Overview of research projects

Funding: FAPESP DGHT, 37.713 EUR

Project Details:
The study of the evolutionary processes that originate phenotypic diversity can offer insights into the process of adaptation in natural populations. Coloration patterns variation have intrigued scientists for centuries, and among vertebrates amphibians are one of the most interesting groups, exhibiting a vast variation in coloration, whose function has been mainly associated with UV protection, interspecies communication, and predator avoidance. Despite significant advances made on this topic, the genetic basis of coloration in amphibians is still surprisingly unknown. Herein we propose to deepen in genomic bases of coloration in the genus Brachycephalus, using the aposematic and polymorphic species B. actaeus as model. We are going to use transcriptomic data to identify genes, which are differentially expressed as well as histological sample for gathering information about chromatophore abundance and distribution among colour morphs in this species.

Cooperation Partners:

Prof. Dr. Célio Haddad, UNESP (Brazil)

Dr. Mariana Lyra, New York University, Abu Dhabi

Dr. Andrés Brunetti, Max Plank Institute for Chemical Ecology

Funding: Deutsche Forschungsgesellschaft (DFG), 398.333 EUR

Project Details:
Virus emergence and re-emergence is an increasing public health
problem as globalization and climate change promote the spread of
infectious disease. This is particularly true for mosquito-borne
infections as mosquitoes continue to spread to new geographic
regions. Alphaviruses such as Chikungunya virus (CHIKV) and
Venezuelan equine encephalitis virus (VEEV) belong to the group of
mosquito-borne viruses, which cause pathology in humans. The re-emerging CHIKV is causing long-lasting arthritis like symptoms, while
VEEV infection leads to encephalitis. Why the two viruses from the
same family cause pathologies in different tissues, i.e. joints versus
central nervous system (CNS), is unclear to date. This gap of
knowledge is reflected by the fact that few host factors for CHIKV and
VEEV are known. Here we capitalize on our findings that the
phosphatidylserine (PS) receptor T cell immunoglobulin mucin
receptor 1 (TIM-1) and a tetraspanin are host factors for CHIKV. We
hypothesize that (a) VEEV also hijacks PS receptors and tetraspanins
to infect human cells, (b) TIM-1 and the tetraspanin interact with
additional proteins to promote infection with CHIKV and possibly
VEEV and (c) that a subset of these host factors contribute to tissue
tropism of CHIKV and VEEV. To test our hypothesis we will initially
use unbiased state of the art quantitative proteomics methods to
identify entry factors and receptors of CHIKV and VEEV. Next we will
screen PS receptors and all 33 human tetraspanins for their role in
VEEV infection by RNA interference in human cells. TIM-1 and
Tetraspanin associated proteins will be identified by proximity labeling
in conjunction with high-resolution affinity enrichment mass
spectrometry. Finally we will investigate the contribution of the
identified host factors to tissue tropism of CHIKV and VEEV using
proteomics, single cell sequencing and virological methods.
Specifically, we will infect skin organotypic raft cultures and determine
the predominantly infected cell type as well as expression levels of
identified host factors in the susceptible versus refractory cells.
Additionally we will integrate expression data from online repositories
and measure proteomes of relevant cell types including fibroblasts
and neuronal cells. Using feature selection approaches, we will
identify host factors, which likely contribute to the distinct tissue
tropism and pathologies caused by CHIKV and VEEV. These host
factors will be systematically knocked out first in relevant cell types
and then in mice to delineate the contribution to disease manifestation
in vitro and in vivo. Taken together, this research program aims at
providing mechanistic insight into the infection processes caused by
two important human pathogens, CHIKV and VEEV. The results will
help understand disease mechanisms and may ultimately reveal drug
targets for therapeutic intervention with Chikungunya fever and
Venezuelan equine encephalitis.

Funding: COVID-19-Forschungsnetzwerkes COFONI vom Niedersächsischen Ministerium für Wissenschaft und Kultur über die Universitätsmedizin Göttingen, 50.000 EUR

Project Details:
This project aims at
(1) Establish a database for BSL-3 sample biobanking from preclinical in vivo models of
COVID-19 disease within COFONI-network
(2) Initial review and meta-analysis of internationally available data on preclinical in vivo
models of COVID-19 disease

Funding: Deutsche Forschungsgemeinschaft, 204.886 EUR

Project Details:
In this research project, systematic investigations on the development and the role of the immune response during Enterococcus cecorum infections in chickens will be conducted for the first time. Until now it is unknown, how the unspecific and specific immune system reacts on the infection.The results of this research project may be fundamental for the development of vaccines against this very important pathogen of broiler type birds.

Project Details:
Animal welfare of pigs kept on farms includes both the well-being and the health of the animals. In Germany, there have been legal changes in relation to pig farming in recent years in order to achieve greater animal welfare. The study examines whether users inform themselves about topics concerning animal welfare in pig farming in Germany in forums and blogs and whether people with a professional background use these platforms to publish their personal opinions and evaluate emerging topics. For this purpose, the discussion content of Internet users with an obvious professional reference to pig farming is identified and their reaction to posts relating to animal welfare in pig farming is analyzed by means of a qualitative content analysis (Translated with DeepL.com (free version)).

Funding: DZIF, BMBF, 115.000 EUR

Project Details:
The main protease 3CLpro is a prominent drug target to control corona virus (CoV) replication and associated disease. The target is structure-enabled, structurally conserved and believed to offer an opportunity for multi-/pan-CoV-inhibitor designs. Pfizer have received an Emergency Use Authorization for their first-generation 3CL inhibitor Paxlovid. This serves the important clinical target validation for Covid-19 but also demands a differentiation strategy for second generation drugs as outlined herein. We will be applying our University of Marburg (UMR) based mouse transduction CoV challenge model, optimized for SARS-CoV-2 variants-of-concern and the dosing of the herein pursued second generation 3CL inhibitors as designed and synthesized by the Lead Discovery Center (LDC). In addition, the frontrunner compound will be tested head-to-head against Paxlovid in the hamster SARS-CoV-2 disease model maintained at University of Veterinary Medicine Hannover. In so doing we contribute to the preclinical proof-of-concept and hopefully the nomination a lead compound of the second generation 3CLpro inhibitors by LDC.

Cooperation Partners:

Prof. Dr. Stephan Becker, Marburg

LDC

Funding: MELUND, 103.127 EUR

Project Details:
Two populations of harbour porpoise occur in the coastal waters of the German Baltic Sea, of which the "Western Belt Sea Population" is significantly larger with an estimated 42,324 individuals (acceptance range: 23,368-76,658), compared to the "Baltic Proper population", which is considered "critically endangered" with an estimated 497 individuals (acceptance range: 80-1,091). Harbour porpoise habitat in the Baltic Sea is intensely impacted by human activities that can have a negative impact on population level. These include shipping, tourist recreational activities, military activities, fishing, offshore construction, explosions of ammunition, chemical and pharmaceutical pollution, and marine debris. In the Baltic Sea in particular, harbour porpoise are threatened by set-net fisheries, to suffer from incidental bycatches. To warn harbour porpoises of set nets, acoustic devices are increasingly being used in the German Baltic Sea. These warning devices (Porpoise Alert = PAL) simulate a communication sound of harbour porpoises. Whether these devices lead to a reduction in bycatch has not yet been conclusively investigated. Effective management measures necessitate a deeper understanding of harbour porpoise habitat use. This is urgently needed, as there is evidence of declines in harbour porpoise populations in Schleswig-Holstein's waters.
The harbour porpoise is listed in Annex II and IV of the Flora-Fauna-Habitat Directives, which obliges EU member states to monitor its conservation status. In this project, the occurrence and habitat use of harbour porpoises in the western part of the Baltic Sea is investigated by means of passive acoustic monitoring. For this purpose, porpoise click detectors (CPODs, Cetacean-Porpoise Detector) were deployed at four positions in March 2021 to record the presence of harbour porpoises. The operated monitoring stations (Holnis, Bredgrund, Schleisand and Damp) cover the area of the Schleswig-Holstein Baltic Sea and are intended to close the gap in the monitoring network between Fehmarn and Denmark.

Results:

Untersuchungen zur Habitatnutzung von Schweinswalen in der westlichen Ostsee mittels passiv-akustischem Monitoring 2021-2023 (PDF, 2MB, Datei ist barrierefrei)

https://www.schleswig-holstein.de/DE/fachinhalte/A/artenschutz/Downloads/untersuchungenHabitatnutzungSchweinswale.pdf?__blob=publicationFile&v=1

Funding: OFB (L?Office Français de la Biodiversité), 400.000 EUR

Project Details:
The European Atlantic is changing rapidly, and it is essential that neighbouring countries have access to up-to-date robust information on the status of key species and populations so that future monitoring and management can be directed effectively and efficiently to achieve and maintain favourable conservation status of species and good environmental status of European Atlantic waters. The "Small Cetaceans in European Atlantic waters and the North Sea (SCANS)" survey is being planned for summer 2022. The objective of SCANS-IV is to estimate the abundance of cetacean species in shelf and oceanic waters of the European Atlantic through a large-scale multinational aerial and shipboard survey in July 2022. This is the most appropriate survey month because of the higher probability of good sighting conditions, and also to ensure that results are comparable with those from SCANS surveys conducted in 1994, 2005/2007 and 2016 (Hammond et al. 2002, 2013, 2021). Thus, this project will represent the fourth survey in the SCANS series. SCANS-IV will deliver regionally coordinated synoptic surveys in shelf and offshore waters of the European Atlantic. It will generate robust abundance estimates for regularly occurring whale and dolphin species and improve power to detect trends in shelf and offshore species. The outputs of the project are timely for EU Member States obligations for reporting under the Marine Strategy Framework Directive (MSFD Article 8: due 2024) and the next reporting round under the Habitats Directive (Article 17: 2019 - 2024) (where applicable) and allow OSPAR/HELCOM assessments. The estimates are also needed for impact assessments of offshore industries and fisheries.
The project will be achieved through the successful completion of six work packages. The first two WPs (WP1 & WP2) focus on collecting data on cetacean abundance and distribution through implementation of aerial surveys on the continental shelf and shipboard surveys in offshore waters. The data will be analysed in WP3 to generate abundance estimates, trends and perform spatio-temporal habitat modelling. WP4 will consider the long-term security of the large-scale cetacean monitoring SCANS programme in the Northeast Atlantic and propose a governance structure to ensure the continuation into the future. WPs 5 & 6 will focus on dissemination of results, project management and reporting.

Results:

Estimates of cetacean abundance in European Atlantic waters in summer 2022 from the SCANS-IV aerial and shipboard surveys. Final report published 29 September 2023. 64 pp.

https://tinyurl.com/3ynt6swa

Cooperation Partners:

Projektkoordination Dr. Anita Gilles, ITAW-Stiftung Tierärztliche Hochschule Hannover

University of St Andrews, United Kingdom

Joint Nature Conservation Committee, United Kingdom

Wageningen Marine Research, Netherlands

Aarhus University, Denmark

Swedish Museum of Natural History, Sweden

La Rochelle University, France

Instituto Español de Oceanografia, Spain

University of Aveiro, CESAM - Centre of Environmental and Marine Studies and Instituto da Conservação da Natureza e das Florestas, Portugal

Funding: Dieses Projekt wird durch die Fritz-Ahrberg-Stiftung gefördert., 40.000 EUR

Project Details:
The topic of this project picks up on the current situation of the COVID-19 pandemic and aims to investigate the safety of food transported in different "take-away"-menu trays during delivery or self-collection. Commercially available menu trays will be considered, and different packaging systems (open, semi-open, and closed) made of different materials will be included in the studies. Since it cannot be guaranteed that the food will be consumed immediately and completely after delivery, different storage temperatures and storage times will also be considered. In this three-stage project, cooked, unbreaded pork and turkey cutlets will be examined first, followed by cutlets contaminated (inoculated) with specific bacterial species and, finally, packaging materials inoculated in the same way. The aim is to gain improved insights into the development of microbial growth in prepared meat in different take-away meal tray systems.

Funding: Fritz-Ahrberg-Stiftung, 100.000 EUR

Project Details:
technique
Summary:
Hepatitis E virus (HEV) is an increasingly common food-associated cause of acute viral hepatitis. To ensure rapid pathogen identification and tracing of the infection sources, rapid and reliable detection methods are crucial. Various approaches are available for the detection of HEV, some of which involve considerable effort, such as cultivation of cell cultures or performing animal experiments. Loop-mediated isothermal amplification enables rapid pathogen detection with low-cost equipment and little work effort, qualifying the method for on-site application. Within the framework of the project a LAMP assay for detecting HEV in pork products and liver will be developed and validated. For this purpose, suitable genomic target regions will be identified and used for specific primer design. Assay validation includes analytical specificity and sensitivity testing as well as determining the detection limit in artificially contaminated matrices under the influence of product-typical background flora. Finally, the assay will be applied to natively contaminated samples to define the diagnostic quality criteria of the test procedure. In the second phase of the project, pig livers will be examined using the developed LAMP assay and classified into three categories according to viral load. Afterwards, liver sausages will be produced from this material and tested again so that conclusions can be drawn about the significance of the virus load in the raw material and influences of the production process on the viral load in final products.