Assessing the Safety and Probiotic Characteristics of <i>Lacticaseibacillus rhamnosus</i> X253 via Complete Genome and Phenotype Analysis
<i>Lacticaseibacillus rhamnosus</i> is a generalist that can adapt to different ecological niches, serving as a valuable source of probiotics. The genome of <i>L. rhamnosus</i> X253 contains one chromosome and no plasmids, with a size of 2.99 Mb. Both single-copy orthologous...
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MDPI AG
2023-01-01
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| Online Access: | https://www.mdpi.com/2076-2607/11/1/140 |
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| author | Lei Zhao Yinan Zhang Yang Liu Jiang Zhong Dong Zhang |
| author_facet | Lei Zhao Yinan Zhang Yang Liu Jiang Zhong Dong Zhang |
| author_sort | Lei Zhao |
| collection | DOAJ |
| description | <i>Lacticaseibacillus rhamnosus</i> is a generalist that can adapt to different ecological niches, serving as a valuable source of probiotics. The genome of <i>L. rhamnosus</i> X253 contains one chromosome and no plasmids, with a size of 2.99 Mb. Both single-copy orthologous gene-based phylogenetic analysis and average nucleotide identity indicated that dairy-derived <i>L. rhamnosus</i> X253 was most closely related to the human-intestine-derived strain <i>L. rhamnosus</i> LOCK908, rather than other dairy strains. The adaptation of <i>L. rhamnosus</i> X253 and the human-intestine-derived strain <i>L. rhamnosus</i> GG to different ecological niches was explained by structural variation analysis and COG annotation. Hemolytic assays, API ZYM assays, and antimicrobial susceptibility tests were performed to validate risk-related sequences such as virulence factors, toxin-encoding genes, and antibiotic-resistance genes in the genomes of <i>L. rhamnosus</i> X253 and GG. The results showed that <i>L. rhamnosus</i> GG was able to use L-fucose, had a higher tolerance to bile salt, and adhered better to CaCo-2 cells. In contrast, <i>L. rhamnosus</i> X253 was capable of utilizing D-lactose, withstood larger quantities of hydrogen peroxide, and possessed excellent antioxidant properties. This study confirmed the safety and probiotic properties of <i>L. rhamnosus</i> X253 via complete genome and phenotype analysis, suggesting its potential as a probiotic. |
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| institution | Directory Open Access Journal |
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| last_indexed | 2024-03-09T11:39:38Z |
| publishDate | 2023-01-01 |
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| spelling | doaj.art-d39a9f480e2447deb6e496a6f2ab84ea2023-11-30T23:37:00ZengMDPI AGMicroorganisms2076-26072023-01-0111114010.3390/microorganisms11010140Assessing the Safety and Probiotic Characteristics of <i>Lacticaseibacillus rhamnosus</i> X253 via Complete Genome and Phenotype AnalysisLei Zhao0Yinan Zhang1Yang Liu2Jiang Zhong3Dong Zhang4Key Laboratory of Milk and Dairy Products Detection and Monitoring Technology for State Market Regulation, Shanghai Institute of Quality Inspection and Technical Research, Shanghai 200233, ChinaKey Laboratory of Milk and Dairy Products Detection and Monitoring Technology for State Market Regulation, Shanghai Institute of Quality Inspection and Technical Research, Shanghai 200233, ChinaKey Laboratory of Milk and Dairy Products Detection and Monitoring Technology for State Market Regulation, Shanghai Institute of Quality Inspection and Technical Research, Shanghai 200233, ChinaState Key Laboratory of Genetic Engineering, Department of Microbiology and Immunology, School of Life Sciences, Fudan University, Shanghai 200438, ChinaJunlebao Dairy Group, Shijiazhuang 050221, China<i>Lacticaseibacillus rhamnosus</i> is a generalist that can adapt to different ecological niches, serving as a valuable source of probiotics. The genome of <i>L. rhamnosus</i> X253 contains one chromosome and no plasmids, with a size of 2.99 Mb. Both single-copy orthologous gene-based phylogenetic analysis and average nucleotide identity indicated that dairy-derived <i>L. rhamnosus</i> X253 was most closely related to the human-intestine-derived strain <i>L. rhamnosus</i> LOCK908, rather than other dairy strains. The adaptation of <i>L. rhamnosus</i> X253 and the human-intestine-derived strain <i>L. rhamnosus</i> GG to different ecological niches was explained by structural variation analysis and COG annotation. Hemolytic assays, API ZYM assays, and antimicrobial susceptibility tests were performed to validate risk-related sequences such as virulence factors, toxin-encoding genes, and antibiotic-resistance genes in the genomes of <i>L. rhamnosus</i> X253 and GG. The results showed that <i>L. rhamnosus</i> GG was able to use L-fucose, had a higher tolerance to bile salt, and adhered better to CaCo-2 cells. In contrast, <i>L. rhamnosus</i> X253 was capable of utilizing D-lactose, withstood larger quantities of hydrogen peroxide, and possessed excellent antioxidant properties. This study confirmed the safety and probiotic properties of <i>L. rhamnosus</i> X253 via complete genome and phenotype analysis, suggesting its potential as a probiotic.https://www.mdpi.com/2076-2607/11/1/140adaptation<i>Lacticaseibacillus rhamnosus</i>genomephenotype analysissafety and probiotic characteristics |
| spellingShingle | Lei Zhao Yinan Zhang Yang Liu Jiang Zhong Dong Zhang Assessing the Safety and Probiotic Characteristics of <i>Lacticaseibacillus rhamnosus</i> X253 via Complete Genome and Phenotype Analysis Microorganisms adaptation <i>Lacticaseibacillus rhamnosus</i> genome phenotype analysis safety and probiotic characteristics |
| title | Assessing the Safety and Probiotic Characteristics of <i>Lacticaseibacillus rhamnosus</i> X253 via Complete Genome and Phenotype Analysis |
| title_full | Assessing the Safety and Probiotic Characteristics of <i>Lacticaseibacillus rhamnosus</i> X253 via Complete Genome and Phenotype Analysis |
| title_fullStr | Assessing the Safety and Probiotic Characteristics of <i>Lacticaseibacillus rhamnosus</i> X253 via Complete Genome and Phenotype Analysis |
| title_full_unstemmed | Assessing the Safety and Probiotic Characteristics of <i>Lacticaseibacillus rhamnosus</i> X253 via Complete Genome and Phenotype Analysis |
| title_short | Assessing the Safety and Probiotic Characteristics of <i>Lacticaseibacillus rhamnosus</i> X253 via Complete Genome and Phenotype Analysis |
| title_sort | assessing the safety and probiotic characteristics of i lacticaseibacillus rhamnosus i x253 via complete genome and phenotype analysis |
| topic | adaptation <i>Lacticaseibacillus rhamnosus</i> genome phenotype analysis safety and probiotic characteristics |
| url | https://www.mdpi.com/2076-2607/11/1/140 |
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