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1. Exploring Trait Trade-Offs for Fungal Decomposers in a Southern California Grassland

   https://doi.org/10.3389/fmicb.2021.655987  

   Alster, Charlotte J.; Allison, Steven D.; Glassman, Sydney I.; Martiny, Adam C.; Treseder, Kathleen K. (April 2021, Frontiers in Microbiology)

   null (Ed.)

   Fungi are important decomposers in terrestrial ecosystems, so their responses to climate change might influence carbon (C) and nitrogen (N) dynamics. We investigated whether growth and activity of fungi under drought conditions were structured by trade-offs among traits in 15 fungal isolates from a Mediterranean Southern California grassland. We inoculated fungi onto sterilized litter that was incubated at three moisture levels (4, 27, and 50% water holding capacity, WHC). For each isolate, we characterized traits that described three potential lifestyles within the newly proposed “YAS” framework: growth yield, resource acquisition, and stress tolerance. Specifically, we measured fungal hyphal length per unit litter decomposition for growth yield; the potential activities of the extracellular enzymes cellobiohydrolase (CBH), β -glucosidase (BG), β -xylosidase (BX), and N-acetyl- β - D -glucosaminidase (NAG) for resource acquisition; and ability to grow in drought vs. higher moisture levels for drought stress tolerance. Although, we had hypothesized that evolutionary and physiological trade-offs would elicit negative relationships among traits, we found no supporting evidence for this hypothesis. Across isolates, growth yield, drought stress tolerance, and extracellular enzyme activities were not significantly related to each other. Thus, it is possible that drought-induced shifts in fungal community composition may not necessarily lead to changes in fungal biomass or decomposer ability in this arid grassland. 

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2. Phenotypic plasticity of fungal traits in response to moisture and temperature

   https://doi.org/10.1038/s43705-021-00045-9  

   Alster, Charlotte J.; Allison, Steven D.; Johnson, Nels G.; Glassman, Sydney I.; Treseder, Kathleen K. (August 2021, ISME Communications)

   Abstract Phenotypic plasticity of traits is commonly measured in plants to improve understanding of organismal and ecosystem responses to climate change but is far less studied for microbes. Specifically, decomposer fungi are thought to display high levels of phenotypic plasticity and their functions have important implications for ecosystem dynamics. Assessing the phenotypic plasticity of fungal traits may therefore be important for predicting fungal community response to climate change. Here, we assess the phenotypic plasticity of 15 fungal isolates (12 species) from a Southern California grassland. Fungi were incubated on litter at five moisture levels (ranging from 4–50% water holding capacity) and at five temperatures (ranging from 4–36 °C). After incubation, fungal biomass and activities of four extracellular enzymes (cellobiohydrolase (CBH), β-glucosidase (BG), β-xylosidase (BX), and N-acetyl-β-D-glucosaminidase (NAG)) were measured. We used response surface methodology to determine how fungal phenotypic plasticity differs across the moisture-temperature gradient. We hypothesized that fungal biomass and extracellular enzyme activities would vary with moisture and temperature and that the shape of the response surface would vary between fungal isolates. We further hypothesized that more closely related fungi would show more similar response surfaces across the moisture-temperature gradient. In support of our hypotheses, we found that plasticity differed between fungi along the temperature gradient for fungal biomass and for all the extracellular enzyme activities. Plasticity also differed between fungi along the moisture gradient for BG activity. These differences appear to be caused by variation mainly at the moisture and temperature extremes. We also found that more closely related fungi had more similar extracellular enzymes activities at the highest temperature. Altogether, this evidence suggests that with global warming, fungal biodiversity may become increasingly important as functional traits tend to diverge along phylogenetic lines at higher temperatures. 

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3. Clay soil amendment suppressed microbial enzymatic activities while increasing nitrogen availability in sandy soils

   https://doi.org/10.1002/saj2.20731  

   Poudel, Pratima; Ye, Rongzhong; Parajuli, Binaya (July 2024, Soil Science Society of America Journal)

   Abstract Conservation management practices often produced positive but limited desirable outcomes in US Southeast sandy soils, likely due to their intrinsically low clay contents that constrain the soil's capacity to preserve organic carbon (C) and nutrients. In the field, we tested the effectiveness of a novel approach, that is, clay soil amendment, to improve sandy soils. In October 2017, clay‐rich soils (25% clay) were spread at 25 metric tons ha⁻¹ and tilled onto a sandy soil (1.9% clay) in the field, which was further mixed by light tillage at 0‐ to 15‐cm depth, followed by planting winter cover crop mixtures (cereal rye, crimson clover, and winter pea). The crop rotation was cotton and corn with cover crop mixtures planted in the winter fallow season. Soils (0–15 cm) were collected in August 2021 and subjected to physio‐biochemical analyses. Clay amendment increased soil clay content to 3.4%, which improved nitrogen (N) availability by 51% but inhibited the activities of C (β‐d‐cellubiosidase [CB]; β‐xylosidase [BX];N‐acetyl‐β‐glucosaminidase [NAG]) and N (leucine aminopeptidase [LAP]) cycling enzymes, resulting in up to 78% reduction in microbial respiration. A follow‐up kinetic study on BG and LAP enzymes suggested that clay addition can have different impacts on enzymes with diverse biological origins through distinct mechanisms. Clay addition can potentially improve sandy soils by stabilizing the organic inputs in soils. However, more research is required to understand its long‐term impacts making this approach practical. 

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4. Kinetics and Identities of Extracellular Peptidases in Subsurface Sediments of the White Oak River Estuary, North Carolina

   https://doi.org/10.1128/aem.00102-19  

   Steen, Andrew D.; Kevorkian, Richard T.; Bird, Jordan T.; Dombrowski, Nina; Baker, Brett J.; Hagen, Shane M.; Mulligan, Katherine H.; Schmidt, Jenna M.; Webber, Austen T.; Royalty, Taylor M.; et al (October 2019, Applied and Environmental Microbiology)

   ABSTRACT Anoxic subsurface sediments contain communities of heterotrophic microorganisms that metabolize organic carbon at extraordinarily low rates. In order to assess the mechanisms by which subsurface microorganisms access detrital sedimentary organic matter, we measured kinetics of a range of extracellular peptidases in anoxic sediments of the White Oak River Estuary, NC. Nine distinct peptidase substrates were enzymatically hydrolyzed at all depths. Potential peptidase activities ( V max ) decreased with increasing sediment depth, although V max expressed on a per-cell basis was approximately the same at all depths. Half-saturation constants ( K m ) decreased with depth, indicating peptidases that functioned more efficiently at low substrate concentrations. Potential activities of extracellular peptidases acting on molecules that are enriched in degraded organic matter ( d -phenylalanine and l -ornithine) increased relative to enzymes that act on l -phenylalanine, further suggesting microbial community adaptation to access degraded organic matter. Nineteen classes of predicted, exported peptidases were identified in genomic data from the same site, of which genes for class C25 (gingipain-like) peptidases represented more than 40% at each depth. Methionine aminopeptidases, zinc carboxypeptidases, and class S24-like peptidases, which are involved in single-stranded-DNA repair, were also abundant. These results suggest a subsurface heterotrophic microbial community that primarily accesses low-quality detrital organic matter via a diverse suite of well-adapted extracellular enzymes. IMPORTANCE Burial of organic carbon in marine and estuarine sediments represents a long-term sink for atmospheric carbon dioxide. Globally, ∼40% of organic carbon burial occurs in anoxic estuaries and deltaic systems. However, the ultimate controls on the amount of organic matter that is buried in sediments, versus oxidized into CO 2 , are poorly constrained. In this study, we used a combination of enzyme assays and metagenomic analysis to identify how subsurface microbial communities catalyze the first step of proteinaceous organic carbon degradation. Our results show that microbial communities in deeper sediments are adapted to access molecules characteristic of degraded organic matter, suggesting that those heterotrophs are adapted to life in the subsurface. 

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5. Effects of nitrogen fertilization and bioenergy crop species on central tendency and spatial heterogeneity of soil glycosidase activities

   https://doi.org/10.1038/s41598-020-76837-1  

   Yuan, Min; Duan, Jianjun; Li, Jianwei; Jian, Siyang; Gamage, Lahiru; Dzantor, Kudjo E.; Hui, Dafeng; Fay, Philip A. (December 2020, Scientific Reports)

   null (Ed.)

   Abstract Extracellular glycosidases in soil, produced by microorganisms, act as major agents for decomposing labile soil organic carbon (e.g., cellulose). Soil extracellular glycosidases are significantly affected by nitrogen (N) fertilization but fertilization effects on spatial distributions of soil glycosidases have not been well addressed. Whether the effects of N fertilization vary with bioenergy crop species also remains unclear. Based on a 3-year fertilization experiment in Middle Tennessee, USA, a total of 288 soil samples in topsoil (0–15 cm) were collected from two 15 m 2 plots under three fertilization treatments in switchgrass (SG: Panicum virgatum L.) and gamagrass (GG: Tripsacum dactyloides L.) using a spatially explicit design. Four glycosidases, α-glucosidase ( AG ), β-glucosidase ( BG ), β-xylosidase ( BX ), cellobiohydrolase ( CBH ), and their sum associated with C acquisition ( C acq ) were quantified. The three fertilization treatments were no N input (NN), low N input (LN: 84 kg N ha −1  year −1 in urea) and high N input (HN: 168 kg N ha −1  year −1 in urea). The descriptive and geostatistical approaches were used to evaluate their central tendency and spatial heterogeneity. Results showed significant interactive effects of N fertilization and crop type on BX such that LN and HN significantly enhanced BX by 14% and 44% in SG, respectively. The significant effect of crop type was identified and glycosidase activities were 15–39% higher in GG than those in SG except AG . Within-plot variances of glycosidases appeared higher in SG than GG but little differed with N fertilization due to large plot-plot variation. Spatial patterns were generally more evident in LN or HN plots than NN plots for BG in SG and CBH in GG. This study suggested that N fertilization elevated central tendency and spatial heterogeneity of glycosidase activities in surficial soil horizons and these effects however varied with crop and enzyme types. Future studies need to focus on specific enzyme in certain bioenergy cropland soil when N fertilization effect is evaluated. 

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