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Articles by Rolf Daniel
Spore type-specific gene expression profiles underlying development and leaf infection processes of Colletotrichum graminicola
Abstract Colletotrichum graminicola causes significant losses of the staple crop maize worldwide. The fungus produces two distinct asexual spore types, oval and falcate conidia, which show unique processes in development and plant interaction. Based on genome resequencing of our laboratory strain (CgM2/ M1.001), we investigated the gene expression profiles of oval and falcate conidia during development and early leaf infection using RNA-seq.
Methanol Metabolism in the Cytochrome and Menaquinone-Containing Acetogen Moorella thermoacetica
1 Introduction Acetogenic bacteria are a phylogenetically diverse group of strict anaerobs that use C1 compounds such as CO2, CO, formate or methyl groups to produce acetate (Drake et al. 2008). The main carbon pathway in these bacteria is the Wood-Ljungdahl pathway (WLP) (Wood et al. 1986). Briefly, the WLP consists of two separate branches: the methyl branch and the carbonyl branch and in each branch, one molecule of carbon dioxide is reduced (Ljungdahl 1986; Wood et al. 1986).
Genomic and Transcriptomic Insights Into the Autotrophic Metabolism on H 2 + CO 2 or CO of the Thermophilic Acetogenic Model Organism Moorella thermoacetica
1 Introduction Acetogenic bacteria are a specialised group of strictly anaerobic bacteria that use the Wood-Ljungdahl pathway (WLP) for CO2 fixation as their central metabolic pathway (Drake et al. 2008). CO2 is reduced to acetate with electrons derived from organic or inorganic electron donors (Drake et al. 2008; Schuchmann and Müller 2016). Briefly, the WLP has two branches, the methyl and the carbonyl branch (Ljungdahl 1986). In the methyl branch, CO2 is first reduced to formate.
A Cytochrome c‐Containing Periplasmic Nitrate Reductase in the Acetogen Sporomusa ovata
1 Introduction Acetogenic bacteria are a specialised group of strictly anaerobic bacteria characterised by their ability to reduce CO2 to acetate. CO2 fixation is catalysed by the Wood-Ljungdahl pathway (WLP), a two-branched linear pathway in which two molecules of CO2 are reduced and condensed with CoA to form acetyl-CoA, which is subsequently converted to acetyl-phosphate and then acetate (Drake et al. 2008; Ragsdale and Pierce 2008).
Redirecting electron flow in Acetobacterium woodii enables growth on CO and improves growth on formate - Nature Communications
Abstract Anaerobic, acetogenic bacteria are well known for their ability to convert various one-carbon compounds, promising feedstocks for a future, sustainable biotechnology, to products such as acetate and biofuels. The model acetogen Acetobacterium woodii can grow on CO2, formate or methanol, but not on carbon monoxide, an important industrial waste product. Since hydrogenases are targets of CO inhibition, here, we genetically delete the two [FeFe] hydrogenases HydA2 and HydBA in A. woodii.
Novel insights into phage biology of the pathogen Clostridioides difficile based on the active virome
Abstract The global pathogen Clostridioides difficile is a well-studied organism, and researchers work on unravelling its fundamental virulence mechanisms and biology. Prophages have been demonstrated to influence C. difficile toxin expression and contribute to the distribution of advantageous genes. All this underlines the importance of prophages in C. difficile virulence. Although several C.
A patchwork pathway of apparently recent origin enables degradation of the synthetic buffer compound TRIS in bacteria
Abstract The widely used synthetic buffer compound TRIS was long considered to be biologically inert. Herein, we describe the discovery of a complete bacterial degradation pathway for TRIS. By serendipity, a Pseudomonas strain was isolated from sewage sludge that was able to grow with TRIS as only carbon and nitrogen source. Genome and transcriptome analyses revealed two adjacent gene clusters embedded in a mobile genetic element on a conjugative plasmid to be involved in TRIS degradation.
Genome-based metabolic and phylogenomic analysis of the type strains of Terrisporobacter mayombei, Terrisporobacter petrolearius and Terrisporobacter glycolicus.
Abstract To date, three validly published type strains of the genus Terrisporobacter are covered by draft genome sequences, and the genes and pathway responsible for acetogenesis have not been analyzed. Here, we report complete genome sequences of the bacterial type strains Terrisporobacter petrolearius JCM 19845T, Terrisporobacter mayombei DSM 6539T and Terrisporobacter glycolicus DSM 1288T.
A patchwork pathway of apparently recent origin enables degradation of the synthetic buffer compound TRIS in bacteria
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Direct and culture-independent detection of low-abundant Clostridioides difficile in environmental DNA via PCR
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Pan-genome analysis of six complete Paracoccus type strain genomes from hybrid next generation sequencing
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Landscape heterogeneity and soil biota are central to multi-taxa diversity for oil palm landscape restoration - Communications Earth & Environment
Abstract Enhancing biodiversity in monoculture-dominated landscapes is a key sustainability challenge that requires considering the spatial organization of ecological communities (beta diversity). Here, we tested whether increasing landscape heterogeneity, through establishing 52 tree islands in an oil-palm landscape, is a suitable restoration strategy to enhance the diversity of six taxa (multi-taxa diversity).
Tree islands enhance biodiversity and functioning in oil palm landscapes - Nature
Abstract In the United Nations Decade on Ecosystem Restoration1, large knowledge gaps persist on how to increase biodiversity and ecosystem functioning in cash crop-dominated tropical landscapes2. Here, we present findings from a large-scale, 5-year ecosystem restoration experiment in an oil palm landscape enriched with 52 tree islands, encompassing assessments of ten indicators of biodiversity and 19 indicators of ecosystem functioning.
Search Results | Microbiology Society
1 - 5 of 5 for "Andreas Vilcinskas" Publication International Journal of Systematic and Evolutionary Microbiology (5) Keyword Acetobacteraceae (2) cockroach microbiota (2) Agromyces archimandritae (1) Archimandrita tesselata (1) Aristophania vespae (1) Corydidarum magnifica (1) Enterobacteriaceae (1) Enterococcaceae (1) Entomobacter blattae (1) Gromphadorhina portentosa (1) Hymenoptera (1) Lucilia sericata (1) Microbacteriaceae (1) Pseudocitrobacter corydidari (1) Vagococcus (1) cockroach...
Vagococcus luciliae sp. nov., isolated from the common green bottle fly Lucilia sericata
Abstract The genus Vagococcus belongs to the family Enterococcaceae (order Lactobacillales) and is closely related to the genus Enterococcus . Currently, 19 species of the genus have been validly named. In this study, we isolated strain G314FT from the common green bottle fly Lucilia sericata collected in Germany.
Mechanical weeding enhances ecosystem multifunctionality and profit in industrial oil palm - Nature Sustainability
Abstract Oil palm is the most productive oil crop, but its high productivity is associated with conventional management (that is, high fertilization rates and herbicide application), causing deleterious environmental impacts. Using a 22 factorial experiment, we assessed the effects of conventional vs reduced (equal to nutrients removed by fruit harvest) fertilization rates and herbicide vs mechanical weeding on ecosystem functions, biodiversity and profitability.
DNA uptake from a laboratory environment drives unexpected adaptation of a thermophile to a minor medium component - ISME Communications
Abstract DNA uptake is widespread among microorganisms and considered a strategy for rapid adaptation to new conditions. While both DNA uptake and adaptation are referred to in the context of natural environments, they are often studied in laboratories under defined conditions. For example, a strain of the thermophile Thermoanaerobacter kivui had been adapted to growth on high concentrations of carbon monoxide (CO).
Functional Metagenomics Reveals an Overlooked Diversity and Novel Features of Soil-Derived Bacterial Phosphatases and Phytases
Research Article | Applied and Environmental Science Genis Andrés Castillo Villamizar, Heiko Nacke, Marc Boehning, Kristin Herz, Rolf Daniel Daniel Barkan, Editor DOI: 10.1128/mBio.01966-18 ABSTRACT Phosphatases, including phytases, play a major role in cell metabolism, phosphorus cycle, biotechnology, and pathogenic processes. Nevertheless, their discovery by functional metagenomics is challenging.
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