The Impact of Stand Age and Fertilization on the Soil Microbiome of <i>Miscanthus × giganteus</i>

Ma, Lanying; Rocha, Fernando Igne; Lee, Jaejin; Choi, Jinlyung; Tejera, Mauricio; Sooksa-nguan, Thanwalee; Boersma, Nicholas N.; VanLoocke, Andy; Heaton, Emily A.; Howe, Adina

doi:10.1094/pbiomes-01-20-0014-fi

Cited by 28 publications

(27 citation statements)

References 45 publications

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“…Although, mature miscanthus did, on average, increase total N by 114–307 kg N ha −1 across both sites (Table 3). Our findings indicate other regulatory factors such as supply of labile carbon, microbial activity, or microbial community structure should also be investigated to elucidate N min mechanisms (Ma et al, 2020).…”

Section: Discussionmentioning

confidence: 85%

“…The mechanism by which miscanthus might increase plant‐available N from SOM could be by either increasing total SOM (Beuch et al, 2000; Foereid et al, 2004; Kahle et al, 2001), by increasing microbial activity and releasing more N from SOM (Davis et al, 2013; Zhu et al, 2014), or both. Miscanthus’ thick residue layer could reduce soil temperature (Kucharik et al, 2013), increase soil moisture (Monti & Zatta, 2009), and enhance labile carbon inputs thereby changing microbial community and activity (Ma et al, 2020; Monti & Zatta, 2009; Tiemann & Grandy, 2015). An increase in N min , combined with miscanthus’ ability to translocate N from above‐ to belowground organs prior to harvest (Strullu et al, 2011), could explain why miscanthus can continually produce high yields with little need for N fertilizer (highly N use efficient).…”

Section: Introductionmentioning

confidence: 99%

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Soil net nitrogen mineralization and leaching under Miscanthus × giganteus and Zea mays

et al. 2021

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The winter fallow period common in annual cropping systems leaves soils vulnerable to erosion and nutrient loss, especially to nitrogen (N) leaching. This vulnerability can be mitigated with perennial crops that have living roots in the ground year‐round. The mechanisms, magnitude, and consistency with which perennial crops retain N are not clear. We used an experiment to test whether a perennial crop, miscanthus (Miscanthus × giganteus Greef et Deu.), would leach less N than continuous maize (Zea mays L.) and how soil net N mineralization (Nmin) may explain observed leaching under varied environment and management conditions. The experiment included three crossed factors: (1) cropping system (maize, juvenile miscanthus = 1–2 years old, mature miscanthus = 3–4 years old); (2) N fertilization (0 and 224 kg N ha−1); and (3) environment (four site‐years at two locations in Iowa, USA, that differed in climate and soil fertility). We measured N cycling dynamics, including: inorganic soil N (ammonium + nitrate), in situ Nmin, N leaching, crop N uptake, and calculated system N use efficiency. There were many complex interactions among factors. On average, cumulative Nmin under juvenile miscanthus was 111% greater than maize, but as miscanthus matured, there was no difference in Nmin between the perennial crop and maize. There was no difference in N leaching between juvenile miscanthus and maize, but mature miscanthus decreased N leaching by 42% and 88% compared to maize (with and without N fertilization, respectively). Across all treatments, there was no relationship between Nmin and N leaching, suggesting other mechanisms are regulating N leaching. Overall, mature miscanthus shows promise as a tool to reduce N losses in areas dominated by annual row‐crops.

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Section: Discussionmentioning

confidence: 85%

Section: Introductionmentioning

confidence: 99%

Soil net nitrogen mineralization and leaching under Miscanthus × giganteus and Zea mays

et al. 2021

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“…x giganteus (41). However, it is possible that DNA-based analysis may underestimate the number of active taxa, resulting in biased interpretations of how microbial communities respond to the environment (42,43).…”

Section: Mmentioning

confidence: 99%

“…PERMANOVA was performed using the "strata" argument for the planted block, which was identified as one of the major factors to structure the microbial composition in the previous study, to better identify the effects of stand age and N fertilization amount, fertilization history, and time since fertilization. This analysis restricted permutations to the dataset within each block and was used to quantify variations between and within treatments (41). The comparison between the two groups within the three (stand age, N fertilization amount) or four (time since fertilization) groups was accomplished using pairwise PERMANOVA.…”

Section: Sample Descriptionmentioning

confidence: 99%

“…Previously, the response of the soil microbial community at this site to plant stand age, fertilization history, and time since fertilization was studied based on DNA (41). In this study, subsets of these samples were studied to directly compare DNA and RNA 16S rRNA gene characterization.…”

Section: Dna and Rna Microbial Community Compositions Were Variably Changed By Stand Age N Fertilization Amount And Time Since Fertilizatmentioning

confidence: 99%

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Response of total (DNA) and metabolically active (RNA) microbial communities in Miscanthus × giganteus cultivated soil to different nitrogen fertilization rates

Yang

Lee

Choi

et al. 2021

Preprint

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Miscanthus x giganteus is a promising high-yielding perennial plant to meet growing bioenergy demands but the degree to which the soil microbiome affects its nitrogen cycling and subsequently, biomass yield remains unclear. In this study, we hypothesize that contributions of metabolically active soil microbial membership may be underestimated with DNA-based approaches. We assessed the response of the soil microbiome to nitrogen availability in terms of both DNA and RNA soil microbial communities from the Long-term Assessment of Miscanthus Productivity and Sustainability (LAMPS) field trial. DNA and RNA were extracted from 271 samples, and 16S SSU rRNA amplicon sequencing was performed to characterize microbial community structure. Significant differences were observed in the resulting soil microbiomes and were best explained by the sequencing library of origin, either DNA and RNA. Similar numbers of taxa were detected in DNA and RNA microbial communities, with more than 90% of taxa shared. However, the profile of dominant taxa within DNA and RNA differed, with varying proportions of Actinobacteria and Proteobacteria and Firmicutes and Proteobacteria. Only RNA microbial communities showed seasonal responses to nitrogen fertilization, and these differences were associated with nitrogen-cycling bacteria. The relative abundance of bacteria associated with nitrogen cycling was 7-folds higher in RNA than in DNA, and genes associated with denitrifying bacteria were significantly enriched in RNA, suggesting that these bacteria may be underestimated with DNA-only approaches. Our findings indicate that RNA-based SSU characterization can be a significant and complementing resource for understanding the role of soil microbiomes in bioenergy crop production.ImportanceMiscanthus x giganteus is becoming a cornerstone of bioeconomy cropping systems, but it remains unclear how the soil microbiome supplies nitrogen to this low-input crop. DNA-based techniques are used to provide community characterization but may miss important metabolically active taxa. By analyzing both DNA- and actively transcribed RNA-based microbial communities, we found that nitrogen cycling taxa in the soil microbiome may be underestimated using only DNA-based approaches. Accurately understanding the role of microbes and how they cycle nutrients is important for the development of sustainable bioenergy crops, and RNA-based approaches are recommended as a complement to DNA approaches to better understand the microbial, plant, and management interactions.

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Soil Microbes and Climate Change Mitigation

Babaniyi,

Olaide,

Apara

et al. 2024

Soil Microbiome in Green Technology Sustainability

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The Impact of Stand Age and Fertilization on the Soil Microbiome of Miscanthus × giganteus

Cited by 28 publications

References 45 publications

Soil net nitrogen mineralization and leaching under Miscanthus × giganteus and Zea mays

Soil net nitrogen mineralization and leaching under Miscanthus × giganteus and Zea mays

Response of total (DNA) and metabolically active (RNA) microbial communities in Miscanthus × giganteus cultivated soil to different nitrogen fertilization rates

Soil Microbes and Climate Change Mitigation

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