ArticleThe ISME journal2022
Toward quantifying the adaptive role of bacterial pangenomes during environmental perturbations.
Article in The ISME journal, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 31 papers, 1 of them a synthesis that pooled it.
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Who cites it
31 citing papers in PubMed, 1 synthesis or guideline pooled it.
- Potential routes of plastics biotransformation involving novel plastizymes revealed by global multi-omic analysis of plastic associated microbes.Scientific reports · 2024Pooled it
- How the social lives of bacteria affect their pangenome.Essays in biochemistry · 2026Review
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- RefiningMicrobial genomics · 2026Article
- Epistasis and co-adaptation in bacterial genome evolution.Nature reviews. Genetics · 2026Review
- A high-recovery, high-density targeted genotyping platform for cranberry.The plant genome · 2026Article
- Metagenome-based vertical profiling of the Gulf of Mexico highlights its uniqueness and far-reaching effects of freshwater input.Applied and environmental microbiology · 2026Article
- Host plant selects bacterial rhizosphere microbiome function whereas community structure is determined by soil legacy.ISME communications · 2026Article
- Metagenomics reveal unrestricted dispersal of extreme halophiles and higher connectivity among coastal vs. inland solar salterns and hypersaline lakes.ISME communications · 2026Article
- An ANIr-based methodology to determine if two sequence-discrete populations are identical and identify cosmopolitan prokaryotic populations.ISME communications · 2026Article
- Tea-Residue-DerivedBiomolecules · 2025Article
- Domain-specific osmoadaptation revealed by metatranscriptomic analysis in hypersaline environments.Scientific reports · 2025Article
- Comparative metagenomics indicates metabolic niche differentiation of benthic and planktonic Woeseiaceae.Environmental microbiome · 2025Article
- Article
- Aerospace Mutagenized Tea Tree Increases Rhizospheric Microorganisms, Enhances Nutrient Conversion Capacity and Promotes Growth.Plants (Basel, Switzerland) · 2025Article
- Global dominance of Haloquadratum walsbyi by a single genomovar with distinct gene content and viral cohorts from close relatives.The ISME journal · 2025Article
- Habitat-specificity in SAR11 is associated with a few genes under high selection.The ISME journal · 2025Article
- Essential nucleic acid omics: a theoretical foundation for early-stage users.Frontiers in bioinformatics · 2025Review
- PanBGC: a pangenome-inspired framework for comparative analysis of biosynthetic gene clusters.ISME communications · 2025Article
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7 authors.
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Abstract
Metagenomic surveys have revealed that natural microbial communities are predominantly composed of sequence-discrete, species-like populations but the genetic and/or ecological processes that maintain such populations remain speculative, limiting our understanding of population speciation and adaptation to perturbations. To address this knowledge gap, we sequenced 112 Salinibacter ruber isolates and 12 companion metagenomes from four adjacent saltern ponds in Mallorca, Spain that were experimentally manipulated to dramatically alter salinity and light intensity, the two major drivers of this ecosystem. Our analyses showed that the pangenome of the local Sal. ruber population is open and similar in size (~15,000 genes) to that of randomly sampled Escherichia coli genomes. While most of the accessory (noncore) genes were isolate-specific and showed low in situ abundances based on the metagenomes compared to the core genes, indicating that they were functionally unimportant and/or transient, 3.5% of them became abundant when salinity (but not light) conditions changed and encoded for functions related to osmoregulation. Nonetheless, the ecological advantage of these genes, while significant, was apparently not strong enough to purge diversity within the population. Collectively, our results provide an explanation for how this immense intrapopulation gene diversity is maintained, which has implications for the prokaryotic species concept.
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