DNA occurrence in organic matter fractions isolated from amended, agricultural soils

Zaccone, Claudio; Beneduce, Luciano; Lotti, Concetta; Martino, Giulia; Plaza, César

doi:10.1016/j.apsoil.2018.06.011

Cited by 19 publications

(10 citation statements)

References 51 publications

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“…Light fractions within the occluded and free microaggregates consist of less decomposed organic residues and are possessed in higher POC concentrations (Zhang et al, 2018). However, they usually showed a higher degree of degradation and faster C turnover, therefore had lower proportions inside the occluded and free microaggregates (Zaccone et al, 2018). In this study, SP, EIS, and SM had a similar increment of the Fm-POM proportions and C contents.…”

Section: Effects Of Straw Returning Methods On Soc Accumulationsupporting

confidence: 49%

Changes in soil fungal community on SOC and POM accumulation under different straw return modes in dryland farming

Fan

2021

Ecosyst Health Sustain

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We conducted a 2.5 year's field experiment to test the effects of straw incorporated evenly into the soil (EIS) on soil fungal community, SOC chemical composition, and particulate organic matter fractions via comparing with no straw returning (CK), straw mulching (SM), straw plowed into the soil (SP), and identified the linkages between soil fungal community as well as organic C accumulation and POM formation. Our results showed that EIS treatment significantly increased the concentrations of SOC and the proportion of Carbohydrate C, Di-O-alkyl C, and O-alkyl C in SOC structure, increased the mass proportion and OC contents of MA(c)POM and mM-POM in the upper 40 cm of soil. Meanwhile, EIS treatment increased the relative abundance of Ascomycota, Zygomycota, Chytridiomycota, and Dothideomycetes in 0-20 cm depths, and also had the highest relative abundance of Glomeromycetes and Dothideomycetes in the 20-40 cm soil Also, our study suggests that straw return enhanced the relative abundances of fungi involved in the carbon cycle and sequestration, including Zygomycota, Chytridiomycota, and Glomeromycota, and Ascomycota. The shifts in fungal community structure can accelerate organic C accumulation and the formation of soil particulate organic matter, especially in EIS treatment.

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Section: Effects Of Straw Returning Methods On Soc Accumulationsupporting

confidence: 49%

Changes in soil fungal community on SOC and POM accumulation under different straw return modes in dryland farming

Fan

2021

Ecosyst Health Sustain

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“…Meanwhile, fresh straw also stimulates the production of fungal and bacterial binding agents that form stable microaggregate cores within macroaggregates [32]. However, different tillage practices and straw return methods lead to a difference in straw decomposing environments and thus decomposition rates, which will also lead to a different distribution of SOC in different particle size aggregates [33]. In the current study, the macroaggregate associated organic C in SM and SG was higher than EIS from 0-20 cm.…”

Section: Effects Of Straw Returning On Soil Aggregate Associated Organic Cmentioning

confidence: 52%

Short-Term Effects of Different Straw Returning Methods on the Soil Physicochemical Properties and Quality Index in Dryland Farming in NE China

Fan

Ahmed

et al. 2020

Sustainability

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A field experiment was designed to assess the impacts of various maize straw (stover) returning methods on the basic soil physicochemical properties and soil quality index in Jilin (NE China). The five treatments were no return of straw residues (CK), straw incorporated evenly into the soil using the crashing-ridging technique (EIS), straw mulching (SM), straw plowed into the soil (SP), and straw returned in granulated form (SG). Relative to the no straw return, EIS effectively reduced soil bulk density and penetration resistance, increased soil total organic carbon (TOC), macroaggregate-associated carbon content, and the accumulation of soil humus. Furthermore, EIS improved soil structure and soil aggregate stability and significantly increased the soil quality index. Among the various straw returning treatments, SM and SG significantly promoted soil macroaggregation and increased macroaggregate-associated carbon content by 23.69% and 21.70% at the soil surface, respectively (as compared with the control). Compared to SM, SP, and SG, EIS significantly enhanced the aliphaticity and hydrophobicity of soil organic carbon. These results suggested that EIS was the most efficient straw return mode to increase TOC and improve soil structure and fertility.

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“…Conversely, plant DNA extraction requires more mechanically- and chemically-intensive methodologies to overcome the many additional barriers to effective lysis, including the rigidity of the cell wall and the presence of inhibitory secondary metabolites [ 62 , 63 , 64 , 65 ]. While plant extraction kits can isolate amplifiable microbial DNA [ 66 ], methodologies targeting microbial species alone have been shown to be ineffective at optimally isolating quantifiable plant DNA [ 67 ]. Nonetheless, it is important to minimize host contamination whenever possible in upfront sample processing.…”

Section: Discussionmentioning

confidence: 99%

Optimization of a Method for the Concentration of Genetic Material in Bacterial and Fungal Communities on Fresh Apple Peel Surfaces

2020

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Apples are the most consumed fruit in the United States and have recently been shown to exhibit some vulnerability to contamination across the supply chain. It is unclear what role a fruit microbiome analysis may serve in future food safety programs interested in understanding changes in the product and the processing environment. Ultimately, sample integrity is key if any of these approaches are to be employed; low microbial loads on apple surfaces, the inability to sample the entire surface, and inefficiency of removal may act as barriers to achieving high-quality DNA. As such, the objective of this study was to identify a reproducible method to concentrate and quantify bacterial and fungal DNA from fresh apple surfaces. Five methods were evaluated: two variations of wash solutions for bath sonication, wash filtration, epidermis excision, and surface swabbing. Epidermis excision returned the highest mean DNA quantities, followed by the sonicated washes and wash filtration. Surface swabbing was consistently below the limit of detection. Based on the quantity of host DNA contamination in surface excision, the sonicated wash solution containing a surfactant presents the greatest opportunity for consistent, high-yielding DNA recovery from the entire apple surface.

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DNA occurrence in organic matter fractions isolated from amended, agricultural soils

Cited by 19 publications

References 51 publications

Changes in soil fungal community on SOC and POM accumulation under different straw return modes in dryland farming

Changes in soil fungal community on SOC and POM accumulation under different straw return modes in dryland farming

Short-Term Effects of Different Straw Returning Methods on the Soil Physicochemical Properties and Quality Index in Dryland Farming in NE China

Optimization of a Method for the Concentration of Genetic Material in Bacterial and Fungal Communities on Fresh Apple Peel Surfaces

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