ArticleGenome biology and evolution2016
The Variable Regions of Lactobacillus rhamnosus Genomes Reveal the Dynamic Evolution of Metabolic and Host-Adaptation Repertoires.
Article in Genome biology and evolution, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 43 papers.
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Who cites it
43 citing papers in PubMed, 74 citations in OpenAlex.
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- Proteomic Analysis of the Differential Response ofAntibiotics (Basel, Switzerland) · 2025Article
- Comparative genomics of the Streptomyces genus: insights into multi-stress-resistant genes for bioremediation.World journal of microbiology & biotechnology · 2025Article
- Exploring the role of gut microbiota in antibiotic resistance and prevention.Annals of medicine · 2025Review
- Lacticaseibacillus rhamnosus: An Overview of the Viability in Fruit and Vegetable Juices and Their Potential Effects on Human Health.Probiotics and antimicrobial proteins · 2025Review
- Distal gut colonization by oral bacteria during intensive chemotherapy: direct evidence from strain-level analysis of paired samples.NPJ biofilms and microbiomes · 2025Article
- Genome Mining and Characterization of Two NovelBiomolecules · 2025Article
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- The Impact of Bioactive Molecules from Probiotics on Child Health: A Comprehensive Review.Nutrients · 2024Review
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- Distribution of Genes Related to Probiotic Effects Across Lacticaseibacillus rhamnosus Revealed by Population Structure.Probiotics and antimicrobial proteins · 2023Article
- Do nomadic lactobacilli fit as potential vaginal probiotics? The answer lies in a successful selective multi-step and scoring approach.Microbial cell factories · 2023Article
- [Research Progress in the Relationship BetweenSichuan da xue xue bao. Yi xue ban = Journal of Sichuan University. Medical science edition · 2022Review
- The production and biochemical characterization of α-carbonic anhydrase from Lactobacillus rhamnosus GG.Applied microbiology and biotechnology · 2022Article
- The taxonomic distribution of histamine-secreting bacteria in the human gut microbiome.BMC genomics · 2021Article
- Lactobacillus rhamnosus GG modifies the metabolome of pathobionts in gnotobiotic mice.BMC microbiology · 2021Article
- Acceptive Immunity: The Role of Fucosylated Glycans in Human Host-Microbiome Interactions.International journal of molecular sciences · 2021Review
- Generation of Lactose- and Protease-Positive ProbioticApplied and environmental microbiology · 2021Article
- Quantification and gene expression ofThe Saudi dental journal · 2021Article
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Authors and funding
10 authors at 5 institutions in 3 countries.
Funding
Abstract
Lactobacillus rhamnosus is a diverse Gram-positive species with strains isolated from different ecological niches. Here, we report the genome sequence analysis of 40 diverse strains of L. rhamnosus and their genomic comparison, with a focus on the variable genome. Genomic comparison of 40 L. rhamnosus strains discriminated the conserved genes (core genome) and regions of plasticity involving frequent rearrangements and horizontal transfer (variome). The L. rhamnosus core genome encompasses 2,164 genes, out of 4,711 genes in total (the pan-genome). The accessory genome is dominated by genes encoding carbohydrate transport and metabolism, extracellular polysaccharides (EPS) biosynthesis, bacteriocin production, pili production, the cas system, and the associated clustered regularly interspaced short palindromic repeat (CRISPR) loci, and more than 100 transporter functions and mobile genetic elements like phages, plasmid genes, and transposons. A clade distribution based on amino acid differences between core (shared) proteins matched with the clade distribution obtained from the presence-absence of variable genes. The phylogenetic and variome tree overlap indicated that frequent events of gene acquisition and loss dominated the evolutionary segregation of the strains within this species, which is paralleled by evolutionary diversification of core gene functions. The CRISPR-Cas system could have contributed to this evolutionary segregation. Lactobacillus rhamnosus strains contain the genetic and metabolic machinery with strain-specific gene functions required to adapt to a large range of environments. A remarkable congruency of the evolutionary relatedness of the strains' core and variome functions, possibly favoring interspecies genetic exchanges, underlines the importance of gene-acquisition and loss within the L. rhamnosus strain diversification.
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