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- ItemComplete genome sequence of a new clostridium sp. isolated from anaerobic digestion and biomethanation(Washington, DC : American Society for Microbiology, 2020) Hahnke, Sarah; Abendroth, Christian; Pascual, Javier; Langer, Thomas; Ramm, Patrice; Klocke, Michael; Luschnig, Olaf; Porcar, ManuelHere, we present the genome sequence and annotation of the bacterial strain HV4-5-A1G, a potentially new Clostridium species. Based on its genomic data, this strain may act as a keystone microorganism in the hydrolysis of complex polymers, as well as in the different acidogenesis and acetogenesis steps during anaerobic digestion. Ā© 2020 Hahnke et al.
- ItemComplete Genome Sequence of a New Ruminococcaceae Bacterium Isolated from Anaerobic Biomass Hydrolysis(Washington, DC : American Soc. for Microbiology, 2018) Hahnke, Sarah; Abendroth, Christian; Langer, Thomas; CodoƱer, Francisco M.; Ramm, Patrice; Porcar, Manuel; Luschnig, Olaf; Klocke, MichaelA new Ruminococcaceae bacterium, strain HV4-5-B5C, participating in the anaerobic digestion of grass, was isolated from a mesophilic two-stage laboratoryscale leach bed biogas system. The draft annotated genome sequence presented in this study and 16S rRNA gene sequence analysis indicated the affiliation of HV4-5- B5C with the family Ruminococcaceae outside recently described genera. Ā© 2018 Hahnke et al.
- ItemGlobal data on earthworm abundance, biomass, diversity and corresponding environmental properties(London : Nature Publ. Group, 2021) Phillips, Helen R. P.; Bach, Elizabeth M.; Bartz, Marie L. C.; Bennett, Joanne M.; Beugnon, RĆ©my; Briones, Maria J. I.; Brown, George G.; Ferlian, Olga; Gongalsky, Konstantin B.; Guerra, Carlos A.; Kƶnig-Ries, Birgitta; LĆ³pez-HernĆ”ndez, Danilo; Loss, Scott R.; Marichal, Raphael; Matula, Radim; Minamiya, Yukio; Moos, Jan Hendrik; Moreno, Gerardo; MorĆ³n-RĆos, Alejandro; Motohiro, Hasegawa; Muys, Bart; Krebs, Julia J.; Neirynck, Johan; Norgrove, Lindsey; Novo, Marta; Nuutinen, Visa; Nuzzo, Victoria; Mujeeb Rahman, P.; Pansu, Johan; Paudel, Shishir; PĆ©rĆØs, GuĆ©nola; PĆ©rez-Camacho, Lorenzo; Orgiazzi, Alberto; Ponge, Jean-FranƧois; Prietzel, Jƶrg; Rapoport, Irina B.; Rashid, Muhammad Imtiaz; Rebollo, Salvador; RodrĆguez, Miguel Ć.; Roth, Alexander M.; Rousseau, Guillaume X.; Rozen, Anna; Sayad, Ehsan; Ramirez, Kelly S.; van Schaik, Loes; Scharenbroch, Bryant; Schirrmann, Michael; Schmidt, Olaf; Schrƶder, Boris; Seeber, Julia; Shashkov, Maxim P.; Singh, Jaswinder; Smith, Sandy M.; Steinwandter, Michael; Russell, David J.; Szlavecz, Katalin; Talavera, JosĆ© Antonio; Trigo, Dolores; Tsukamoto, Jiro; Uribe-LĆ³pez, Sheila; de ValenƧa, Anne W.; Virto, IƱigo; Wackett, Adrian A.; Warren, Matthew W.; Webster, Emily R.; Schwarz, Benjamin; Wehr, Nathaniel H.; Whalen, Joann K.; Wironen, Michael B.; Wolters, Volkmar; Wu, Pengfei; Zenkova, Irina V.; Zhang, Weixin; Cameron, Erin K.; Eisenhauer, Nico; Wall, Diana H.; Brose, Ulrich; DecaĆ«ns, Thibaud; Lavelle, Patrick; Loreau, Michel; Mathieu, JĆ©rĆ“me; Mulder, Christian; van der Putten, Wim H.; Rillig, Matthias C.; Thakur, Madhav P.; de Vries, Franciska T.; Wardle, David A.; Ammer, Christian; Ammer, Sabine; Arai, Miwa; Ayuke, Fredrick O.; Baker, Geoff H.; Baretta, Dilmar; Barkusky, Dietmar; BeausĆ©jour, Robin; Bedano, Jose C.; Birkhofer, Klaus; Blanchart, Eric; Blossey, Bernd; Bolger, Thomas; Bradley, Robert L.; Brossard, Michel; Burtis, James C.; Capowiez, Yvan; Cavagnaro, Timothy R.; Choi, Amy; Clause, Julia; Cluzeau, Daniel; Coors, Anja; Crotty, Felicity V.; Crumsey, Jasmine M.; DĆ”valos, Andrea; CosĆn, DarĆo J. DĆaz; Dobson, Annise M.; DomĆnguez, AnahĆ; Duhour, AndrĆ©s Esteban; van Eekeren, Nick; Emmerling, Christoph; Falco, Liliana B.; FernĆ”ndez, Rosa; Fonte, Steven J.; Fragoso, Carlos; Franco, AndrĆ© L. C.; Fusilero, Abegail; Geraskina, Anna P.; Gholami, Shaieste; GonzĆ”lez, Grizelle; Gundale, Michael J.; LĆ³pez, MĆ³nica GutiĆ©rrez; Hackenberger, Branimir K.; Hackenberger, Davorka K.; HernĆ”ndez, Luis M.; Hirth, Jeff R.; Hishi, Takuo; Holdsworth, Andrew R.; Holmstrup, Martin; Hopfensperger, Kristine N.; Lwanga, Esperanza Huerta; Huhta, Veikko; Hurisso, Tunsisa T.; Iannone, Basil V.; Iordache, Madalina; Irmler, Ulrich; Ivask, Mari; JesĆŗs, Juan B.; Johnson-Maynard, Jodi L.; Joschko, Monika; Kaneko, Nobuhiro; Kanianska, Radoslava; Keith, Aidan M.; Kernecker, Maria L.; KonĆ©, Armand W.; Kooch, Yahya; Kukkonen, Sanna T.; Lalthanzara, H.; Lammel, Daniel R.; Lebedev, Iurii M.; Le Cadre, Edith; Lincoln, Noa K.Earthworms are an important soil taxon as ecosystem engineers, providing a variety of crucial ecosystem functions and services. Little is known about their diversity and distribution at large spatial scales, despite the availability of considerable amounts of local-scale data. Earthworm diversity data, obtained from the primary literature or provided directly by authors, were collated with information on site locations, including coordinates, habitat cover, and soil properties. Datasets were required, at a minimum, to include abundance or biomass of earthworms at a site. Where possible, site-level species lists were included, as well as the abundance and biomass of individual species and ecological groups. This global dataset contains 10,840 sites, with 184 species, from 60 countries and all continents except Antarctica. The data were obtained from 182 published articles, published between 1973 and 2017, and 17 unpublished datasets. Amalgamating data into a single global database will assist researchers in investigating and answering a wide variety of pressing questions, for example, jointly assessing aboveground and belowground biodiversity distributions and drivers of biodiversity change.
- ItemFunctional relationship of particulate matter (PM) emissions, animal species, and moisture content during manure application(Amsterdam [u.a.] : Elsevier Science, 2020) Kabelitz, Tina; Ammon, Christian; Funk, Roger; MĆ¼nch, Steffen; Biniasch, Oliver; NĆ¼bel, Ulrich; Thiel, Nadine; Rƶsler, Uwe; Siller, Paul; Amon, Barbara; Aarnink, AndrĆ© J.A.; Amon, ThomasLivestock manure is recycled to agricultural land as organic fertilizer. Due to the extensive usage of antibiotics in conventional animal farming, antibiotic-resistant bacteria are highly prevalent in feces and manure. The spread of wind-driven particulate matter (PM) with potentially associated harmful bacteria through manure application may pose a threat to environmental and human health. We studied whether PM was aerosolized during the application of solid and dried livestock manure and the functional relationship between PM release, manure dry matter content (DM), treatment and animal species. In parallel, manure and resulting PM were investigated for the survival of pathogenic and antibiotic-resistant bacterial species. The results showed that from manure with a higher DM smaller particles were generated and more PM was emitted. A positive correlation between manure DM and PM aerosolization rate was observed. There was a species-dependent critical dryness level (poultry: 60% DM, pig: 80% DM) where manure began to release PM into the environment. The maximum PM emission potentials were 1 and 3āÆkgāÆtā1 of applied poultry and pig manure, respectively. Dried manure and resulting PM contained strongly reduced amounts of investigated pathogenic and antibiotic-resistant microorganisms compared to fresh samples. An optimal manure DM regarding low PM emissions and reduced pathogen viability was defined from our results, which was 55ā70% DM for poultry manure and 75ā85% DM for pig manure. The novel findings of this study increase our detailed understanding and basic knowledge on manure PM emissions and enable optimization of manure management, aiming a manure DM that reduces PM emissions and pathogenic release into the environment.
- ItemHave wind turbines in Germany generated electricity as would be expected from the prevailing wind conditions in 2000-2014?(San Francisco, Ca. : PLOS, 2019) Germer, Sonja; Kleidon, AxelThe planning of the energy transition from fossil fuels to renewables requires estimates for how much electricity wind turbines can generate from the prevailing atmospheric conditions. Here, we estimate monthly ideal wind energy generation from datasets of wind speeds, air density and installed wind turbines in Germany and compare these to reported actual yields. Both yields were used in a statistical model to identify and quantify factors that reduced actual compared to ideal yields. The installed capacity within the region had no significant influence. Turbine age and park size resulted in significant yield reductions. Predicted yields increased from 9.1 TWh/a in 2000 to 58.9 TWh/a in 2014 resulting from an increase in installed capacity from 5.7 GW to 37.6 GW, which agrees very well with reported estimates for Germany. The age effect, which includes turbine aging and possibly other external effects, lowered yields from 3.6 to 6.7% from 2000 to 2014. The effect of park size decreased annual yields by 1.9% throughout this period. However, actual monthly yields represent on average only 73.7% of the ideal yields, with unknown causes. We conclude that the combination of ideal yields predicted from wind conditions with observed yields is suitable to derive realistic estimates of wind energy generation as well as realistic resource potentials. Ā© 2019 Germer, Kleidon. This is an open access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are credited.
- ItemOccupational health and safety in agriculture ā a brief report on organization, legislation and support in selected European countries(Lublin : Institute of Agricultural Medicine, 2021) Jakob, Martina Carola; Santa, Dushica; Holte, Kari Anne; Sikkeland, Inger Johanne; Hilt, Bjorn; Lundqvist, PeterIntroduction and objective: Agriculture and forestry are among the most dangerous professions in Europe, with a high level of accidents affecting the sustainability and viability of the sector. International conventions, EU directives and national legislation build the fundamental basis for prevention. The aim of the study is to describe and categorize national mechanisms of occupational safety and health (OSH) for agricultural workers in Europe, to assess the extent of implementing safety regulation, the body in charge, and to give examples of health and safety initiatives. Material and methods: Results of a questionnaire-survey on basic safety regulations on farms sent by e-mail to the representatives of 30 participating European countries in the context of the Sacurima COST action network (CA 16123) are presented. Due to the complexity, only selected countries are described in this study highlighting the regulative bodies, occupational health services or specific training offers, as well as the complexity of the mechanisms. Results: One of the most serious issues and deficits of EU OSH regulation is the exclusion of self-employed farmers who compose nearly 90% of the farming population. This leads to serious under-reporting of accidents, and because one of the most common measures for the performance of health and safety initiatives are the injury and ill health statistics, better registration systems are urgently needed in almost all countries as a basis for preventive efforts. Conclusions: The results of the study provide a basis for raising awareness about the current OSH systems in Europe, and the importance of developing sector specific OSH strategies. The proposed activities should assist in tackling high accident rates and poor occupational health for self-employed farmers.
- ItemResearch data management in agricultural sciences in Germany: We are not yet where we want to be(San Francisco, California, US : PLOS, 2022) Senft, Matthias; Stahl, Ulrike; Svoboda, NikolaiTo meet the future challenges and foster integrated and holistic research approaches in agricultural sciences, new and sustainable methods in research data management (RDM) are needed. The involvement of scientific users is a critical success factor for their development. We conducted an online survey in 2020 among different user groups in agricultural sciences about their RDM practices and needs. In total, the questionnaire contained 52 questions on information about produced and (re-)used data, data quality aspects, information about the use of standards, publication practices and legal aspects of agricultural research data, the current situation in RDM in regards to awareness, consulting and curricula as well as needs of the agricultural community in respect to future developments. We received 196 (partially) completed questionnaires from data providers, data users, infrastructure and information service providers. In addition to the diversity in the research data landscape of agricultural sciences in Germany, the study reveals challenges, deficits and uncertainties in handling research data in agricultural sciences standing in the way of access and efficient reuse of valuable research data. However, the study also suggests and discusses potential solutions to enhance data publications, facilitate and secure data re-use, ensure data quality and develop services (i.e. training, support and bundling services). Therefore, our research article provides the basis for the development of common RDM, future infrastructures and services needed to foster the cultural change in handling research data across agricultural sciences in Germany and beyond.
- ItemProximal Soil Sensing - A Contribution for Species Habitat Distribution Modelling of Earthworms in Agricultural Soils?(San Francisco, California, US : PLOS, 2016) Schirrmann, Michael; Joschko, Monika; Gebbers, Robin; Kramer, Eckart; Zƶrner, Mirjam; Barkusky, Dietmar; Timmer, JensBackground: Earthworms are important for maintaining soil ecosystem functioning and serve as indicators of soil fertility. However, detection of earthworms is time-consuming, which hinders the assessment of earthworm abundances with high sampling density over entire fields. Recent developments of mobile terrestrial sensor platforms for proximal soil sensing (PSS) provided new tools for collecting dense spatial information of soils using various sensing principles. Yet, the potential of PSS for assessing earthworm habitats is largely unexplored. This study investigates whether PSS data contribute to the spatial prediction of earthworm abundances in species distribution models of agricultural soils. Methodology/Principal Findings: Proximal soil sensing data, e.g., soil electrical conductivity (EC), pH, and near infrared absorbance (NIR), were collected in real-time in a field with two management strategies (reduced tillage / conventional tillage) and sandy to loam soils. PSS was related to observations from a long-term (11 years) earthworm observation study conducted at 42 plots. Earthworms were sampled from 0.5 x 0.5 x 0.2 mĀ³ soil blocks and identified to species level. Sensor data were highly correlated with earthworm abundances observed in reduced tillage but less correlated with earthworm abundances observed in conventional tillage. This may indicate that management influences the sensor-earthworm relationship. Generalized additive models and state-space models showed that modelling based on data fusion from EC, pH, and NIR sensors produced better results than modelling without sensor data or data from just a single sensor. Regarding the individual earthworm species, particular sensor combinations were more appropriate than others due to the different habitat requirements of the earthworms. Earthworm species with soil-specific habitat preferences were spatially predicted with higher accuracy by PSS than more ubiquitous species. Conclusions/Significance: Our findings suggest that PSS contributes to the spatial modelling of earthworm abundances at field scale and that it will support species distribution modelling in the attempt to understand the soil-earthworm relationships in agroecosystems.
- ItemDraft Genome Sequence of a New Oscillospiraceae Bacterium Isolated from Anaerobic Digestion of Biomass(Washington, DC : American Society for Microbiology, 2020) Pascual, Javier; Hahnke, Sarah; Abendroth, Christian; Langer, Thomas; Ramm, Patrice; Klocke, Michael; Luschnig, Olaf; Porcar, ManuelHere, we present the genome sequence and annotation of the novel bacterial strain HV4-5-C5C, which may represent a new genus within the family Oscillospiraceae (order Eubacteriales). This strain is a potential keystone species in the hydrolysis of complex polymers during anaerobic digestion of biomass. Ā© 2020 Pascual et al.
- ItemMicrobiome-based biotechnology for reducing food loss post harvest(Amsterdam [u.a.] : Elsevier Science, 2022) Wassermann, Birgit; Abdelfattah, Ahmed; Cernava, Tomislav; Wicaksono, Wisnu; Berg, GabrieleMicrobiomes have an immense potential to enhance plant resilience to various biotic and abiotic stresses. However, intrinsic microbial communities respond to changes in their host's physiology and environment during plant's life cycle. The potential of the inherent plant microbiome has been neglected for a long time, especially for the postharvest period. Currently, close to 50% of all produced fruits and vegetables are lost either during production or storage. Biological control of spoilage and storage diseases is still lacking sufficiency. Today, novel multiomics technologies allow us to study the microbiome and its responses on a community level, which will help to advance current classic approaches and develop more effective and robust microbiome-based solutions for fruit and vegetable storability, quality, and safety.