Identification of the cellular targets of the transcription factor TCERG1 reveals a prevalent role in mrna processing

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The transcription factor TCERG1 (also known as CA150) associates with RNA polymerase II holoenzyme and alters the elongation efficiency of reporter transcripts. TCERG1 is also found as a component of highly purified spliceosomes and has been implicated in splicing. To elucidate the function of TCERG...

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Autores principales:	Pearson, J.L., Robinson, T.J., Muñoz, M.J., Kornblihtt, A.R., Garcia-Blanco, M.A.
Formato:	JOUR
Materias:	Binding energy Binding sites Biochemistry Gene expression Nucleic acids Polymers Proteins RNA Targets Transcription factors Analysis of datums Cellular targets Computational approaches Gene expression analysis Hela cells High confidences Microarray datums Pcr analysis Reverse transcriptions Rna polymerase ii Short interfering rnas Spliceosomes Transcriptional regulations Untranslated regions Transcription messenger RNA microRNA small interfering RNA transcription factor transcription factor tcerg1 unclassified drug TCERG1 protein, human transactivator protein 3' untranslated region article binding site cell strain HEK293 controlled study embryo female gene expression HeLa cell human human cell knockout gene microarray analysis nucleotide sequence priority journal protein function reverse transcription polymerase chain reaction RNA processing target cell transcription regulation unindexed sequence cell line DNA microarray drug antagonism gene expression profiling genetic transcription genetics metabolism physiology RNA splicing spliceosome Cell Line Gene Expression Profiling Humans MicroRNAs Oligonucleotide Array Sequence Analysis Reverse Transcriptase Polymerase Chain Reaction RNA Splicing RNA, Messenger RNA, Small Interfering Trans-Activators Transcription, Genetic
Acceso en línea:	http://hdl.handle.net/20.500.12110/paper_00219258_v283_n12_p7949_Pearson
Aporte de:	Biblioteca Digital - Facultad de Ciencias Exactas y Naturales (UBA) de Universidad de Buenos Aires

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spelling	todo:paper_00219258_v283_n12_p7949_Pearson2023-10-03T14:23:12Z Identification of the cellular targets of the transcription factor TCERG1 reveals a prevalent role in mrna processing Pearson, J.L. Robinson, T.J. Muñoz, M.J. Kornblihtt, A.R. Garcia-Blanco, M.A. Binding energy Binding sites Biochemistry Gene expression Nucleic acids Polymers Proteins RNA Targets Transcription factors Analysis of datums Cellular targets Computational approaches Gene expression analysis Hela cells High confidences Microarray datums Pcr analysis Reverse transcriptions Rna polymerase ii Short interfering rnas Spliceosomes Transcriptional regulations Untranslated regions Transcription messenger RNA microRNA small interfering RNA transcription factor transcription factor tcerg1 unclassified drug messenger RNA microRNA TCERG1 protein, human transactivator protein 3' untranslated region article binding site cell strain HEK293 controlled study embryo female gene expression HeLa cell human human cell knockout gene microarray analysis nucleotide sequence priority journal protein function reverse transcription polymerase chain reaction RNA processing target cell transcription regulation unindexed sequence cell line DNA microarray drug antagonism gene expression profiling genetic transcription genetics metabolism physiology RNA splicing spliceosome Cell Line Gene Expression Profiling Humans MicroRNAs Oligonucleotide Array Sequence Analysis Reverse Transcriptase Polymerase Chain Reaction RNA Splicing RNA, Messenger RNA, Small Interfering Spliceosomes Trans-Activators Transcription, Genetic The transcription factor TCERG1 (also known as CA150) associates with RNA polymerase II holoenzyme and alters the elongation efficiency of reporter transcripts. TCERG1 is also found as a component of highly purified spliceosomes and has been implicated in splicing. To elucidate the function of TCERG1, we used short interfering RNA-mediated knockdown followed by en masse gene expression analysis to identify its cellular targets. Analysis of data from HEK293 and HeLa cells identified high confidence targets of TCERG1. We found that targets of TCERG1 were enriched in microRNA-binding sites, suggesting the possibility of post-transcriptional regulation. Consistently, reverse transcription-PCR analysis revealed that many of the changes observed upon TCERG1 knockdown were because of differences in alternative mRNA processing of the 3′-untranslated regions. Furthermore, a novel computational approach, which can identify alternatively processed events from conventional microarray data, showed that TCERG1 led to widespread alterations in mRNA processing. These findings provide the strongest support to date for a role of TCERG1 in mRNA processing and are consistent with proposals that TCERG1 couples transcription and processing. © 2008 by The American Society for Biochemistry and Molecular Biology, Inc. Fil:Muñoz, M.J. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. Fil:Kornblihtt, A.R. Universidad de Buenos Aires. Facultad de Ciencias Exactas y Naturales; Argentina. JOUR info:eu-repo/semantics/openAccess http://creativecommons.org/licenses/by/2.5/ar http://hdl.handle.net/20.500.12110/paper_00219258_v283_n12_p7949_Pearson
institution	Universidad de Buenos Aires
institution_str	I-28
repository_str	R-134
collection	Biblioteca Digital - Facultad de Ciencias Exactas y Naturales (UBA)
topic	Binding energy Binding sites Biochemistry Gene expression Nucleic acids Polymers Proteins RNA Targets Transcription factors Analysis of datums Cellular targets Computational approaches Gene expression analysis Hela cells High confidences Microarray datums Pcr analysis Reverse transcriptions Rna polymerase ii Short interfering rnas Spliceosomes Transcriptional regulations Untranslated regions Transcription messenger RNA microRNA small interfering RNA transcription factor transcription factor tcerg1 unclassified drug messenger RNA microRNA TCERG1 protein, human transactivator protein 3' untranslated region article binding site cell strain HEK293 controlled study embryo female gene expression HeLa cell human human cell knockout gene microarray analysis nucleotide sequence priority journal protein function reverse transcription polymerase chain reaction RNA processing target cell transcription regulation unindexed sequence cell line DNA microarray drug antagonism gene expression profiling genetic transcription genetics metabolism physiology RNA splicing spliceosome Cell Line Gene Expression Profiling Humans MicroRNAs Oligonucleotide Array Sequence Analysis Reverse Transcriptase Polymerase Chain Reaction RNA Splicing RNA, Messenger RNA, Small Interfering Spliceosomes Trans-Activators Transcription, Genetic
spellingShingle	Binding energy Binding sites Biochemistry Gene expression Nucleic acids Polymers Proteins RNA Targets Transcription factors Analysis of datums Cellular targets Computational approaches Gene expression analysis Hela cells High confidences Microarray datums Pcr analysis Reverse transcriptions Rna polymerase ii Short interfering rnas Spliceosomes Transcriptional regulations Untranslated regions Transcription messenger RNA microRNA small interfering RNA transcription factor transcription factor tcerg1 unclassified drug messenger RNA microRNA TCERG1 protein, human transactivator protein 3' untranslated region article binding site cell strain HEK293 controlled study embryo female gene expression HeLa cell human human cell knockout gene microarray analysis nucleotide sequence priority journal protein function reverse transcription polymerase chain reaction RNA processing target cell transcription regulation unindexed sequence cell line DNA microarray drug antagonism gene expression profiling genetic transcription genetics metabolism physiology RNA splicing spliceosome Cell Line Gene Expression Profiling Humans MicroRNAs Oligonucleotide Array Sequence Analysis Reverse Transcriptase Polymerase Chain Reaction RNA Splicing RNA, Messenger RNA, Small Interfering Spliceosomes Trans-Activators Transcription, Genetic Pearson, J.L. Robinson, T.J. Muñoz, M.J. Kornblihtt, A.R. Garcia-Blanco, M.A. Identification of the cellular targets of the transcription factor TCERG1 reveals a prevalent role in mrna processing
topic_facet	Binding energy Binding sites Biochemistry Gene expression Nucleic acids Polymers Proteins RNA Targets Transcription factors Analysis of datums Cellular targets Computational approaches Gene expression analysis Hela cells High confidences Microarray datums Pcr analysis Reverse transcriptions Rna polymerase ii Short interfering rnas Spliceosomes Transcriptional regulations Untranslated regions Transcription messenger RNA microRNA small interfering RNA transcription factor transcription factor tcerg1 unclassified drug messenger RNA microRNA TCERG1 protein, human transactivator protein 3' untranslated region article binding site cell strain HEK293 controlled study embryo female gene expression HeLa cell human human cell knockout gene microarray analysis nucleotide sequence priority journal protein function reverse transcription polymerase chain reaction RNA processing target cell transcription regulation unindexed sequence cell line DNA microarray drug antagonism gene expression profiling genetic transcription genetics metabolism physiology RNA splicing spliceosome Cell Line Gene Expression Profiling Humans MicroRNAs Oligonucleotide Array Sequence Analysis Reverse Transcriptase Polymerase Chain Reaction RNA Splicing RNA, Messenger RNA, Small Interfering Spliceosomes Trans-Activators Transcription, Genetic
description	The transcription factor TCERG1 (also known as CA150) associates with RNA polymerase II holoenzyme and alters the elongation efficiency of reporter transcripts. TCERG1 is also found as a component of highly purified spliceosomes and has been implicated in splicing. To elucidate the function of TCERG1, we used short interfering RNA-mediated knockdown followed by en masse gene expression analysis to identify its cellular targets. Analysis of data from HEK293 and HeLa cells identified high confidence targets of TCERG1. We found that targets of TCERG1 were enriched in microRNA-binding sites, suggesting the possibility of post-transcriptional regulation. Consistently, reverse transcription-PCR analysis revealed that many of the changes observed upon TCERG1 knockdown were because of differences in alternative mRNA processing of the 3′-untranslated regions. Furthermore, a novel computational approach, which can identify alternatively processed events from conventional microarray data, showed that TCERG1 led to widespread alterations in mRNA processing. These findings provide the strongest support to date for a role of TCERG1 in mRNA processing and are consistent with proposals that TCERG1 couples transcription and processing. © 2008 by The American Society for Biochemistry and Molecular Biology, Inc.
format	JOUR
author	Pearson, J.L. Robinson, T.J. Muñoz, M.J. Kornblihtt, A.R. Garcia-Blanco, M.A.
author_facet	Pearson, J.L. Robinson, T.J. Muñoz, M.J. Kornblihtt, A.R. Garcia-Blanco, M.A.
author_sort	Pearson, J.L.
title	Identification of the cellular targets of the transcription factor TCERG1 reveals a prevalent role in mrna processing
title_short	Identification of the cellular targets of the transcription factor TCERG1 reveals a prevalent role in mrna processing
title_full	Identification of the cellular targets of the transcription factor TCERG1 reveals a prevalent role in mrna processing
title_fullStr	Identification of the cellular targets of the transcription factor TCERG1 reveals a prevalent role in mrna processing
title_full_unstemmed	Identification of the cellular targets of the transcription factor TCERG1 reveals a prevalent role in mrna processing
title_sort	identification of the cellular targets of the transcription factor tcerg1 reveals a prevalent role in mrna processing
url	http://hdl.handle.net/20.500.12110/paper_00219258_v283_n12_p7949_Pearson
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Identification of the cellular targets of the transcription factor TCERG1 reveals a prevalent role in mrna processing

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