ArticleThe ISME journal2020
Insights into the dynamics between viruses and their hosts in a hot spring microbial mat.
Article in The ISME journal, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 40 papers.
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Who cites it
40 citing papers in PubMed, 78 citations in OpenAlex.
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- Hawaiian Geothermal Fumaroles Contain Diverse and Novel Viruses.bioRxiv : the preprint server for biology · 2026Article
- Untapped Microbial Diversity, Assemblages, and Interactions in Rwandan Geothermal Spring Mats, Africa.Current microbiology · 2026Article
- Viromics approaches for the study of viral diversity and ecology in microbiomes.Nature reviews. Genetics · 2026Review
- A genomic view of Earth's biomes.Nature reviews. Genetics · 2026Review
- Fungi dominate eukaryotic microbial assemblages in hot spring biofilms of East and Southeast Asia.Environmental microbiome · 2025Article
- Coexistence of virome-encoded health-associated genes and pathogenic genes in global habitats.Applied and environmental microbiology · 2025Article
- Single-particle genomics uncovers abundant non-canonical marine viruses from nanolitre volumes.Nature microbiology · 2025Article
- Mining Thermophile Photosynthesis Genes: A Synthetic Operon ExpressingBiomolecules · 2025Article
- Mining thermophile photosynthesis genes: a synthetic operon expressingbioRxiv : the preprint server for biology · 2025Article
- Ecological features of microbial community linked to stochastic and deterministic assembly processes in acid mine drainage.Applied and environmental microbiology · 2025Article
- Novel viruses of Haloquadratum walsbyi expand the known archaeal virosphere of hypersaline environments.The ISME journal · 2025Article
- CleanBar: a versatile demultiplexing tool for split-and-pool barcoding in single-cell omics.ISME communications · 2025Article
- Microbial function in food fermentations: Current research and future directions.Current research in microbial sciences · 2025Article
- Contrasting defense strategies of oligotrophs and copiotrophs revealed by single-cell-resolved virus-host pairing of freshwater bacteria.ISME communications · 2025Article
- Hydrodynamic flow and benthic boundary layer interactions shape the microbial community in Milos shallow water hydrothermal vents.Frontiers in microbiology · 2025Article
- Review
- Distributions, interactions, and dynamics of prokaryotes and phages in a hybrid biological wastewater treatment system.Microbiome · 2024Article
- scMicrobe PTA: Near Complete Genomes from Single Bacterial Cells.bioRxiv : the preprint server for biology · 2024Article
Corrections and comments
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Authors and funding
17 authors at 8 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Our current knowledge of host-virus interactions in biofilms is limited to computational predictions based on laboratory experiments with a small number of cultured bacteria. However, natural biofilms are diverse and chiefly composed of uncultured bacteria and archaea with no viral infection patterns and lifestyle predictions described to date. Herein, we predict the first DNA sequence-based host-virus interactions in a natural biofilm. Using single-cell genomics and metagenomics applied to a hot spring mat of the Cone Pool in Mono County, California, we provide insights into virus-host range, lifestyle and distribution across different mat layers. Thirty-four out of 130 single cells contained at least one viral contig (26%), which, together with the metagenome-assembled genomes, resulted in detection of 59 viruses linked to 34 host species. Analysis of single-cell amplification kinetics revealed a lack of active viral replication on the single-cell level. These findings were further supported by mapping metagenomic reads from different mat layers to the obtained host-virus pairs, which indicated a low copy number of viral genomes compared to their hosts. Lastly, the metagenomic data revealed high layer specificity of viruses, suggesting limited diffusion to other mat layers. Taken together, these observations indicate that in low mobility environments with high microbial abundance, lysogeny is the predominant viral lifestyle, in line with the previously proposed "Piggyback-the-Winner" theory.
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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.