Modeling soil metabolic processes using isotopologue pairs of position-specific 13C-labeled glucose and pyruvate

Dijkstra, Paul; Dalder, Jacob J.; Selmants, Paul C.; Hart, Stephen C.; Koch, George; Schwartz, Egbert; Hungate, Bruce A.

doi:10.1016/j.soilbio.2011.05.001

Cited by 72 publications

(68 citation statements)

References 61 publications

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“…The potential for these storage compounds to be used in catabolic reactions producing CO 2 at some later stage after they have been synthesized may introduce bias into over estimating CUE values and might be responsible for some of the differences in the calculated CUEs for different metabolic phases. The average CUE for the monomeric substrate (glucose) used in this study was around 0.7 (with a range from 0.5 to 0.9), being relatively high but still consistent with results obtained in previous studies on soil microorganisms utilizing glucose (CUE = 0.4 to 0.8; Dijkstra et al 2011a;Frey et al 2013;Shields et al 1973;Thiet et al 2006). The production of C1(β) polymeric carbohydrates ( i.e.…”

Section: Discussionsupporting

confidence: 90%

“…Empirical investigations into the relationship between CUE and the quality of the available organic material have primarily focused on feeding soil microorganisms with different carbon monomers (Dijkstra et al 2011a;Drotz et al 2010a;Frey et al 2013;Shields et al 1973) rather than carbon polymers. Because monomers can be taken up directly into the cell without the involvement of extracellular enzymes, which are required to degrade polymers, the CUE for the decomposition of monomers can be expected to be higher than for polymers.…”

Section: Introductionmentioning

confidence: 99%

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The effect of temperature and substrate quality on the carbon use efficiency of saprotrophic decomposition

et al. 2016

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Background and aims Mineralization of soil organic matter (SOM) constitutes a major carbon flux to the atmosphere. The carbon use efficiency (CUE) of the saprotrophic microorganisms mineralizing SOM is integral for soil carbon dynamics. Here we investigate how the CUE is affected by temperature, metabolic conditions, and the molecular complexity of the substrate. Methods We incubated O-horizon soil samples (with either 13 C-glucose or 13 C-cellulose) from a boreal coniferous forest at 4, 9, 14, and 19°C, and calculated CUEs based on the amount of 13 C-CO 2 and 13 C-labelled microbial biomass produced. The effects of substrate, temperature, and metabolic conditions (representing unlimited substrate supply and substrate limitation) on CUE were evaluated. Results CUE from metabolizing glucose was higher as compared to cellulose. A slight decrease in CUE with increasing temperature was observed in glucose amended samples (but only in the range 9-19°C), but not in cellulose amended samples. CUE differed significantly with metabolic conditions, i.e. CUE was higher during unlimited growth conditions as compared to conditions with substrate limitation. Conclusions We conclude that it is integral to account for both differences in CUE during different metabolic phases, as well as complexity of substrate, when interpreting temperature dependence on CUE in incubation studies.

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Section: Discussionsupporting

confidence: 90%

Section: Introductionmentioning

confidence: 99%

The effect of temperature and substrate quality on the carbon use efficiency of saprotrophic decomposition

et al. 2016

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“…However, most studies to date have been comparative and direct evidence to support this hypothesis is scarce (Bailey et al, 2002;Malik et al, 2016). This hypothesised relationship has commonly been attributed to a higher growth yield efficiency of fungi relative to bacteria, although studies have shown significant overlap between the two (Dijkstra et al, 2011;Six et al, 2006;Thiet et al, 2006). Fungi are also assumed to have longer rates of biomass turnover and thus residence time of C, Baath, 2007a, 2007b), and more recalcitrant necromass relative to bacteria (Guggenberger et al, 1999;Li et al, 2015).…”

Section: Potential Implications For Carbon Cycling and Storagementioning

confidence: 99%

Functional differences in the microbial processing of recent assimilates under two contrasting perennial bioenergy plantations

Elias

Rowe

Pereira

et al. 2017

Soil Biology and Biochemistry

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a b s t r a c tLand use change driven alteration of microbial communities can have implications on belowground C cycling and storage, although our understanding of the interactions between plant C inputs and soil microbes is limited. Using phospholipid fatty acids (PLFA's) we profiled the microbial communities under two contrasting UK perennial bioenergy crops, Short Rotation Coppice (SRC) willow and Miscanthus Giganteus (miscanthus), and used Functional differences in microbial communities were highlighted by contrasting processing of labelled C. SRC willow allocated 44% of total 13 C detected into fungal PLFA relative to 9% under miscanthus and 380% more 13 C was returned to the atmosphere in soil respiration from SRC willow soil compared to miscanthus. Our findings elucidate the roles that bacteria and fungi play in the turnover of recent plant derived C under these two perennial bioenergy crops, and provide important evidence on the impacts of land use change to bioenergy on microbial community composition. Crown

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“…Microbes metabolize a wide variety of compounds to satisfy heterotrophic demands for carbon (C) and energy, thereby influencing the accumulation/loss dynamics of soil organic matter stocks and ecosystem carbon dioxide efflux (Frey et al 2013;Karhu et al 2014). CUE is therefore an important concept for understanding the future trajectory of soil-climate feedbacks, recognition of which has led to recent reviews of the topic (Manzoni et al 2012;Sinsabaugh et al 2013), application in ecosystem models (Wang et al 2013;Allison 2014;Wieder et al 2014), and the development of new methods to estimate microbial efficiency in environmental samples (Blazewicz and Schwartz 2011;Dijkstra et al 2011b;Herrmann et al 2014). However, progress in this field is hampered by chronic issues symptomatic of a divide among research approaches and disciplinespecific terminologies.…”

Section: Introductionmentioning

confidence: 99%

Microbial carbon use efficiency: accounting for population, community, and ecosystem-scale controls over the fate of metabolized organic matter

et al. 2016

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Microbial carbon use efficiency (CUE) is a critical regulator of soil organic matter dynamics and terrestrial carbon fluxes, with strong implications for soil biogeochemistry models. While ecologists increasingly appreciate the importance of CUE, its core concepts remain ambiguous: terminology is inconsistent and confusing, methods capture variable temporal and spatial scales, and the significance of many fundamental drivers remains inconclusive. Here we outline the processes underlying microbial efficiency and propose a conceptual framework that structures the definition of CUE according to increasingly broad temporal and spatial drivers where (1) CUE P reflects population-scale carbon use efficiency of microbes governed by species-specific metabolic and thermodynamic constraints, (2) CUE C defines community-scale microbial efficiency as gross biomass production per unit substrate taken up over short time scales, largely excluding recycling of microbial necromass and exudates, and (3) CUE E reflects the ecosystem-scale efficiency of net microbial biomass production (growth) per unit substrate taken up as iterative breakdown and recycling of microbial products occurs. CUE E integrates all internal and extracellular constraints on CUE and hence embodies an ecosystem perspective that fully captures all drivers of microbial biomass synthesis and decay. These three definitions are distinct yet complementary, capturing the capacity for carbon storage in microbial biomass across different ecological scales. By unifying the existing concepts and terminology underlying microbial efficiency, our framework enhances data interpretation and theoretical advances.

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Modeling soil metabolic processes using isotopologue pairs of position-specific 13C-labeled glucose and pyruvate

Cited by 72 publications

References 61 publications

The effect of temperature and substrate quality on the carbon use efficiency of saprotrophic decomposition

The effect of temperature and substrate quality on the carbon use efficiency of saprotrophic decomposition

Functional differences in the microbial processing of recent assimilates under two contrasting perennial bioenergy plantations

Microbial carbon use efficiency: accounting for population, community, and ecosystem-scale controls over the fate of metabolized organic matter

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