Dataset Information

Exploration of Soil Functional Microbiomes-A Concept Proposal for Long-Term Fertilized Grasslands.

ABSTRACT: Exploring grassland microbiomes is a challenge in the current context of linking soil microorganism activity with the balance of these ecosystems. Microbiologists are constantly attempting to develop faster and lower-cost methods, and propose new and best-fitted indicators that will provide a more complex data analysis. A different concept was proposed for assessing functional microbiomes by splitting the functional ecological niche into complementary segments. The comparison with the upper and lower limits of the ecological niche provides a clearer image of community alterations due to long-term applied treatments. The method allows the extraction of the most sensitive and stable functional guilds, with the extraction of the most critical dominant-codominant functional groups in every segment of the functional niche. The resulting microbial functional-sociological model is ready to use on community-level physiological profile databases and also can be applied backward for vegetation analysis.

SUBMITTER: Stoian V

PROVIDER: S-EPMC9102102 | biostudies-literature | 2022 May

REPOSITORIES: biostudies-literature

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Exploration of Soil Functional Microbiomes-A Concept Proposal for Long-Term Fertilized Grasslands.

Stoian Vlad V Vidican Roxana R Florin Păcurar P Corcoz Larisa L Pop-Moldovan Victoria V Vaida Ioana I Vâtcă Sorin-Daniel SD Stoian Valentina Ancuța VA Pleșa Anca A

Plants (Basel, Switzerland) 20220505 9

Exploring grassland microbiomes is a challenge in the current context of linking soil microorganism activity with the balance of these ecosystems. Microbiologists are constantly attempting to develop faster and lower-cost methods, and propose new and best-fitted indicators that will provide a more complex data analysis. A different concept was proposed for assessing functional microbiomes by splitting the functional ecological niche into complementary segments. The comparison with the upper and ...[more]

PMID: 35567254

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Project description:Flooded rice fields are not only a global food source but also a major biogenic source of atmospheric methane. Using metatranscriptomics, we comparatively explored structural and functional succession of paddy soil microbiomes in the oxic surface layer and anoxic bulk soil. Cyanobacteria, Fungi, Xanthomonadales, Myxococcales, and Methylococcales were the most abundant and metabolically active groups in the oxic zone, while Clostridia, Actinobacteria, Geobacter, Anaeromyxobacter, Anaerolineae, and methanogenic archaea dominated the anoxic zone. The protein synthesis potential of these groups was about 75% and 50% of the entire community capacity, respectively. Their structure-function relationships in microbiome succession were revealed by classifying the protein-coding transcripts into core, non-core, and taxon-specific transcripts based on homologous gene distribution. The differential expression of core transcripts between the two microbiomes indicated that structural succession is primarily governed by the cellular ability to adapt to the given oxygen condition, involving oxidative stress, nitrogen/phosphorus metabolism, and fermentation. By contrast, the non-core transcripts were expressed from genes involved in the metabolism of various carbon sources. Among those, taxon-specific transcripts revealed highly specialized roles of the dominant groups in community-wide functioning. For instance, taxon-specific transcripts involved in photosynthesis and methane oxidation were a characteristic of the oxic zone, while those related to methane production and aromatic compound degradation were specific to the anoxic zone. Degradation of organic matters, antibiotics resistance, and secondary metabolite production were detected to be expressed in both the oxic and anoxic zones, but by different taxonomic groups. Cross-feeding of methanol between members of the Methylococcales and Xanthomonadales was suggested by the observation that in the oxic zone, they both exclusively expressed homologous genes encoding methanol dehydrogenase. Our metatranscriptomic analysis suggests that paddy soil microbiomes act as complex, functionally coordinated assemblages whose taxonomic composition is governed by the prevailing habitat factors and their hierarchical importance for community succession.

Project description:BackgroundThroughout the world, intensive dairy farming has resulted in grasslands almost devoid of arthropods and birds. Meadow birds appear to be especially vulnerable during the chick-rearing period. So far, studies have focused mainly on describing population declines, but solutions to effectively stop these trends on the short-term are lacking. In this study at a single farm, we experimentally manipulated soil moisture through occasional irrigation, to mitigate against early season drainage and create favorable conditions for the emergence of above-ground arthropods during the meadow bird chick rearing phase.MethodsTo guarantee the presence of at least a sizeable arthropod community for the measurement of effects of wetting, we selected a farm with low intensity management. The land use and intensity of the study site and surroundings were categorized according to the national land use database and quantified using remote sensing imagery. From May 1 to June 18, 2017, we compared a control situation, with no water added, to two wetting treatments, a "short-term" (3 weeks) treatment based on wetting on warm days with a sprinkler system and a "long-term" treatment next to a water pond with a consistently raised water table from 2010. We measured soil temperature, soil moisture and resistance as well as the biomass of arthropods at 3-day intervals. Flying arthropods were sampled by sticky traps and crawling arthropods by pitfall traps. Individual arthropods were identified to Order and their length recorded, to assess their relevance to meadow bird chicks.ResultsThe land use analysis confirmed that the selected dairy farm had very low intensity management. This was different from most of the surrounding area (20 km radius), characterized by (very) high intensity land use. The experiments showed that irrigation contributed to cooler soils during midday, and that his happened already in the early part of the season; the differences with the control increased with time. In the short- and long-term treatments, soil moisture increased and soil resistance decreased from the mid-measurement period onward. Compared with the control, cumulative arthropod biomass was higher in the long-term treatment, but showed no change in the irrigation treatment. We conclude that small-scale interventions, such as occasional irrigation, favorably affected local soil properties. However, the effects on above-ground arthropod abundance currently appear limited or overridden by negative landscape-scale processes on arthropods.

Dataset Information

Exploration of Soil Functional Microbiomes-A Concept Proposal for Long-Term Fertilized Grasslands.

Publications

Exploration of Soil Functional Microbiomes-A Concept Proposal for Long-Term Fertilized Grasslands.

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