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Pan-genome analysis of Bacillus for microbiome profiling
Yihwan Kim1, InSong Koh1,2, Mi Young Lim3
1Department of Biomedical Informatics, Hanyang University, Seoul, Korea.
Scientific Reports
|September 10, 2017
Summary
This study identifies core genes in Bacillus species, enabling precise identification within food microbiomes. These core genes can be reconstructed from microbiome data without culturing, offering a powerful tool for food microbiome analysis.
Area of Science:
- Microbiology
- Genomics
- Bioinformatics
Background:
- High-throughput sequencing enables microbial community studies.
- Species-specific core genes are conserved despite strain variations.
Purpose of the Study:
- Identify core and strain-specific genes in Bacillus species.
- Develop a method for identifying Bacillus species in food microbiomes using core genes.
- Analyze the pan-genome of Bacillus species in food microbiomes.
Main Methods:
- Comprehensive analysis of 238 Bacillus strains from five species.
- Identification of core and strain-specific genes.
- Pan-genome analysis of core gene data.
- Reconstruction of core genes from microbiome data.
Main Results:
- Significant functional and genomic differences between core and strain-specific genes.
- Precise identification of Bacillus species in food microbiomes using core genes.
- High reconstruction rates (98.22% for B. amyloliquefaciens, 97.77% for B. subtilis) of core genes from microbiome data without culturing.
- Comprehensive genetic landscape of Bacillus species.
Conclusions:
- Core gene analysis is a powerful tool for profiling food microbiomes.
- Core genes can be effectively utilized for microbial identification directly from environmental samples.
- Findings align with previous studies and enhance understanding of fermented food microbial communities.
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