DNA Metabarcoding for the Characterization of Terrestrial Microbiota—Pitfalls and Solutions DOI Creative Commons
Davide Francioli, Guillaume Lentendu, Simon Lewin

et al.

Microorganisms, Journal Year: 2021, Volume and Issue: 9(2), P. 361 - 361

Published: Feb. 12, 2021

Soil-borne microbes are major ecological players in terrestrial environments since they cycle organic matter, channel nutrients across trophic levels and influence plant growth health. Therefore, the identification, taxonomic characterization determination of role members soil microbial communities have become topics interest. The development continuous improvement high-throughput sequencing platforms further stimulated study complex microbiota soils plants. most frequently used approach to composition, diversity dynamics is polymerase chain reaction (PCR), amplifying specific taxonomically informative gene markers with subsequent amplicons. This methodological called DNA metabarcoding. Over last decade, metabarcoding has rapidly emerged as a powerful cost-effective method for description environmental samples. However, this involves several processing steps, each which might introduce significant biases that can considerably compromise reliability output. aim review provide state-of-the-art background knowledge needed make appropriate decisions at step workflow, highlighting crucial steps that, if considered, ensures an accurate standardized studies.

Language: Английский

Fungal-bacterial diversity and microbiome complexity predict ecosystem functioning DOI Creative Commons
Cameron Wagg, Klaus Schlaeppi, Samiran Banerjee

et al.

Nature Communications, Journal Year: 2019, Volume and Issue: 10(1)

Published: Oct. 24, 2019

Abstract The soil microbiome is highly diverse and comprises up to one quarter of Earth’s diversity. Yet, how such a functionally complex influences ecosystem functioning remains unclear. Here we manipulated the in experimental grassland ecosystems observed that diversity microbial network complexity positively influenced multiple functions related nutrient cycling (e.g. multifunctionality). Grassland microcosms with poorly developed networks reduced richness had lowest multifunctionality due fewer taxa present support same function (redundancy) lower different (reduced functional uniqueness). Moreover, explained pointing significance communities. These findings indicate importance interactions within among fungal bacterial communities for enhancing performance demonstrate extinction ecological associations belowground can impair functioning.

Language: Английский

Citations

1217
Microplastic Shape, Polymer Type, and Concentration Affect Soil Properties and Plant Biomass DOI Creative Commons
Yudi M. Lozano,

Timon Lehnert,

Lydia T. Linck

et al.

Frontiers in Plant Science, Journal Year: 2021, Volume and Issue: 12

Published: Feb. 16, 2021

Microplastics may enter the soil in a wide range of shapes and polymers. However, little is known about effects that microplastics different shapes, polymers, concentration have on properties plant performance. To address this, we selected 12 representing (fibers, films, foams, fragments) mixed them each with at 0.1, 0.2, 0.3, 0.4%. A phytometer (Daucus carota) grew pot during 4 weeks. Shoot, root mass, aggregation, microbial activity were measured. All increased biomass. Shoot mass by ∼27% fibers, ∼60% ∼45% ∼54% fragments, as fibers hold water for longer, films decrease bulk density, foams fragments can increase aeration macroporosity, which overall promote By contrast, all decreased aggregation ∼25% introduce fracture points into aggregates due to potential negative biota. The latter also explain with, example, polyethylene films. Our findings show shape, polymer type, are key when studying microplastic terrestrial systems.

Language: Английский

Citations

429
Climate change effects on plant-soil feedbacks and consequences for biodiversity and functioning of terrestrial ecosystems DOI Creative Commons
Francisco I. Pugnaire, José A. Morillo, Josep Peñuelas

et al.

Science Advances, Journal Year: 2019, Volume and Issue: 5(11)

Published: Nov. 1, 2019

By affecting plant-soil feedbacks, climate change will alter plant distribution and performance overall ecosystem functioning.

Language: Английский

Citations

379
Soil microbial network complexity predicts ecosystem function along elevation gradients on the Tibetan Plateau DOI
Wenqing Chen, Jianyu Wang, Xiang Chen

et al.

Soil Biology and Biochemistry, Journal Year: 2022, Volume and Issue: 172, P. 108766 - 108766

Published: June 25, 2022

Language: Английский

Citations

223
Nitrogen and phosphorus fertilization consistently favor pathogenic over mutualistic fungi in grassland soils DOI Creative Commons
Ylva Lekberg, Carlos Alberto Arnillas, Elizabeth T. Borer

et al.

Nature Communications, Journal Year: 2021, Volume and Issue: 12(1)

Published: June 9, 2021

Abstract Ecosystems across the globe receive elevated inputs of nutrients, but consequences this for soil fungal guilds that mediate key ecosystem functions remain unclear. We find nitrogen and phosphorus addition to 25 grasslands distributed four continents promotes relative abundance pathogens, suppresses mutualists, does not affect saprotrophs. Structural equation models suggest responses are often indirect primarily mediated by nutrient-induced shifts in plant communities. Nutrient also reduces co-occurrences within among guilds, which could have important belowground interactions. Focusing only on plots received no nutrient addition, properties influence pathogen globally, whereas community characteristics climate show consistent, guild-level enhance our ability predict function related anthropogenic eutrophication, can longer-term

Language: Английский

Citations

206
Rare taxa maintain the stability of crop mycobiomes and ecosystem functions DOI
Chao Xiong, Ji‐Zheng He, Brajesh K. Singh

et al.

Environmental Microbiology, Journal Year: 2020, Volume and Issue: 23(4), P. 1907 - 1924

Published: Sept. 30, 2020

Plants harbour highly diverse mycobiomes which sustain essential functions for host health and productivity. However, ecological processes that govern the plant-mycobiome assembly, interactions their impact on ecosystem remain poorly known. Here we characterized role community assembly of both abundant rare fungal taxa along soil-plant continuums (rhizosphere, phyllosphere endosphere) in maize-wheat/barley rotation system under different fertilization practices at two contrasting sites. Our results indicate mycobiome is shaped predominantly by compartment niche species rather than environmental factors. Moreover, crop-associated communities are dominated few mainly belonging to Sordariomycetes Dothideomycetes, while majority diversity within represented taxa. For plant compartments, sub-community determined stochastic processes. In contrast, more sensitive selection governed deterministic Furthermore, our demonstrate play an important co-occurrence network functioning like crop yield soil enzyme activities. These significantly advance understanding highlight key sustaining stability functions.

Language: Английский

Citations

205
Phylotype diversity within soil fungal functional groups drives ecosystem stability DOI
Shengen Liu, Pablo García‐Palacios, Leho Tedersoo

et al.

Nature Ecology & Evolution, Journal Year: 2022, Volume and Issue: 6(7), P. 900 - 909

Published: May 9, 2022

Language: Английский

Citations

170
Root traits explain rhizosphere fungal community composition among temperate grassland plant species DOI Creative Commons
Christopher J. Sweeney, Franciska T. de Vries, Bart E. van Dongen

et al.

New Phytologist, Journal Year: 2020, Volume and Issue: 229(3), P. 1492 - 1507

Published: Oct. 2, 2020

Summary While it is known that interactions between plants and soil fungi drive many essential ecosystem functions, considerable uncertainty exists over the drivers of fungal community composition in rhizosphere. Here, we examined roles plant species identity, phylogeny functional traits shaping rhizosphere communities tested robustness these relationships to environmental change. We conducted a glasshouse experiment consisting 21 temperate grassland grown under three different treatments characterised within plants. found phylogenetic relatedness all affected composition. Trait with were primarily driven by arbuscular mycorrhizal fungi, root stronger predictors than leaf traits. These patterns independent under. Our results showcase key role traits, especially diameter, nitrogen specific length, driving composition, demonstrating potential for be used predictive frameworks plant–fungal relationships. Furthermore, highlight how limitations our understanding function may obscure previously unmeasured interactions.

Language: Английский

Citations

165
Organic amendments enhance soil microbial diversity, microbial functionality and crop yields: A meta-analysis DOI

Xiangyang Shu,

Jia He, Zhenghu Zhou

et al.

The Science of The Total Environment, Journal Year: 2022, Volume and Issue: 829, P. 154627 - 154627

Published: March 17, 2022

Language: Английский

Citations

154
Persistence of plant-mediated microbial soil legacy effects in soil and inside roots DOI Creative Commons
S. Emilia Hannula, Robin Heinen, Martine Huberty

et al.

Nature Communications, Journal Year: 2021, Volume and Issue: 12(1)

Published: Sept. 28, 2021

Abstract Plant-soil feedbacks are shaped by microbial legacies that plants leave in the soil. We tested persistence of these after subsequent colonization same or other plant species using 6 typical grassland species. Soil fungal were detectable for months, but current effect on fungi amplified time. By contrast, bacterial communities, faded away rapidly and bacteria communities influenced strongly plant. However, both conserved inside roots their composition significantly correlated with growth. Hence, soil present at time establishment play a vital role shaping growth even when have due conclude microbiome reversible versatile, they can create plant-soil via altering endophytic community acquired during early ontogeny.

Language: Английский

Citations

152