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(Referência obtida automaticamente do Web of Science, por meio da informação sobre o financiamento pela FAPESP e o número do processo correspondente, incluída na publicação pelos autores.)

Identifying transcription start sites and active enhancer elements using BruUV-seq

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Autor(es):
Magnuson, Brian [1, 2] ; Veloso, Artur [3, 1, 2, 4] ; Kirkconnell, Killeen S. [1, 2, 5] ; de Andrade Lima, Leonardo Carmo [6, 1, 2] ; Paulsen, Michelle T. [1, 2] ; Ljungman, Emily A. [1, 2] ; Bedi, Karan [1, 2] ; Prasad, Jayendra [1, 2] ; Wilson, Thomas E. [7, 5] ; Ljungman, Mats [8, 1, 2]
Número total de Autores: 10
Afiliação do(s) autor(es):
[1] Univ Michigan, Dept Radiat Oncol, Ctr Comprehens Canc, Ann Arbor, MI 48109 - USA
[2] Univ Michigan, Sch Med, Translat Oncol Program, Ann Arbor, MI - USA
[3] Univ Michigan, Dept Computat Med & Bioinformat, Ann Arbor, MI 48109 - USA
[4] Univ Michigan, Bioinformat Program, Ann Arbor, MI 48109 - USA
[5] Univ Michigan, Sch Med, Dept Human Genet, Ann Arbor, MI - USA
[6] Univ Sao Paulo, Dept Microbiol, Inst Biomed Sci, BR-05508 Sao Paulo - Brazil
[7] Univ Michigan, Sch Med, Dept Pathol, Ann Arbor, MI - USA
[8] Univ Michigan, Sch Publ Hlth, Dept Environm Hlth Sci, Ann Arbor, MI 48109 - USA
Número total de Afiliações: 8
Tipo de documento: Artigo Científico
Fonte: SCIENTIFIC REPORTS; v. 5, DEC 11 2015.
Citações Web of Science: 8
Resumo

BruUV-seq utilizes UV light to introduce transcription-blocking DNA lesions randomly in the genome prior to bromouridine-labeling and deep sequencing of nascent RNA. By inhibiting transcription elongation, but not initiation, pre-treatment with UV light leads to a redistribution of transcription reads resulting in the enhancement of nascent RNA signal towards the 5'-end of genes promoting the identification of transcription start sites (TSSs). Furthermore, transcripts associated with arrested RNA polymerases are protected from 3'-5' degradation and thus, unstable transcripts such as putative enhancer RNA (eRNA) are dramatically increased. Validation of BruUV-seq against GRO-cap that identifies capped run-on transcripts showed that most BruUV-seq peaks overlapped with GRO-cap signal over both TSSs and enhancer elements. Finally, BruUV-seq identified putative enhancer elements induced by tumor necrosis factor (TNF) treatment concomitant with expression of nearby TNF-induced genes. Taken together, BruUV-seq is a powerful new approach for identifying TSSs and active enhancer elements genome-wide in intact cells. (AU)

Processo FAPESP: 09/50036-6 - Interação entre vias de reparo de DNA e sinalização em resposta a danos através de silenciamento gênico
Beneficiário:Leonardo Carmo de Andrade Lima
Linha de fomento: Bolsas no Brasil - Doutorado Direto