Great job at the Penn State Undergrad Research Exhibition! We are so excited to watch your research grow Julia @juliacipp, Matt & Jordan!! Kudos to your lab mentors Nitika @NitikaBadjatia Chitvan @Chitvan29 and Kyle @kylini too! @PSUScience @BMB_PSU @huckinstitutes @ThePughLab pic.twitter.com/1dAnsQ8M1Z
— Dr. B. Franklin Pugh (@ThePughLab) April 19, 2019
Julia Cipparulo presented her research on Developing an alternative approach to RNA-Seq
Sequencing messenger RNA provides a readout of gene expression, which is misregulated in many diseases. However, standard RNA-Seq protocols have many steps that require trained hands to perform. We are attempting to develop a simplified approach to study gene expression that uses a provided probe library and an overnight hybridization step with isolated mRNA. By streamlining sample preparation, we hope this method will be an easier, cost-effective alternative to RNA-Seq.
Matthew Driban presented his research on THE EFFECT OF SUBUNIT DELETIONS ON SAGA COMPLEX BINDING IN SACHAROMYCES CEREVISIAE.
The SAGA complex is a multi-functional protein complex involved in transcriptional regulation and histone modification, particularly under stress. Notably the SAGA complex has been linked to development of certain neurodegenerative diseases and cancers. To better characterize SAGA’s ability to regulate gene expression under various stressors, I analyzed SAGA’s binding characteristics under two conditions: subunit knockouts and heat shock. These analyses resulted in a clearer picture of SAGA’s regulatory role under different conditions of stress.
Jordan presented his research on Intrinsic DNA Shape features drive preferential Fis binding at its motif.
Abstract: Fis, factor for inversion stimulation, is a nucleoid-associated protein in E. coli. Here we study the binding of this protein throughout the genome. The binding of Fis is determined in part by the sequence motif, but the shape of the DNA also correlates with its binding. High occupancy Fis sites have different shape features when compared to low occupancy Fis sites despite the similar motif sequence suggesting that shape helps determine Fis binding.