Virus diversity and activity is driven by snowmelt and host dynamics in a high-altitude watershed soil ecosystem

Microbiome, Journal Year: 2023, Volume and Issue: 11(1)

Published: Oct. 27, 2023

Viruses impact nearly all organisms on Earth, including microbial communities and their associated biogeochemical processes. In soils, highly diverse viral have been identified, with a global distribution seemingly driven by multiple biotic abiotic factors, especially soil temperature moisture. However, our current understanding of the stability across time response to strong seasonal changes in environmental parameters remains limited. Here, we investigated diversity activity DNA RNA viruses, focusing bacteriophages, dynamics' snow-dominated mountainous watershed examining paired metagenomes metatranscriptomes.

Language: Английский

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Incorporating viruses into soil ecology: A new dimension to understand biogeochemical cycling

Critical Reviews in Environmental Science and Technology, Journal Year: 2023, Volume and Issue: 54(2), P. 117 - 137

Published: June 16, 2023

Viruses, with an estimated abundance of 1031 on Earth, are important component soil ecosystems. As obligate parasites that entirely depend hosts for reproduction and survival, viruses have been linked to microbial community diversity metabolic activities in soil. Emerging evidence indicates influence a broad-spectrum processes sustain biodiversity, biogeochemical cycling, fertility, plant health. Research is its early stages. Even observational assessments viral ecology such as abundance, diversity, distribution, life strategies, ecological relevance, functions, only just beginning be revealed. In this review, we summarize the state knowledge concerning potential function(s) how they likely composition, nutrient cycles, carbon dynamics example. major drivers mortality functioning across wide range spatial temporal scales, appear key regulators cellular metabolism properties well critical ecosystem function. We conclude indispensable demanding further investigation. Defining abiotic interactions within environment, revealing virus-host interaction networks, elucidating roles cycling but few many aspects worthy future A more complete view participation food webs face changing climate will lead improved management services environmental sustainability.

Language: Английский

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Integrating viruses into soil food web biogeochemistry

Nature Microbiology, Journal Year: 2024, Volume and Issue: 9(8), P. 1918 - 1928

Published: Aug. 2, 2024

Language: Английский

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Soil viral–host interactions regulate microplastic-dependent carbon storage

Proceedings of the National Academy of Sciences, Journal Year: 2024, Volume and Issue: 121(45)

Published: Oct. 28, 2024

Microplastic is globally regarded as an important factor impacting biogeochemical cycles, yet our understanding of such influences limited by the uncertainties intricate microbial processes. By multiomics analysis, coupled with soil chemodiversity characterization and carbon use efficiency (CUE), we investigated how responses to microplastics impacted cycling in a long-term field experiment. We showed that biodegradable promoted organic accrual average 2.47%, while nondegradable inhibited it 17.4%, consequence virus–bacteria coadaptations disturbance. In relevant functional pathways, significantly ( P < 0.05) enhanced abundance transcriptional activity related complex carbohydrate metabolism, whereas functions involved amino acid metabolism glycolysis. Accordingly, viral lysis treatments introduce more compounds dissolved matters, thus benefiting oligotrophs high metabolic capabilities exploitation competition. contrast, enriched auxiliary genes through “piggyback-the-winner” strategy, conferring dominant copiotrophs, substrate utilization capabilities. These virus–host interactions were also demonstrated corresponding plastisphere, which would alter resource allocation via CUE, affecting storage consequently. Overall, results underscore importance viral–host microplastics-dependent ecosystem.

Language: Английский

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Beneath the surface: Unsolved questions in soil virus ecology

Soil Biology and Biochemistry, Journal Year: 2025, Volume and Issue: unknown, P. 109780 - 109780

Published: March 1, 2025

Language: Английский

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Soil pH influences the structure of virus communities at local and global scales

Soil Biology and Biochemistry, Journal Year: 2022, Volume and Issue: 166, P. 108569 - 108569

Published: Jan. 23, 2022

Language: Английский

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Substantial differences in soil viral community composition within and among four Northern California habitats

ISME Communications, Journal Year: 2022, Volume and Issue: 2(1)

Published: Oct. 13, 2022

Viruses contribute to food web dynamics and nutrient cycles in diverse ecosystems, yet the biogeographical patterns that underlie these viral are poorly understood, particularly soil. Here, we identified trends soil community composition relation habitat, moisture content, physical distance. We generated 30 viromes from four distinct habitats (wetlands, grasslands, woodlands, chaparral) by selectively capturing virus-sized particles prior DNA extraction, recovered 3432 unique 'species' (dsDNA vOTUs). Viral communities differed significantly with richness generally higher wet compared dry habitats. However, vOTUs were rarely shared between viromes, including replicates <10 m apart, suggesting viruses may not disperse well future sampling strategies need account for extreme differences over small spatial scales. Of 19% of detected more than one virome, 93% same habitat site, greater similarity closer proximity under similar environmental conditions. Within-habitat indicate extensive would be required rigorous cross-habitat comparisons, results highlight emerging paradigms high activity soils heterogeneity.

Language: Английский

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Metabolic coupling between soil aerobic methanotrophs and denitrifiers in rice paddy fields

Nature Communications, Journal Year: 2024, Volume and Issue: 15(1)

Published: April 24, 2024

Abstract Paddy fields are hotspots of microbial denitrification, which is typically linked to the oxidation electron donors such as methane (CH 4 ) under anoxic and hypoxic conditions. While several anaerobic methanotrophs can facilitate denitrification intracellularly, whether how aerobic CH couples with in paddy remains virtually unknown. Here we combine a ~3300 km field study across main rice-producing areas China 13 -DNA-stable isotope probing (SIP) experiments investigate role soil supporting denitrification. Our results reveal positive relationships between activities genes various climatic regions. Microcosm confirm that methanotroph addition promote gene expression involved increase nitrous oxide emissions. Moreover, -DNA-SIP analyses identify over 70 phylotypes harboring associated assimilating C, mostly belonged Rubrivivax , Magnetospirillum Bradyrhizobium . Combined C-metagenome-assembled genomes C-metabolomics highlight importance intermediates acetate, propionate lactate, released during oxidation, for coupling work identifies key taxa pathways driving coupled important implications nitrogen management greenhouse gas regulation agroecosystems.

Language: Английский

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Microbial Ecology of Oxygen Minimum Zones Amidst Ocean Deoxygenation

Frontiers in Microbiology, Journal Year: 2021, Volume and Issue: 12

Published: Oct. 27, 2021

Oxygen minimum zones (OMZs) have substantial effects on the global ecology and biogeochemical processes of marine microbes. However, diversity activity OMZ microbes their trophic interactions are only starting to be documented, especially in regard potential roles viruses protists. OMZs expanded over past 60 years predicted expand due anthropogenic climate change, furthering need understand these regions. This review summarizes current knowledge formation, biotic abiotic factors involved expansion, microbial OMZs, emphasizing importance bacteria, archaea, viruses, We describe recognized carbon, nitrogen, sulfur cycling, altering host metabolisms cycles, control populations by grazers viruses. Further, we highlight community composition organisms oxic anoxic depths within water column how differences potentially inform communities will respond deoxygenation. Additionally, literature alteration other key change parameters such as temperature pH considered regarding might pressures. Finally, discuss what gaps present understanding propose directions that begin close gaps.

Language: Английский

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Bacteria–Virus Interactions Are More Crucial in Soil Organic Carbon Storage than Iron Protection in Biochar-Amended Paddy Soils

Environmental Science & Technology, Journal Year: 2023, Volume and Issue: 57(48), P. 19713 - 19722

Published: Nov. 20, 2023

Iron oxides supposedly provide physicochemical protection for soil organic carbon (SOC) under anoxic conditions. Likewise, biochar can modulate the composition of microbial communities. However, how Fe and communities influence fate SOC with amendment remains unresolved, especially effect bacteria-virus interaction on dynamics. Here, we performed a four-month pot experiment using rice seedlings waterlogged Then, aggregate sizes were examined to explore factors influencing patterns underlying mechanisms. We found that altered enzyme activities, in macroaggregates. necromass exhibited significant negative relationships SOC. Bacterial notably associated viral keystone ecological cluster (module 1) taxa network showed correlations substantial positive module 1. In contrast prevailing view, increase was not primarily driven by but strongly influenced interactions taxa. These findings indicate governs microbial-mediated accumulation paddy ascertains role viruses regulating bacterial community, thus predicting stock.

Language: Английский

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