Response of Total (DNA) and Metabolically Active (RNA) Microbial Communities in
            <i>Miscanthus × Giganteus</i>
            Cultivated Soil to Different Nitrogen Fertilization Rates

Yang, Joo Young; Lee, Jaejin; Choi, Jinlyung; Ma, Lanying; Heaton, Emily A.; Howe, Adina

doi:10.1128/spectrum.02116-21

Cited by 4 publications

(2 citation statements)

References 79 publications

(77 reference statements)

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“…with potential for protein synthesis) communities in the global tropical and subtropical ocean from the surface to the bathypelagic layer (~4000 m). Active communities differed largely from total communities throughout the water column, as observed in other ecosystems [ 54 , 55 ]. Despite the marked environmental gradients encountered with depth, the active communities were comparatively more similar among them than the total communities were ( Fig.…”

Section: Discussionmentioning

confidence: 83%

The active free-living bathypelagic microbiome is largely dominated by rare surface taxa

Sebastián,

Giner,

Balagué

et al. 2024

ISME Communications

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A persistent microbial seed bank is postulated to sustain the marine biosphere, and recent findings show that prokaryotic taxa present in the ocean’s surface dominate prokaryotic communities throughout the water column. Yet, environmental conditions exert a tight control on the activity of prokaryotes, and drastic changes in these conditions are known to occur from the surface to deep waters. The simultaneous characterization of the total (DNA) and active (i.e., with potential for protein synthesis, RNA) free-living communities in thirteen stations distributed across the tropical and subtropical global ocean allowed us to assess their change in structure and diversity along the water column. We observed that active communities were surprisingly more similar along the vertical gradient than total communities. Looking at the vertical connectivity of the active vs. the total communities, we found that taxa detected in the surface sometimes accounted for more than 75% of the active microbiome of bathypelagic waters (50% on average). These active taxa were generally rare in the surface, representing a small fraction of all the surface taxa. Our findings show that the drastic vertical change in environmental conditions leads to the inactivation and disappearance of a large proportion of surface taxa, but some surface-rare taxa remain active (that is with potential for protein synthesis) and dominate the bathypelagic active microbiome.

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Section: Discussionmentioning

confidence: 83%

The active free-living bathypelagic microbiome is largely dominated by rare surface taxa

Sebastián,

Giner,

Balagué

et al. 2024

ISME Communications

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“…However, DNA-based methods have limitations in accurately reflecting in situ nitrification rates (Nardi et al, 2022), and the exact microbial groups that contribute to the nitrification function can be masked. To approach true field rates, measurements such as DNA stable isotope probing and RNA-based methods such as metatranscriptomics, are suggested (Blanc-Betes et al, 2023;Yang et al, 2022). Integrated experimental designs are crucial for addressing the inherent complexities of plant-soil-microbe systems and comprehensively characterizing BNI function in different grass species of interest.…”

Section: Biological Nitrification Inhibition In Grassesmentioning

confidence: 99%

Nitrogen acquisition and retention pathways in sustainable perennial bioenergy grass cropping systems

Duan,

Kent

2024

GCB Bioenergy

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Perennial tall grasses show promise as bioenergy crops due to high productivity and efficient nutrient use. Ongoing research on bioenergy grasses seeks to reduce their reliance on synthetic nitrogen (N) fertilizer, the manufacture of which relies on fossil fuel combustion. Excessive use of fertilizers also causes adverse environmental consequences and leads to the evolutionary loss of plant traits beneficial to sustainable N cycle. Notably, perennial tall grasses have exhibited the potential to maintain high biomass yield without the need for N fertilizer or causing soil N depletion. Perennial grasses can be adept at interacting with their microbial partners to facilitate N acquisition and retention via mechanisms such as biological N fixation and nitrification inhibition. These inherent N management traits should be preserved and optimized at the this early stage of bioenergy grass breeding programs. This review examines the impact of external N on bioenergy grass production and explores the potential of leveraging advantageous N‐cycling attributes of perennial tall grasses, laying groundwork for future management and research efforts. With minimized dependency on external N input, the cultivation of perennial energy grasses will pave the way toward more resilient agricultural systems and play a significant role in addressing key global energy and environmental challenges.

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Forest thinning alleviates the negative effects of precipitation reduction on soil microbial diversity and multifunctionality

Wang

Chen

et al. 2023

Biol Fertil Soils

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Response of Total (DNA) and Metabolically Active (RNA) Microbial Communities in Miscanthus × Giganteus Cultivated Soil to Different Nitrogen Fertilization Rates

Cited by 4 publications

References 79 publications

The active free-living bathypelagic microbiome is largely dominated by rare surface taxa

The active free-living bathypelagic microbiome is largely dominated by rare surface taxa

Nitrogen acquisition and retention pathways in sustainable perennial bioenergy grass cropping systems

Forest thinning alleviates the negative effects of precipitation reduction on soil microbial diversity and multifunctionality

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