ArticleGenome biology and evolution2013
Replicon-dependent bacterial genome evolution: the case of Sinorhizobium meliloti.
Article in Genome biology and evolution, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 53 papers.
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53 citing papers in PubMed, 116 citations in OpenAlex.
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- Genomic and Phenotypic Bases of Salt Tolerance in Sinorhizobium meliloti: Candidate Traits for Bioinoculant Development Addressing Saline Soils.Microbial biotechnology · 2026Article
- Biogeographic and Genomic Signatures of Thermal Adaptation in Facultative Symbionts.Microbial ecology · 2025Article
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- A minimized symbiotic gene set from the 1.68 Mb pSymB chromid of Sinorhizobium meliloti reveals auxiliary symbiotic loci.BMC biology · 2025Article
- Mutational features of chromids and chromosomes inMicrobiology spectrum · 2025Article
- The Complex Epigenetic Panorama in the Multipartite Genome of the Nitrogen-Fixing Bacterium Sinorhizobium meliloti.Genome biology and evolution · 2025Article
- Transcriptomic Response ofInternational journal of molecular sciences · 2024Article
- Hot Spots of Site-Specific Integration into theInternational journal of molecular sciences · 2024Article
- Impacts of Natural Selection on Evolution of Core and Symbiotically Specialized (International journal of molecular sciences · 2023Article
- Bipartite Genomes inInternational journal of molecular sciences · 2023Article
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- Beyond the ABCs-Discovery of Three New Plasmid Types inMicroorganisms · 2022Article
- Scent of a Symbiont: The Personalized Genetic Relationships of Rhizobium-Plant Interaction.International journal of molecular sciences · 2022Review
- Natural Chromosome-Chromid Fusion across rRNA Operons in aMicrobiology spectrum · 2022Article
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- Nonadditive Transcriptomic Signatures of Genotype-by-Genotype Interactions during the Initiation of Plant-Rhizobium Symbiosis.mSystems · 2021Article
- Characterization of ori and parS-like functions in secondary genome replicons inLife science alliance · 2021Article
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Authors and funding
5 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Many bacterial species, such as the alphaproteobacterium Sinorhizobium meliloti, are characterized by open pangenomes and contain multipartite genomes consisting of a chromosome and other large-sized replicons, such as chromids, megaplasmids, and plasmids. The evolutionary forces in both functional and structural aspects that shape the pangenome of species with multipartite genomes are still poorly understood. Therefore, we sequenced the genomes of 10 new S. meliloti strains, analyzed with four publicly available additional genomic sequences. Results indicated that the three main replicons present in these strains (a chromosome, a chromid, and a megaplasmid) partly show replicon-specific behaviors related to strain differentiation. In particular, the pSymB chromid was shown to be a hot spot for positively selected genes, and, unexpectedly, genes resident in the pSymB chromid were also found to be more widespread in distant taxa than those located in the other replicons. Moreover, through the exploitation of a DNA proximity network, a series of conserved "DNA backbones" were found to shape the evolution of the genome structure, with the rest of the genome experiencing rearrangements. The presented data allow depicting a scenario where the pSymB chromid has a distinctive role in intraspecies differentiation and in evolution through positive selection, whereas the pSymA megaplasmid mostly contributes to structural fluidity and to the emergence of new functions, indicating a specific evolutionary role for each replicon in the pangenome evolution.
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