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09:44
Characterization of a Pathogenic Escherichia coli Strain Derived from Oreochromis spp. Farms Using Whole-Genome Sequencing
Published on: December 23, 2022
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GenoBase: comprehensive resource database of Escherichia coli K-12.
Yuta Otsuka1, Ai Muto1, Rikiya Takeuchi1
1Graduate School of Biological Sciences, Nara Institute of Science and Technology, Ikoma, Nara 630-0101, Japan.
Nucleic Acids Research
|November 17, 2014
Summary
Researchers have updated experimental resources for Escherichia coli K-12 functional genomics. GenoBase now includes updated genomic information, quality control, and omics data for enhanced cell process studies.
Area of Science:
- Microbiology
- Genomics
- Systems Biology
Background:
- Comprehensive experimental resources like ORFeome clone libraries and deletion mutant collections are crucial for understanding gene function.
- Omics data analysis using these resources aids in functional analysis, modeling, and simulation of cellular processes.
- Escherichia coli K-12 is a model organism extensively studied using these functional genomics tools.
Purpose of the Study:
- To describe GenoBase, a database containing updated experimental resources for Escherichia coli K-12 functional genomics.
- To provide access to comprehensive clone and mutant sets, quality control information, and omics data.
- To support ongoing research in understanding the complete biology of E. coli K-12.
Main Methods:
- Creation and curation of ORFeome clone libraries and deletion mutant collections for Escherichia coli K-12.
- Updating genomic resources based on revised annotations since 2005.
- Integration of quality control data and omics datasets.
- Development of the GenoBase web platform (http://ecoli.naist.jp/GB/) for resource accessibility.
Main Results:
- GenoBase provides updated and quality-controlled experimental resources for Escherichia coli K-12.
- The database includes a decade's worth of curated clone and mutant sets.
- Multiple omics datasets generated using these resources are available.
- These resources have been widely adopted and utilized in numerous research investigations.
Conclusions:
- GenoBase serves as a vital hub for Escherichia coli K-12 functional genomics research.
- The updated resources and data facilitate a deeper understanding of cellular processes.
- Continued maintenance and expansion of these resources are essential for advancing systems biology.
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