ArticleNature microbiology2025
Two decades of bacterial ecology and evolution in a freshwater lake.
Article in Nature microbiology, 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 28 papers.
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
28 citing papers in PubMed.
- Article
- Genomic catalogue of giant viruses reveals expanded diversity and functional potential.Nature microbiology · 2026Article
- Citywide metagenomics reveals microbial community and resistome dynamics in urban wastewater.Nature communications · 2026Article
- Exploring local and regional drivers of microbial biodiversity across freshwater ponds.FEMS microbiology ecology · 2026Article
- Vicennial metagenomic time series unveils evolutionary dynamics of giant viruses in a freshwater ecosystem.Nature communications · 2026Article
- Environmental effects on constructed wetland microbial diversity and function in the context of wastewater management.Microbiology spectrum · 2026Article
- Metagenomic insight into the diversity and biogeochemical functions of microbial communities in the maar tropical Lake Atexcac.Microbiology (Reading, England) · 2026Article
- Hydrologic History Regulates Microbial Biofilm Diversity and Ecosystem Function.Environmental microbiology · 2026Article
- Activity-Informed Network Analysis Reveals Keystone Microbes Shaping Freshwater Ecosystem Function.Environmental microbiology reports · 2026Article
- A Concept Using α-Niche Evolution Within Bacterial Communities to Direct β-Niche Evolution of Focal Species.Environmental microbiology · 2026Article
- Seasonality drives temporal niche partitioning of pelagic prokaryotes.The ISME journal · 2026Article
- Article
- Glyphosate-based herbicide exposure triggers genetic adaptation but not diversity collapse within bacterioplankton species.ISME communications · 2026Article
- A genomic view of Earth's biomes.Nature reviews. Genetics · 2026Review
- Community coalescence reveals strong selection and coexistence within species in complex microbial communities.bioRxiv : the preprint server for biology · 2025Article
- Opsins are Phospholipid Scramblases in All Domains of Life.bioRxiv : the preprint server for biology · 2025Article
- Widely-distributed freshwater microorganisms with streamlined genomes co-occur in cohorts with high abundance.Scientific reports · 2025Article
- Seasonal Differences in Effects of Microbial Communities on Duckweed Traits.Ecology and evolution · 2025Article
- An organotrophicApplied and environmental microbiology · 2025Article
- Ecological diversification in rapidly evolving populations.bioRxiv : the preprint server for biology · 2025Article
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Authors and funding
6 authors.
Funding
Abstract
Ecology and evolution are considered distinct processes that interact on contemporary time scales in microbiomes. Here, to observe these processes in a natural system, we collected a two-decade, 471-metagenome time series from Lake Mendota (Wisconsin, USA). We assembled 2,855 species-representative genomes and found that genomic change was common and frequent. By tracking strain composition via single nucleotide variants, we identified cyclical seasonal patterns in 80% and decadal shifts in 20% of species. In the dominant freshwater family Nanopelagicaceae, environmental extremes coincided with shifts in strain composition and positive selection of amino acid and nucleic acid metabolism genes. These genes identify organic nitrogen compounds as potential drivers of freshwater responses to global change. Seasonal and long-term strain dynamics could be regarded as ecological processes or, equivalently, as evolutionary change. Rather than as distinct interacting processes, we propose a conceptualization of ecology and evolution as a continuum to better describe change in microbial communities.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.