Your browser doesn't support javascript.
loading
Delineation of condition specific Cis- and Trans-acting elements in plant promoters under various Endo- and exogenous stimuli.
Chow, Chi-Nga; Chiang-Hsieh, Yi-Fan; Chien, Chia-Hung; Zheng, Han-Qin; Lee, Tzong-Yi; Wu, Nai-Yun; Tseng, Kuan-Chieh; Hou, Ping-Fu; Chang, Wen-Chi.
Afiliación
  • Chow CN; College of Biosciences and Biotechnology, Institute of Tropical Plant Sciences, National Cheng Kung University, Tainan, 701, Taiwan.
  • Chiang-Hsieh YF; College of Biosciences and Biotechnology, Institute of Tropical Plant Sciences, National Cheng Kung University, Tainan, 701, Taiwan.
  • Chien CH; College of Biosciences and Biotechnology, Institute of Tropical Plant Sciences, National Cheng Kung University, Tainan, 701, Taiwan.
  • Zheng HQ; College of Biosciences and Biotechnology, Institute of Tropical Plant Sciences, National Cheng Kung University, Tainan, 701, Taiwan.
  • Lee TY; School of Science and Engineering, The Chinese University of Hong Kong, Shenzhen, China.
  • Wu NY; College of Biosciences and Biotechnology, Institute of Tropical Plant Sciences, National Cheng Kung University, Tainan, 701, Taiwan.
  • Tseng KC; College of Biosciences and Biotechnology, Institute of Tropical Plant Sciences, National Cheng Kung University, Tainan, 701, Taiwan.
  • Hou PF; College of Biosciences and Biotechnology, Institute of Tropical Plant Sciences, National Cheng Kung University, Tainan, 701, Taiwan.
  • Chang WC; College of Biosciences and Biotechnology, Institute of Tropical Plant Sciences, National Cheng Kung University, Tainan, 701, Taiwan. sarah321@mail.ncku.edu.tw.
BMC Genomics ; 19(Suppl 2): 85, 2018 May 09.
Article en En | MEDLINE | ID: mdl-29764390
BACKGROUND: Transcription factors (TFs) play essential roles during plant development and response to environmental stresses. However, the relationships among transcription factors, cis-acting elements and target gene expression under endo- and exogenous stimuli have not been systematically characterized. RESULTS: Here, we developed a series of bioinformatics analysis methods to infer transcriptional regulation by using numerous gene expression data from abiotic stresses and hormones treatments. After filtering the expression profiles of TF-encoding genes, 291 condition specific transcription factors (CsTFs) were obtained. Differentially expressed genes were then classified into various co-expressed gene groups based on each CsTFs. In the case studies of heat stress and ABA treatment, several known and novel cis-acting elements were identified following our bioinformatics approach. Significantly, a palindromic sequence of heat-responsive elements is recognized, and also obtained from a 3D protein structure of heat-shock protein-DNA complex. Notably, overrepresented 3- and 4-mer motifs in an enriched 8-mer motif could be a core cis-element for a CsTF. In addition, the results suggest DNA binding preferences of the same CsTFs are different according to various conditions. CONCLUSIONS: The overall results illustrate this study may be useful in identifying condition specific cis- and trans- regulatory elements and facilitate our understanding of the relationships among TFs, cis-acting elements and target gene expression.
Asunto(s)
Palabras clave
Texto completo
Añadir a Mi BVS
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Factores de Transcripción / Regiones Promotoras Genéticas / Arabidopsis / Biología Computacional Tipo de estudio: Prognostic_studies Idioma: En Revista: BMC Genomics Asunto de la revista: GENETICA Año: 2018 Tipo del documento: Article País de afiliación: Taiwán Pais de publicación: Reino Unido
Texto completo
Añadir a Mi BVS
Imprimir
XML
PubMed Links
Buscar en Google

Texto completo: 1 Colección: 01-internacional Base de datos: MEDLINE Asunto principal: Factores de Transcripción / Regiones Promotoras Genéticas / Arabidopsis / Biología Computacional Tipo de estudio: Prognostic_studies Idioma: En Revista: BMC Genomics Asunto de la revista: GENETICA Año: 2018 Tipo del documento: Article País de afiliación: Taiwán Pais de publicación: Reino Unido