Nelkner, Johanna; Henke, Christian; Lin, Timo Wentong; Pätzold, Wiebke; Hassa, Julia; Jaenicke, Sebastian; Grosch, Rita; Pühler, Alfred; Sczyrba, Alexander; Schlüter, Andreas: Effect of Long-Term Farming Practices on Agricultural Soil Microbiome Members Represented by Metagenomically Assembled Genomes (MAGs) and Their Predicted [...]. In: Genes. Jg.10 H. 6. 2019
Inhalt
- Introduction
- Materials and Methods
- Analyzed Soil Samples and Extraction of Total Microbial DNA
- Metagenome Library Preparation, Sequencing and Preprocessing of Sequencing Data
- Taxonomic and Functional Microbiome Analyses Based on Single Read Data
- Metagenome Assembly and Binning
- Functional Analyses of Obtained Metagenomically Assembled Genomes (MAGs)
- Detection of Differentially Abundant Features (DAFs)
- Sequence Submission to a Public Sequence Archive
- Results and Discussion
- Layout and Soil Cultivation Treatment Regime at the Long-Term Experimental Field Site (LTE-1) Located at Bernburg-Strenzfeld (Saxony-Anhalt, Germany)
- Unraveling the Soil Microbial Community Composition and Functional Potential of the LTE-1 Field Site Based on Metagenome Single Read Analyses
- Assembly of Metagenomic Reads Yielded Approx. 6.9 Mio. Genes Characterizing the LTE-1 Microbiome
- Binning of Metagenomically Assembled Contigs to Access the Most Prominent Genomes of the LTE-1 Soil Microbiome
- Functional Characterization of Bacterial MAGs
- A Predicted Methylotrophic Bacterium of the Order Rhizobiales Is Represented by MAG_13
- A Putative Plant-Growth-Promoting Pseudomonas Species Is Represented by MAG_11
- A Member of the Candidate Order ‘Unclassified Deltaproteobacteria’ Predicted to Encode the DOXP/MEP Isoprenoid Biosynthesis Pathway Is Represented by MAG_05
- A Putative Plant-Growth-Promoting Bacterium of the Family Bacillaceae Is Represented by MAG_08
- A Member of the Flavobacteriaceae Predicted to Decompose Complex Carbohydrates Is Represented by MAG_10
- A Member of the Phylum Acidobacteria Predicted to Be Versatile in Transport Activities and Carbohydrate Utilization Is Represented by MAG_14
- Functional Characterization of Archaeal MAGs
- Differentially Abundant MAGs of the Soil Microbiome in Relation to Tillage and Fertilization Regimes
- Conclusions
- References