Lenguaje:English
Publicado: Public Library of Science 2011
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3030591/
https://www.ncbi.nlm.nih.gov/pubmed/21305041
http://dx.doi.org/10.1371/journal.pone.0016516
_version_ 1782197281812905984
author An, Jianhong
Wan, Haolei
Zhou, Xiangtian
Hu, Dan-Ning
Wang, Ledan
Hao, Lili
Yan, Dongsheng
Shi, Fanjun
Zhou, Zhonglou
Wang, Jiao
Hu, Songnian
Yu, Jun
Qu, Jia
author_facet An, Jianhong
Wan, Haolei
Zhou, Xiangtian
Hu, Dan-Ning
Wang, Ledan
Hao, Lili
Yan, Dongsheng
Shi, Fanjun
Zhou, Zhonglou
Wang, Jiao
Hu, Songnian
Yu, Jun
Qu, Jia
author_sort An, Jianhong
collection PubMed
description BACKGROUND: Uveal melanoma is the most common primary intraocular tumor in adults in western countries. It is associated with very severe visual morbidity and may lead to distant metastases even after successful treatment of the primary tumor. In order to gain better insight into molecular mechanisms related to tumorigenesis and metastasis of uveal melanoma, we used next-generation sequencing technology (SOLiD, Life Technologies) to acquire global transcriptome alteration between posterior uveal melanoma cells and normal uveal melanocyte. RESULTS: From mRNAs of the cultured uveal melanoma cells and normal uveal melanocytes, we annotated more than 3.7×10(7) and 2.7×10(7) sequencing tags based on human Ensembl databases, respectively. For detailed analysis, we chose 5155 well-annotated genes mainly involved in the MAPK signaling pathway, cell cycle, cell adhesion junction, apoptosis, and P53 signaling pathways as well as melanogenesis. In an effort to confirm the authenticity of our sequencing results, we validated twenty-one identically differentially expressed genes by using quantitative real time PCR from cultured cell lines of other posterior uveal melanoma cells and normal uveal melanocytes. CONCLUSION: We have identified a large number of potentially interesting genes for biological investigation of uveal melanoma. The expression profiling also provides useful resources for other functional genomic and transcriptome studies. These 21 potential genes could discriminate between uveal melanoma cells and normal uveal melanocyte, which may be indicative of tumorigenesis process. Our results further suggest that high-throughput sequencing technology provides a powerful tool to study mechanisms of tumogenesis in the molecular level.
format Text
id pubmed-3030591
institution National Center for Biotechnology Information
language English
publishDate 2011
publisher Public Library of Science
record_format MEDLINE/PubMed
spelling pubmed-30305912011-02-08 A Comparative Transcriptomic Analysis of Uveal Melanoma and Normal Uveal Melanocyte An, Jianhong Wan, Haolei Zhou, Xiangtian Hu, Dan-Ning Wang, Ledan Hao, Lili Yan, Dongsheng Shi, Fanjun Zhou, Zhonglou Wang, Jiao Hu, Songnian Yu, Jun Qu, Jia PLoS One Research Article BACKGROUND: Uveal melanoma is the most common primary intraocular tumor in adults in western countries. It is associated with very severe visual morbidity and may lead to distant metastases even after successful treatment of the primary tumor. In order to gain better insight into molecular mechanisms related to tumorigenesis and metastasis of uveal melanoma, we used next-generation sequencing technology (SOLiD, Life Technologies) to acquire global transcriptome alteration between posterior uveal melanoma cells and normal uveal melanocyte. RESULTS: From mRNAs of the cultured uveal melanoma cells and normal uveal melanocytes, we annotated more than 3.7×10(7) and 2.7×10(7) sequencing tags based on human Ensembl databases, respectively. For detailed analysis, we chose 5155 well-annotated genes mainly involved in the MAPK signaling pathway, cell cycle, cell adhesion junction, apoptosis, and P53 signaling pathways as well as melanogenesis. In an effort to confirm the authenticity of our sequencing results, we validated twenty-one identically differentially expressed genes by using quantitative real time PCR from cultured cell lines of other posterior uveal melanoma cells and normal uveal melanocytes. CONCLUSION: We have identified a large number of potentially interesting genes for biological investigation of uveal melanoma. The expression profiling also provides useful resources for other functional genomic and transcriptome studies. These 21 potential genes could discriminate between uveal melanoma cells and normal uveal melanocyte, which may be indicative of tumorigenesis process. Our results further suggest that high-throughput sequencing technology provides a powerful tool to study mechanisms of tumogenesis in the molecular level. Public Library of Science 2011-01-28 /pmc/articles/PMC3030591/ /pubmed/21305041 http://dx.doi.org/10.1371/journal.pone.0016516 Text en An et al. http://creativecommons.org/licenses/by/4.0/ This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.
spellingShingle Research Article
An, Jianhong
Wan, Haolei
Zhou, Xiangtian
Hu, Dan-Ning
Wang, Ledan
Hao, Lili
Yan, Dongsheng
Shi, Fanjun
Zhou, Zhonglou
Wang, Jiao
Hu, Songnian
Yu, Jun
Qu, Jia
A Comparative Transcriptomic Analysis of Uveal Melanoma and Normal Uveal Melanocyte
title A Comparative Transcriptomic Analysis of Uveal Melanoma and Normal Uveal Melanocyte
title_full A Comparative Transcriptomic Analysis of Uveal Melanoma and Normal Uveal Melanocyte
title_fullStr A Comparative Transcriptomic Analysis of Uveal Melanoma and Normal Uveal Melanocyte
title_full_unstemmed A Comparative Transcriptomic Analysis of Uveal Melanoma and Normal Uveal Melanocyte
title_short A Comparative Transcriptomic Analysis of Uveal Melanoma and Normal Uveal Melanocyte
title_sort comparative transcriptomic analysis of uveal melanoma and normal uveal melanocyte
topic Research Article
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3030591/
https://www.ncbi.nlm.nih.gov/pubmed/21305041
http://dx.doi.org/10.1371/journal.pone.0016516
work_keys_str_mv AT anjianhong acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT wanhaolei acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT zhouxiangtian acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT hudanning acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT wangledan acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT haolili acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT yandongsheng acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT shifanjun acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT zhouzhonglou acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT wangjiao acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT husongnian acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT yujun acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT qujia acomparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT anjianhong comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT wanhaolei comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT zhouxiangtian comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT hudanning comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT wangledan comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT haolili comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT yandongsheng comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT shifanjun comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT zhouzhonglou comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT wangjiao comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT husongnian comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT yujun comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte
AT qujia comparativetranscriptomicanalysisofuvealmelanomaandnormaluvealmelanocyte