Abundance, classification and genetic potential of Thaumarchaeota in metagenomes of European agricultural soils: a meta-analysis.

Background: For a sustainable production of food, research on agricultural soil microbial communities is inevitable. Due to its immense complexity, soil is still some kind of black box. Soil study designs for identifying microbiome members of relevance have various scopes and focus on particular environmental factors.

The novel oligopeptide utilizing species M3/9, its role in anaerobic digestion and occurrence as deduced from large-scale fragment recruitment analyses.

Research on biogas-producing microbial communities aims at elucidation of correlations and dependencies between the anaerobic digestion (AD) process and the corresponding microbiome composition in order to optimize the performance of the process and the biogas output. Previously, species were frequently detected in mesophilic to moderately thermophilic biogas reactors. To analyze adaptive genome features of a representative strain, M3/9 was isolated from a mesophilic laboratory-scale biogas plant and its genome was sequenced and analyzed in detail.

Adaptation of a microbial community to demand-oriented biological methanation.

Background: Biological conversion of the surplus of renewable electricity and carbon dioxide (CO) from biogas plants to biomethane (CH) could support energy storage and strengthen the power grid. Biological methanation (BM) is linked closely to the activity of biogas-producing Bacteria and methanogenic Archaea. During reactor operations, the microbiome is often subject to various changes, e.

Effect of Growth Media on the Diversity of from Non-Rumen Habitats.

Anaerobic fungi (AF), belonging to the phylum are a pivotal component of the digestive tract microbiome of various herbivorous animals. In the last decade, the diversity of AF has rapidly expanded due to the exploration of numerous (novel) habitats. Studies aiming at understanding the role of AF require robust and reliable isolation and cultivation techniques, many of which remained unchanged for decades.

Simultaneous Metabarcoding and Quantification of from Environmental Samples: Insights into Community Composition and Novel Lineages.

Anaerobic fungi from the herbivore digestive tract () are primary lignocellulose modifiers and hold promise for biotechnological applications. Their molecular detection is currently difficult due to the non-specificity of published primer pairs, which impairs evolutionary and ecological research with environmental samples. We developed and validated a -specific PCR primer pair targeting the D2 region of the ribosomal large subunit suitable for screening, quantifying, and sequencing.

Phage Genome Diversity in a Biogas-Producing Microbiome Analyzed by Illumina and Nanopore GridION Sequencing.

The microbial biogas network is complex and intertwined, and therefore relatively stable in its overall functionality. However, if key functional groups of microorganisms are affected by biotic or abiotic factors, the entire efficacy may be impaired. Bacteriophages are hypothesized to alter the steering process of the microbial network.

gen. nov., sp. nov., a new member of the family , isolated from a maize-fed biogas fermenter.

Strain MD1 is an anaerobic, Gram-stain-negative bacterium isolated from a lab-scale biogas fermenter fed with maize silage. It has a rod-shaped morphology with peritrichously arranged appendages and forms long chains of cells and coccoid structures. The colonies of MD1 were white, circular, slightly convex and had a smooth rim.

Identification of Beneficial Microbial Consortia and Bioactive Compounds with Potential as Plant Biostimulants for a Sustainable Agriculture.

A growing body of evidence demonstrates the potential of various microbes to enhance plant productivity in cropping systems although their successful field application may be impaired by several biotic and abiotic constraints. In the present work, we aimed at developing multifunctional synthetic microbial consortia to be used in combination with suitable bioactive compounds for improving crop yield and quality. Plant growth-promoting microorganisms (PGPMs) with different functional attributes were identified by a bottom-up approach.

The Role of ING2-E5A in Mesophilic Biogas Reactor Systems as Deduced from Multiomics Analyses.

Members of the genera and were speculated to represent indicators reflecting process instability within anaerobic digestion (AD) microbiomes. Therefore, ING2-E5A was isolated from a biogas reactor sample and sequenced on the PacBio and Illumina MiSeq sequencers. Phylogenetic classification positioned the strain ING2-E5A in close proximity to and species (family Dysgonomonadaceae).

Analyzing large scale genomic data on the cloud with Sparkhit.

Motivation: The increasing amount of next-generation sequencing data poses a fundamental challenge on large scale genomic analytics. Existing tools use different distributed computational platforms to scale-out bioinformatics workloads. However, the scalability of these tools is not efficient.

Fast Physically Correct Refocusing for Sparse Light Fields Using Block-Based Multi-Rate View Interpolation.

Digital refocusing has a tradeoff between complexity and quality when using sparsely sampled light fields for low-storage applications. In this paper, we propose a fast physically correct refocusing algorithm to address this issue in a twofold way. First, view interpolation is adopted to provide photorealistic quality at infocus-defocus hybrid boundaries.

[Detection of Angiostrongylus cantonensis larvae with a high resolution melt PCR assay].

Objective: To develop a detection method of the third-stage larvae of Angiostrongylus cantonensis by real-time PCR and high-resolution melt curve analysis.

Methods: A pair of specific primers was designed based on the internal transcribed spacer 1 (ITS1) region of the nuclear ribosomal DNA of A. cantonensis.

Methamphetamine induces alterations in the long non-coding RNAs expression profile in the nucleus accumbens of the mouse.

Background: Repeated exposure to addictive drugs elicits long-lasting cellular and molecular changes. It has been reported that the aberrant expression of long non-coding RNAs (lncRNAs) is involved in cocaine and heroin addiction, yet the expression profile of lncRNAs and their potential effects on methamphetamine (METH)-induced locomotor sensitization are largely unknown.

Results: Using high-throughput strand-specific complementary DNA sequencing technology (ssRNA-seq), here we examined the alterations in the lncRNAs expression profile in the nucleus accumbens (NAc) of METH-sensitized mice.