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Full-Text Articles in Biochemistry, Biophysics, and Structural Biology
Exploring Secondary Structure In Bacteriophage Programmed Frameshift Elements, Samuel Okabayashi, Sean Mcclory
Exploring Secondary Structure In Bacteriophage Programmed Frameshift Elements, Samuel Okabayashi, Sean Mcclory
HON499 projects
Bacteriophages are viruses that infect bacteria and reproduce using host bacterial components. Part of the bacteriophage reproduction is assembly of the tail complex, which requires two assembly chaperone (TAC) proteins. In many phages the TAC’s are produced from a single gene through a non-canonical process called programmed translational frameshifting (PTF). The SEA-PHAGES program has produced hundreds of TAC genes that are accessible through phagesdb, a database of sequenced and annotated phage genomes. The sequences for the TAC gene were gathered from phagesdb and analyzed using ClustalOmega; a multiple sequence alignment (MSA) tool which revealed several positions where total conservation was …
Repsa-Directed Identification Of Dna-Binding Specificity For Orphan Transcription Factors, Kamir Hiam
Repsa-Directed Identification Of Dna-Binding Specificity For Orphan Transcription Factors, Kamir Hiam
Symposium of Student Scholars
The function of many genes and the biological roles of their encoded products are still not well characterized. Given the sequence-specific DNA-binding properties of transcription factor proteins, it is possible to purify them, identify the responsible polypeptide(s), determine their consensus binding sequences, and identify their genomic binding sites. Thus, one can go from cellular extract to proposed biological regulatory roles in relatively short order. Our goal is to identify and characterize orphan DNA-binding proteins in the model organism E. coli K12 using the novel combinatorial technique, REPSA (Restriction Endonuclease Protection Selection Amplification), as well as further develop the REPSA to …
Analysis Of The Chondroitinase Operon Of Flavobacterium Columnare, Erin L. Sorlien
Analysis Of The Chondroitinase Operon Of Flavobacterium Columnare, Erin L. Sorlien
Senior Honors Projects
Analysis of the chondroitinase operon of Flavobacterium columnare
Erin Sorlien
Major
Cell and Molecular Biology, Chemistry
Advisor
Dr. David R. Nelson
Date
May 2, 2013
Keywords
Flavobacterium columnare, columnaris disease, chondroitin AC lyase, complementation, csl operon
Abstract
Flavobacterium columnare, an opportunistic bacterial pathogen of fish, is the causative agent of columnaris disease (CD). The bacterium is a Gram-negative rod that exhibits gliding motility and avidly forms biofilms. CD affects both wild and cultured freshwater fish, and continues to cause large economic losses to the fish farming industry. According to an investigation conducted by the National Animal Health Monitoring System, CD …