#Microorganisms & Fungi #2017 – 2020
AntiRes (Contributing project)
Exploring a cradle of multi-resistant bacteria – antibiotic resistance in soil and its link to different land use types and intensities
Human pathogenic bacteria resistant to multiple classes of antibiotics pose risks to public health and are considered as one of the major global challenges within the 21st century. Some of the antibiotic resistance genes carried by these bacteria have been traced to soil origins and can potentially spread via e.g., groundwater or wildlife. In this project, the dynamics of soil’s antibiotic resistance pool will be analyzed along a wide array of land use types and intensities within the three Biodiversity Exploratories.
- To explore changes in antibiotic resistance gene abundance level associated with different land use practices and intensities..
- To investigate land use-induced changes in community profiles of antibiotic-resistant soil bacteria.
- Identification of land use-specific shifts in quantity and diversity of plasmids potentially allowing spread of antibiotic resistance.
- To discover antibiotic resistance genes and mechanisms in soils derived from hardly as well as intensively managed forest and grassland.
- Intensive land use in grassland, including organic fertilizer application and grazing, evokes elevated antibiotic resistance gene abundance levels in soil ecosystems.
- Forests and grasslands in all three Biodiversity Exploratories harbor soil bacteria resistant to multiple classes of antibiotics, but the abundance and diversity of these microorganisms show land use-specific shifts.
- The abundance of IncP-1 plasmids, contributing to spread of antibiotic resistance in soil ecosystems, is positively correlated with the grassland land use index (LUI).
- Genes encoding resistance to veterinary antibiotics are more diverse in intensively than in hardly managed grasslands.
To provide robust assessment of land use impacts on antibiotic resistance gene abundance levels, real-time quantitative PCR-based analysis of soil DNA derived from all grassland EPs and forest VIPs will be carried out. Land use-induced changes in community profiles of antibiotic-resistant soil bacteria are deciphered within a microcosm experiment, including assessment and quantification of bacterial community dynamics. Overall diversity of antibiotic resistance gene-harboring circular plasmids will be estimated by applying a long-read sequencing approach.
Moreover, function-based screening of previously constructed soil metagenomic libraries will be performed, to discover differences in richness of antibiotic resistance genes and mechanisms associated with land use intensity.
Willms I. M., Grote M., Kocatürk M., Singhoff L., Kraft A. A., Bolz S. H., Nacke H. (2021): Novel Soil-Derived Beta-Lactam, Chloramphenicol, Fosfomycin and Trimethoprim Resistance Genes Revealed by Functional Metagenomics. Antibiotics 10 (4), 378. doi: 10.3390/antibiotics10040378
More information:
doi.org
Willms I. M., Bolz S. H., Yuan J., Krafft L., Schneider D., Schöning I., Schrumpf M., Nacke H. (2021): The ubiquitous soil verrucomicrobial clade “Candidatus Udaeobacter” shows preferences for acidic pH. Environmental Microbiology Reports 13 (6), 878-883. doi: 10.1111/1758-2229.13006
More information:
doi.org
Die weltweit verbreiteten Bodenbakterien der Gruppe Candidatus Udaeobacter profitieren von der Freisetzung von Antibiotika
Willms I. M., Rudolph A. Y., Göschel I., Bolz S. H., Schneider D., Penone C., Poehlein A., Schöning I., Nacke H. (2020): Globally Abundant “Candidatus Udaeobacter” Benefits from Release of Antibiotics in Soil and Potentially Performs Trace Gas Scavenging. mSphere 5: e00186-20. doi: 10.1128/mSphere.00186-20
More information:
doi.org
Verbreitung von medizinisch relevanten Antibiotikaresistenzgenen und mobilen genetischen Elementen in Wald- und Grünlandböden
Willms I. M., Yuan J., Penone C., Goldmann K., Vogt J., Wubet T., Schöning I., Schrumpf M., Buscot F., Nacke H. (2020): Distribution of Medically Relevant Antibiotic Resistance Genes and Mobile Genetic Elements in Soils of Temperate Forests and Grasslands Varying in Land Use. Genes 11 (2), 150. doi: 10.3390/genes11020150
More information:
doi.org
Assessment of antibiotic resistance in soil and its link to different land use types and intensities
Bewertung von Antibiotikaresistenz im Boden und dessen Zusammenhang mit verschiedenen Landnutzungstypen und -intensitäten
Willms I. M. (2020): Assessment of antibiotic resistance in soil and its link to different land use types and intensities. Dissertation, University Göttingen
More information:
hdl.handle.net
Exploration of the multi-resistant Candidatus Udaeobacter and antibiotic resistance determinants across soils varying in land use history
Bolz S. H. (2020): Exploration of the multi-resistant Candidatus Udaeobacter and antibiotic resistance determinants across soils varying in land use history. Master thesis, University Göttingen
Entdeckung neuer Antibiotikaresistenzgene in Bodenmetagenomen aus Wald und Grünland
Willms I. M., Kamran A., Aßmann N. F., Krone D., Bolz S. H., Fiedler F., Nacke N. (2019): Discovery of novel antibiotic resistance determinants in forest and grassland soil metagenomes. Frontiers in Microbiology 10:460. doi: 10.3389/fmicb.2019.00460
More information:
doi.org
Antibiotic resistance gene abundance in soils varying in land-use and genome-based analysis of multi-resistant Candidatus Udaeobacter
Antibiotikaresistenzegenabundanz in Böden unterschiedlicher Landnutzung und genombasierte Analyse des multi-resistenten Candidatus Udaeobacter
Yuan J. (2019): Antibiotic resistance gene abundance in soils varying in land-use and genome-based analysis of multi-resistant Candidatus Udaeobacter. Master thesis, University Göttingen
Analyse von Antibiotikaresistenz-vermittelnden Genen und Genprodukten mikrobieller Gemeinschaften des Bodens
Kocatürk M. (2019): Analyse von Antibiotikaresistenz-vermittelnden Genen und Genprodukten mikrobieller Gemeinschaften des Bodens. Bachelor thesis, University Göttingen
Markergen-basierte Analyse von potentiell multiresistenten Vertretern der Chthoniobacterales in Bodenproben der Biodiversitäts-Exploratorien
Krafft L. (2019): Markergen-basierte Analyse von potentiell multiresistenten Vertretern der Chthoniobacterales in Bodenproben der Biodiversitäts-Exploratorien. Bachelor thesis, University Göttingen
Analyse bakterieller Gemeinschaften des Bodens nach Antibiotikabehandlung und Isolierung von potentiell multiresistenten Vertretern der Chthoniobacterales
Analysis of bacterial soil communities after antibiotic treatment and isolation of potentially multiresistant Chthoniobacterales represantatives
Göschel I. (2018): Analyse bakterieller Gemeinschaften des Bodens
nach Antibiotikabehandlung und
Isolierung von potentiell multiresistenten
Vertretern der Chthoniobacterales. Bachelor thesis, University Göttingen
Identification and characterization of antibiotic resistance genes derived from soil metagenomes
Identifizierung und Charakterisierung von Antibiotikaresistenzgenen in Bodenmetagenomen
Aßmann N.F. (2018): Identification and characterization of antibiotic resistance genes derived from soil metagenomes. Bachelor thesis, University Göttingen
Identification of novel antibiotic resistance genes in soils representing different land use types
Identifizierung von neuen Antibiotikaresistenzgenen in Böden unterschiedlicher Landnutzungstypen
Krone D. (2017): Identification of novel antibiotic resistance genes in soils representing different land use types. Bachelor thesis, University Göttingen
The effect of antibiotic treatment on bacterial communities in soils with different land use history
Die Auswirkungen von Antibiotikabehandlung auf die bakterielle Gemeinschaft in Böden mit unterschiedlicher Landnutzungshistorie
Rudolph A. (2017): The effect of antibiotic treatment on bacterial communities in soils with different land use history. Bachelor thesis, University Göttingen
Scientific assistants
