Biology subjects

Schlueter, A.

Publications and source records attributed to Schlueter, A..

3 recordsLinked to original sources

bioRxiv2024

A Novel C. elegans Model for Tau spreading Reveals Genes Critical for Endolysosomal Integrity and Seeded Tau Aggregation

The spreading of Tau pathology is closely associated with the progression of neurodegeneration and cognitive decline in Alzheimers disease and other tauopathies. A key event in this process is the rupture of endolysosomal vesicles following the intercellular transfer of Tau aggregates, releasing the transferred Tau species into the cytosol where they can promote the aggregation of endogenous Tau. However, understanding of the cellular pathways involved in this process remains limited. In this study, we investigated cellular pathways that prevent endolysosomal vesicle rupture. We established a new C. elegans model of Tau spreading by introducing an mCherry-labelled, disease-associated aggregation-prone fragment of human Tau (F3{Delta}K281::mCh) into the six touch receptor neurons. F3{Delta}K281::mCh transgenic animals exhibited significant neurotoxicity and mechanosensory deficits due to the accumulation of this Tau fragment. In addition, its intercellular transmission compromised the endolysosomal system in receiving hypodermal cells. Using this model, we conducted an unbiased genome-wide RNAi screen and identified 59 genes critical for maintaining endolysosomal integrity. GO-term analysis revealed an enrichment of genes related to the ESCRT complex, the ubiquitin-proteasome system, mRNA splicing, and fatty acid metabolism. Silencing of selected conserved genes exacerbated seeded Tau aggregation in a human induced pluripotent stem cell (hiPSC)-derived cortical neuron model and triggered endolysosomal rupture in HEK293T cells, confirming the crucial role of endolysosomal damage in seeded Tau aggregation. Overall, this study discovered novel cellular pathways that safeguard endolysosomal integrity. These findings may guide the development of therapeutics that improve endolysosomal integrity to halt the progression of Tau pathology.

cell biology↗

bioRxiv2024

Metagenomics-Toolkit: The Flexible and Efficient Cloud-Based Metagenomics Workflow featuring Machine Learning-Enabled Resource Allocation

The metagenome analysis of complex environments with thousands of datasets, such as those available in the Sequence Read Archive, requires immense computational resources to complete the computational work within an acceptable time frame. Such large-scale analyses require that the underlying infrastructure is used efficiently. In addition, any analysis should be fully reproducible and the workflow must be publicly available to allow other researchers to understand the reasoning behind computed results. Here, we introduce the Metagenomics-Toolkit, a scalable, data agnostic workflow that automates the analysis of short and long metagenomic reads obtained from Illumina or Oxford Nanopore Technology devices, respectively. The Metagenomics-Toolkit offers not only standard features expected in a metagenome workflow, such as quality control, assembly, binning, and annotation, but also distinctive features, such as plasmid identification based on various tools, the recovery of unassembled microbial community members and the discovery of microbial interdependencies through a combination of dereplication, co-occurrence, and genome-scale metabolic modeling. Furthermore, the Metagenomics-Toolkit includes a machine learning-optimized assembly step that tailors the peak RAM value requested by a metagenome assembler to match actual requirements, thereby minimizing the dependency on dedicated high-memory hardware. While the Metagenomics-Toolkit can be executed on user workstations, it also offers several optimizations for an efficient cloud-based cluster execution. We compare the Metagenomics-Toolkit to five commonly used metagenomics workflows and demonstrate the capabilities of the Metagenomics-Toolkit by executing it on 757 metagenome datasets from sewage samples for an investigation of a possible sewage core microbiome. The Metagenomics-Toolkit is open source and available at https://github.com/metagenomics/metagenomics-tk.

bioinformatics↗

bioRxiv2019

Virtual reality as a tool for environmental conservation and fundraising

Anecdotal evidence from philanthropic fundraisers shows that virtual reality (VR) technology increases empathy and can influence people toward pro-environmental behavior. Non-profit organizations are increasingly marketing their causes using virtual reality and they report increased donations when VR technology is employed. In VR, users are immersed in situations intended to feel more like the real world through technology, such as 360{degrees} video screened through 3D headsets that block out visual and auditory distractions. The framing of the message as either positive or negative has long shown to have an effect on behavior, although consensus on the impact of framing has not been reached in relation to encouraging contributions to public goods. This paper focuses on field experiments used to investigate the effects of varying degrees of visual immersion and positive versus negative message framing on respondents contributions to a conservation charity. Participants were exposed to a five-minute underwater film about coral reefs and the importance of protecting them. We employed a 2x2 experimental design using 3D head-mounted displays comparing 360{degrees} film footage vs. unidirectional film and a positive message vs. a negative message. After watching the film, each participant completed a short questionnaire and had the opportunity to donate to a marine conservation charity. In addition, we tested a control treatment where no video was observed. The video was filmed in Indonesia which is host to some of the worlds most biodiverse reefs that are under great threat from human activity. We also conducted the study in Indonesia, sampling a total of 1006 participants from the Bogor city area and tourists on the island of Gili Trawangan - which is popular for scuba diving and snorkeling. We find significant differences in observed behavior and reported emotions between all treatments compared to the control condition. Among the tourist sample, we find significant differences between the 360{degrees} film with a negative message which garnered significantly larger average donation amounts compared to the unidirectional film with both positive and negative framing. Overall, we can infer from these studies that virtual reality is an effective way to raise awareness of environmental threats and encourage behavioral action, especially when tailored to target groups. New technology, such as the VR head-mounted display, is highly effective at attracting interest which is an important point to encourage organizations to invest in new technologies.

scientific communication and education↗