ArticleMicrobiome2022
Crop management shapes the diversity and activity of DNA and RNA viruses in the rhizosphere.
Article in Microbiome, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 23 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
23 citing papers in PubMed, 43 citations in OpenAlex.
- The role of phages in plant-associated microbial communities.Essays in biochemistry · 2026Review
- Integrating soil imaging with spatial omics to uncover root-soil interactions.Plant communications · 2026Review
- Article
- Viruses help shape microbiome response to polyphenol rewiring of methane-suppressed peat microcosms.PLoS biology · 2026Article
- Research Progress on Rhizosphere Microbiota for Controlling Soil-Borne Diseases: Mechanisms, Applications, and Challenges.Microorganisms · 2026Review
- The hidden role of rhizospheric viruses in promoting nitrogen fixation in soils.Nature communications · 2026Article
- Dark Matter Carried byInternational journal of molecular sciences · 2025Article
- Review
- Harnessing phage consortia to mitigate the soil antibiotic resistome by targeting keystone taxa Streptomyces.Microbiome · 2025Article
- Rhizosphere-triggered viral lysogeny mediates microbial metabolic reprogramming to enhance arsenic oxidation.Nature communications · 2025Article
- Expanding the potential soil carbon sink: unraveling carbon sequestration accessory genes in vermicompost phages.Applied and environmental microbiology · 2025Article
- Advancing RNA phage biology through meta-omics.Nucleic acids research · 2025Review
- Diurnal Rhythmicity in the Rhizosphere Microbiome-Mechanistic Insights and Significance for Rhizosphere Function.Plant, cell & environment · 2025Review
- Pepper root exudate alleviates cucumber root-knot nematode infection by recruiting a rhizobacterium.Plant communications · 2025Article
- Phage diversity in One Health.Essays in biochemistry · 2024Review
- Article
- Soil Giant Phage: Genome and Biological Characteristics ofInternational journal of molecular sciences · 2024Article
- The role of rhizosphere phages in soil health.FEMS microbiology ecology · 2024Review
- Virus diversity and activity is driven by snowmelt and host dynamics in a high-altitude watershed soil ecosystem.Microbiome · 2023Article
- Lysogenic bacteriophages encoding arsenic resistance determinants promote bacterial community adaptation to arsenic toxicity.The ISME journal · 2023Article
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
10 authors at 3 institutions in 1 country.
Funding
Abstract
backgroundThe rhizosphere is a hotspot for microbial activity and contributes to ecosystem services including plant health and biogeochemical cycling. The activity of microbial viruses, and their influence on plant-microbe interactions in the rhizosphere, remains undetermined. Given the impact of viruses on the ecology and evolution of their host communities, determining how soil viruses influence microbiome dynamics is crucial to build a holistic understanding of rhizosphere functions.
resultsHere, we aimed to investigate the influence of crop management on the composition and activity of bulk soil, rhizosphere soil, and root viral communities. We combined viromics, metagenomics, and metatranscriptomics on soil samples collected from a 3-year crop rotation field trial of oilseed rape (Brassica napus L.). By recovering 1059 dsDNA viral populations and 16,541 ssRNA bacteriophage populations, we expanded the number of underexplored Leviviricetes genomes by > 5 times. Through detection of viral activity in metatranscriptomes, we uncovered evidence of "Kill-the-Winner" dynamics, implicating soil bacteriophages in driving bacterial community succession. Moreover, we found the activity of viruses increased with proximity to crop roots, and identified that soil viruses may influence plant-microbe interactions through the reprogramming of bacterial host metabolism. We have provided the first evidence of crop rotation-driven impacts on soil microbial communities extending to viruses. To this aim, we present the novel principal of "viral priming," which describes how the consecutive growth of the same crop species primes viral activity in the rhizosphere through local adaptation.
conclusionsOverall, we reveal unprecedented spatial and temporal diversity in viral community composition and activity across root, rhizosphere soil, and bulk soil compartments. Our work demonstrates that the roles of soil viruses need greater consideration to exploit the rhizosphere microbiome for food security, food safety, and environmental sustainability. Video Abstract.
Indexed as
Identifiers
What OpenQuestion holds
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.