A Bioinformatic Analysis of Globin-Coupled Sensor Signalling in Pectobacterium Carotovorum
- Jordache, Lydia
- [University Park, Pennsylvania] : Pennsylvania State University, 2021.
- Physical Description:
- 1 electronic document
- Additional Creators:
- Weinert, Emily E. and Schreyer Honors College
- Restrictions on Access:
- Open Access.
- Pectobacterium carotovorum is a bacterial plant pathogen which induces soft rot in several agriculturally and economically important plants, particularly potatoes. Among the most notable causes of soft rot is the ability of P. carotovorum to produce biofilm, a complex polymeric substance which serves to adhere and protect bacteria and accelerate disease progression. Motility is often controlled by the same mechanisms as biofilm formation. Related to biofilm production and motility are diguanylate cyclases (DGCs), which produce the bacterial second messenger molecule cyclic di-GMP (c-di-GMP). In P. carotovorum subsp. carotovorum, an oxygen-sensing protein known as globin-coupled sensors (GCSs) contains a DGC domain, resulting in c-di-GMP production that varies in response to extracellular oxygen levels. Previous research indicates that c-di-GMP plays a major role in biofilm regulation and motility. To understand both the genetic and mechanistic relationship between GCSs and the motility phenotype, a bioinformatic assessment of Pectobacteria genomes and protein structures was performed. As a part of this assessment, the genome neighborhoods of Pectobacteria containing genes of PccGCS homologues located near motility genes were isolated. The protein products of these genes were analyzed and compared to the sequences of homologues with no inherent relationship to Pectobacteria or proximity to GCS or motility genes. By this comparison, specific amino acid mutations were identified in cases where GCS and motility genes were located near each other. Computer-generated docking simulations were performed to determine their influence in potential protein-protein binding. In total, this bioinformatic approach has served as a model for predicting protein interactions via genome neighborhood and conserved residue analyses.
- Dissertation Note:
- B.S. Pennsylvania State University 2021.
- Technical Details:
- The full text of the dissertation is available as an Adobe Acrobat .pdf file ; Adobe Acrobat Reader required to view the file.
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