Identification of novel alternative splice variants of the BCL2L12 gene in human cancer cells using next-generation sequencing methodology

Cancer Letters
Panagiotis G AdamopoulosAndreas Scorilas

Abstract

The next-generation sequencing (NGS) technology has enabled genome-wide studies, providing massively parallel DNA sequencing. NGS applications constitute a revolution in molecular biology and genetics and have already paved new ways in cancer research. BCL2L12 is an apoptosis-related gene, previously cloned from members of our research group. Like most members of the BCL2 gene family, it is highly implicated in various types of cancer and hematological malignancies. In the present study, we used NGS to discover novel alternatively spliced variants of the apoptosis-related BCL2L12 gene in many human cancer cell lines, after 3'-RACE nested PCR. Extensive computational analysis uncovered new alternative splicing events and patterns, resulting in novel alternative transcripts of the BCL2L12 gene. PCR was then performed to validate NGS data and identify the derived novel transcripts of the BCL2L12 gene. Therefore, 50 novel BCL2L12 splice variants were discovered. Since BCL2L12 is involved in the apoptotic machinery, the quantification of distinct BCL2L12 transcripts in human samples may have clinical applications in different types of cancer.

References

Dec 1, 1988·Proceedings of the National Academy of Sciences of the United States of America·M A FrohmanG R Martin
Apr 15, 1993·Proceedings of the National Academy of Sciences of the United States of America·K M KozopasR W Craig
Dec 22, 1999·Journal of Molecular Biology·N BlomS Brunak
Oct 31, 2000·The Journal of Biological Chemistry·B GuoJ C Reed
Nov 14, 2000·The American Journal of Pathology·J C Reed
Mar 23, 2001·The Journal of Biological Chemistry·T KataokaJ Tschopp
Aug 2, 2002·Cancer Cell·Frank BartelLinda C Harris
Apr 18, 2003·Cell Death and Differentiation·L CoultasA Strasser
Mar 5, 2004·Biochimica Et Biophysica Acta·Andrew M PetrosStephen W Fesik
Mar 15, 2006·Critical Reviews in Clinical Laboratory Sciences·Hellinida Thomadaki, Andreas Scorilas
Jan 11, 2007·Genes & Development·Alexander H SteghLynda Chin
Nov 8, 2007·British Journal of Cancer·S StaibanoA Celetti
Dec 22, 2007·Nature Reviews. Molecular Cell Biology·Richard J Youle, Andreas Strasser
Jan 25, 2008·BMC Bioinformatics·Yang Zhang
Apr 17, 2008·Journal of Cancer Research and Clinical Oncology·Houyu ZhaoShixi Liu
Aug 2, 2008·Proceedings of the National Academy of Sciences of the United States of America·Alexander H SteghRonald A DePinho
Sep 6, 2008·Nature Protocols·Darren J Korbie, John S Mattick
Oct 22, 2008·Biochimica Et Biophysica Acta·Yi HongJianxing Gu
Oct 29, 2008·Oncogene·K W Yip, J C Reed
Feb 26, 2009·Cell·Thomas A CooperGideon Dreyfuss
Apr 22, 2009·Methods in Molecular Biology·Faina LinkovAnna Lokshin
Jun 11, 2009·Molecular Cancer Therapeutics·Nidhish SasiBo Lu
Jul 21, 2009·Proceedings of the National Academy of Sciences of the United States of America·Akira NakajimaTomohiko Tamura
Nov 12, 2009·Biochemical and Biophysical Research Communications·Dimitra FlorouAndreas Scorilas
May 19, 2010·Biomarkers in Medicine·Barbara L Parsons, Fanxue Meng
Sep 15, 2010·Genes & Development·Alexander H SteghRonald A Depinho
Jan 5, 2011·Cell Cycle·Alexander H Stegh, Ronald A DePinho
Mar 21, 2012·TheScientificWorldJournal·Fotini M KouriAlexander H Stegh
Apr 21, 2012·Briefings in Bioinformatics·Helga ThorvaldsdóttirJill P Mesirov
May 17, 2012·Methods in Molecular Biology·Douglas W BryantTodd C Mockler
Jul 4, 2012·Journal of Oral Pathology & Medicine : Official Publication of the International Association of Oral Pathologists and the American Academy of Oral Pathology·Panagiota-Aikaterini GeomelaAndreas Scorilas
Jul 16, 2013·Anti-cancer Agents in Medicinal Chemistry·Maria-Ioanna ChristodoulouAndreas Scorilas
Aug 13, 2013·The Prostate·Michael J AhrensDimitra Georganopoulou

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Citations

Sep 1, 2015·Cancer Genetics·Bérengère DadoneFlorence Pedeutour
Sep 30, 2016·Journal of Cellular Physiology·María Laura MatosMónica Hebe Vazquez-Levin
Jul 18, 2018·Clinical Chemistry and Laboratory Medicine : CCLM·Margaritis AvgerisAndreas Scorilas
Oct 17, 2018·Clinical Chemistry and Laboratory Medicine : CCLM·Athina Kladi-SkandaliAndreas Scorilas
Feb 14, 2019·Clinical Chemistry and Laboratory Medicine : CCLM·Georgia PapachristopoulouMaroulio Talieri
May 20, 2019·Cancer Biomarkers : Section a of Disease Markers·Aris I GiotakisEvangelos I Giotakis

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