RNA-Seq differential analysis of Variovorax Paradoxus on different phases: stationary, biofilm and log phase
Poster Number
19C
Research or Creativity Area
Engineering & Computer Science
Abstract
Gram-negative, beta proteobacterium Variovorax paradoxus is commonly linked to biodegradative processes in nature. Because of its varied metabolic capacities, which include the biodegradation of both biogenic chemicals and anthropogenic pollutants, it is a microorganism of interest. In this project, we want to see the gene expression of the bacteria in each phase including stationary phase, biofilm and log phase. The project will use datasets from National Center for Biotechnology Information (NCBI), SRA PRJNA594416, datasets code range is from SRR10613920 to 10613928, with Kallisto library for running index transcriptome and Sleuth library to run the gene expression. In the future, researchers may see it useful to clarify the kinetics of gene expression and metabolic fluxes in Variovorax paradoxus, create mathematical models and simulations or optimize biodegradation processes for environmental cleanup and anticipate cellular responses to environmental perturbations via systems biology techniques.
Purpose
The purpose of the project is research for the gene expression of the bacteria Variovorax Paradoxus. On the other hands, we can see how the software works in bioinformatics and contribute to the National Center for Biotechnology Information (NCBI)
Results
The result will be updated
Location
Don and Karen DeRosa University Center (DUC) Poster Hall
Start Date
27-4-2024 10:30 AM
End Date
27-4-2024 12:30 PM
RNA-Seq differential analysis of Variovorax Paradoxus on different phases: stationary, biofilm and log phase
Don and Karen DeRosa University Center (DUC) Poster Hall
Gram-negative, beta proteobacterium Variovorax paradoxus is commonly linked to biodegradative processes in nature. Because of its varied metabolic capacities, which include the biodegradation of both biogenic chemicals and anthropogenic pollutants, it is a microorganism of interest. In this project, we want to see the gene expression of the bacteria in each phase including stationary phase, biofilm and log phase. The project will use datasets from National Center for Biotechnology Information (NCBI), SRA PRJNA594416, datasets code range is from SRR10613920 to 10613928, with Kallisto library for running index transcriptome and Sleuth library to run the gene expression. In the future, researchers may see it useful to clarify the kinetics of gene expression and metabolic fluxes in Variovorax paradoxus, create mathematical models and simulations or optimize biodegradation processes for environmental cleanup and anticipate cellular responses to environmental perturbations via systems biology techniques.
