skip to main content

Search for: All records

Creators/Authors contains: "DeAngelis, Kristen M."

Note: When clicking on a Digital Object Identifier (DOI) number, you will be taken to an external site maintained by the publisher. Some full text articles may not yet be available without a charge during the embargo (administrative interval).
What is a DOI Number?

Some links on this page may take you to non-federal websites. Their policies may differ from this site.

  1. Free, publicly-accessible full text available March 1, 2024
  2. Microbial-derived soil organic matter (SOM), or necromass, is an important source of SOM and is sensitive to climate warming. Soil classification systems consider soil physicochemical properties that influence SOM, hinting at the potential utility of incorporating classification systems in soil carbon (C) projections. Currently, there is no consensus on climate warming effects on necromass and if these responses vary across reference soil groups. To estimate the vulnerability of necromass to climate warming, we performed a meta-analysis of publications examining in situ experimental soil warming effects on microbial necromass via amino sugar analysis. We built generalized linear models (GLM) to explore if soil groups and warming methodologies can be used to predict necromass stocks. Our results showed that warming effect sizes on necromass were not uniform across reference soil groups. Specifically, warming effect sizes were generally positive in permafrost soils but negative in calcic soils. However, warming did not significantly change average necromass. Our GLMs detected significant differences in necromass across soil groups with similar texture and clay percentage. Thus, we advocate for further research to define what predictors of necromass are captured in soil group but not in soil texture. We also show warming methodology is a significant predictor ofmore »necromass, depending on the necromass biomarker. Future research efforts should uncover the mechanistic reason behind how passive versus active warming methodology influences necromass responses. Our study highlights the need for more in situ soil warming experiments measuring microbial necromass as this will improve predictions of SOM feedback under future climate scenarios.« less
    Free, publicly-accessible full text available September 23, 2023
  3. Free, publicly-accessible full text available September 1, 2023
  4. Rasko, David (Ed.)
    ABSTRACT We report the draft genome sequence of Leifsonia poae strain BS71. This bacterium was isolated from a low soil moisture content model soil microcosm inoculated with forest soil that had been subject to chronic warming.
  5. Rotaru, Amelia-Elena (Ed.)
    ABSTRACT Novel bacterial isolates with the capabilities of lignin depolymerization, catabolism, or both, could be pertinent to lignocellulosic biofuel applications. In this study, we aimed to identify anaerobic bacteria that could address the economic challenges faced with microbial-mediated biotechnologies, such as the need for aeration and mixing. Using a consortium seeded from temperate forest soil and enriched under anoxic conditions with organosolv lignin as the sole carbon source, we successfully isolated a novel bacterium, designated 159R. Based on the 16S rRNA gene, the isolate belongs to the genus Sodalis in the family Bruguierivoracaceae . Whole-genome sequencing revealed a genome size of 6.38 Mbp and a GC content of 55 mol%. To resolve the phylogenetic position of 159R, its phylogeny was reconstructed using (i) 16S rRNA genes of its closest relatives, (ii) multilocus sequence analysis (MLSA) of 100 genes, (iii) 49 clusters of orthologous groups (COG) domains, and (iv) 400 conserved proteins. Isolate 159R was closely related to the deadwood associated Sodalis guild rather than the tsetse fly and other insect endosymbiont guilds. Estimated genome-sequence-based digital DNA-DNA hybridization (dDDH), genome percentage of conserved proteins (POCP), and an alignment analysis between 159R and the Sodalis clade species further supported that isolate 159R wasmore »part of the Sodalis genus and a strain of Sodalis ligni . We proposed the name Sodalis ligni str. 159R (=DSM 110549 = ATCC TSD-177). IMPORTANCE Currently, in the paper industry, paper mill pulping relies on unsustainable and costly processes to remove lignin from lignocellulosic material. A greener approach is biopulping, which uses microbes and their enzymes to break down lignin. However, there are limitations to biopulping that prevent it from outcompeting other pulping processes, such as requiring constant aeration and mixing. Anaerobic bacteria are a promising alternative source for consolidated depolymerization of lignin and its conversion to valuable by-products. We presented Sodalis ligni str. 159R and its characteristics as another example of potential mechanisms that can be developed for lignocellulosic applications.« less
    Free, publicly-accessible full text available June 29, 2023
  6. Terrestrial ecosystems are an important carbon store, and this carbon is vulnerable to microbial degradation with climate warming. After 30 years of experimental warming, carbon stocks in a temperate mixed deciduous forest were observed to be reduced by 30% in the heated plots relative to the controls. In addition, soil respiration was seasonal, as was the warming treatment effect. We therefore hypothesized that long-term warming will have higher expressions of genes related to carbohydrate and lipid metabolism due to increased utilization of recalcitrant carbon pools compared to controls. Because of the seasonal effect of soil respiration and the warming treatment, we further hypothesized that these patterns will be seasonal. We used RNA sequencing to show how the microbial community responds to long-term warming (~30 years) in Harvard Forest, MA. Total RNA was extracted from mineral and organic soil types from two treatment plots (+5°C heated and ambient control), at two time points (June and October) and sequenced using Illumina NextSeq technology. Treatment had a larger effect size on KEGG annotated transcripts than on CAZymes, while soil types more strongly affected CAZymes than KEGG annotated transcripts, though effect sizes overall were small. Although, warming showed a small effect on overall CAZymesmore »expression, several carbohydrate-associated enzymes showed increased expression in heated soils (~68% of all differentially expressed transcripts). Further, exploratory analysis using an unconstrained method showed increased abundances of enzymes related to polysaccharide and lipid metabolism and decomposition in heated soils. Compared to long-term warming, we detected a relatively small effect of seasonal variation on community gene expression. Together, these results indicate that the higher carbohydrate degrading potential of bacteria in heated plots can possibly accelerate a self-reinforcing carbon cycle-temperature feedback in a warming climate.« less
  7. Dunning Hotopp, Julie C. (Ed.)
    ABSTRACT Here, we present the draft genome sequence of a novel species of the genus Singulisphaera (phylum Planctomycetes , family Isosphaeraceae ) isolated from soil. Singulisphaera sp. strain GP187 has a relatively large mobilome and numerous novel genes that may contribute to the production of bioactive molecules.
  8. Newton, Irene L. (Ed.)
    ABSTRACT Frankiaceae are bacterial endosymbionts that are also found free-living in soil. Here, we present the genome sequences of two novel bacterial members of the order Frankiales , class Actinobacteria , isolated from temperate terrestrial forest soils. The genomes for MT45 and GAS493 indicate a genetic capacity for carbohydrate degradation but not nitrogen fixation.