1st International and 10th National Iranian Conference on Bioinformatics
Home Accepted Papers
Investigating the differential expression of starch and transcription factor encoding genes and their relations in wheat cultivars with different bread quality at 5 days post anthesis
Paper ID : 1067-ICB10
Authors:
Zahra Sabili1, Shabnam Hasrak2, Tahmineh Lohrasebi *3, Sajad Rashidi Monfared4
1دانشجوی مشترک دانشگاه تربیت مدرس و پژوهشگاه ملی مهندسی ژنتیک و زیست فناوری تهران ایران
2پژوهشکده بیوتکنولوژی کشاورزی پژوهشگاه ملی مهندسی ژنتیک و زیست فناوری تهران-ایران
3پژوهشکده بیوتکنولوژی کشاورزی پژوهشگاه ملی مهندسی ژنتیک و زیست فناوری تهران ایران
4گروه بیوتکنولوژی کشاورزی دانشکده کشاورزی دانشگاه تربیت مدرس تهران ایران.
Abstract:
Wheat starch is one of the most important sources of carbohydrates, since every study about the regulating factors of starch metabolism can improve starch quantity and quality. The aim of this research is studying the relation between differential expressed starch and transcription factor (TF) genes at 5-days post anthesis in wheat cultivars with high (Pishtaz) and low (Navid) bread quality.
The transcriptome of cultivars compared by RNA-Seq. and based on wheat reference genome. The result showed “Alpha-glucosidase”, “Endoglucanases” and “1,4-alpha-glucan branching enzyme” genes that involved in starch metabolism had differential expression. In addition, “General transcription factor IIH subunit 5 (Tfb5)”, “GTE9” and “MADS box” TFs showed differential expression. The 1200 upstream nucleotide of starch gene employed for searching cis-regulating motifs in Place and PlantCare databases. The DNA binding motif of differential TF identified based on literature search. We found CArG box DNA binding site for MADS box [3], HD1 and HD2 for Tfb5 [4] and transcriptionally competent chromatin binding for GTE9 [5,6]. Alpha-glucosidase with lower and Endoglucanase with higher expressions in Pishtaz, have cis-acting elements motif for binding the Tfb5. This TF contributes in transcription re-initiation [7], early elongation steps [8] and DNA repair [9]. The reduced levels of Tfb5 and Alpha-glucosidase can guide us to assume a regulating role for this TF on Alpha-glucosidase gene. 1,4-alpha-glucan branching enzyme and Endoglucanase have lower and higher expression, respectively. We found a motif for binding the MADS box that actives in transcription activating [10], regulation of flower, leaf, and root development [11], growth negative regulators [12,13], positive regulators of stress tolerance [14]. The decrease in 1,4-alpha-glucan gene can be contributed to lower expression of MADS box.It seems that MADS box and Tfb5 negatively controls Endoglucanase expression, has not affinity for binding to its upstream or this gene is not their target genes.
Keywords:
Triticum aestivum, Bromodomain, cis-regulating, Alpha-glucosidase, Endoglucanase.
Status : Paper Accepted (Poster Presentation)