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Johannes Schöneberg

Publications and source records attributed to Johannes Schöneberg.

3 recordsLinked to original sources

Harmonizing the Generation and Pre-publication Stewardship of FAIR Image Data

Alongside molecular insights into genes and proteins, biological imaging holds great promise for deepening scientific understanding of complex cellular systems and advancing predictive, personalized therapies for human health. To realize this potential, quality-assured image data must be shared globally across laboratories to enable comparison, pooling, and reanalysis-unlocking value far beyond the original purpose of data collection. Two broad sets of requirements are essential to enable image data sharing in the life sciences. The companion article Enabling Global Image Data Sharing in the Life Sciences outlines the need to develop cyberinfrastructure for sharing bioimage data. In this manuscript, we detail a broad set of requirements, which involves collecting, managing, presenting, and propagating contextual information essential to assess the quality, understand the content, interpret the scientific implications, and reuse bioimage data in the context of the experimental details. We start by providing an overview of the main lessons learned to date through international community activities, which have recently made considerable progress toward generating community standard practices for imaging Quality Control (QC) and metadata. We then provide a clear set of recommendations for amplifying this work. The driving goal is to address remaining challenges and democratize access to everyday practices and tools for a spectrum of biomedical researchers, regardless of their expertise, access to resources, and geographical location.

q-bio.OT↗

Spatiotemporal model of a key step in endocytosis: SNX9 recruitment via phosphoinositides

Clathrin mediated endocytosis (CME) is an ubiquitous cellular pathway that regulates central aspects of cell physiology such as nutrient uptake, modulation of signal transduction, synaptic transmission and membrane turn-over. Endocytic vesicle formation depends on the timed production of specific phosphoinositides and their interactions with various endocytic proteins. Recently, it has been found that phosphatidylinositol-3,4-bisphosphate (PI(3,4)P2) produced by the class II phosphatidylinositol 3-kinase C2alpha plays a key role in the recruitment of the PX-BAR domain protein SNX9, which is proposed to play a role in the constriction of the endocytic vesicle neck [Posor et al, Nature 499, p233 (2013)]. Interestingly, SNX9 and its close paralog SNX18 are not fully specific to PI(3,4)P2 but can also bind other phospholipids, in particular to PI(4,5)P2, an abundant plasma membrane lipid required for the recruitment of many endocytic proteins. In order to understand the dynamical interplay between phospholipids and endocytic proteins, we developed a computational model of the temporal changes in the population of the phosphoinositide-associated endocytic proteins and their spatial distribution at a clathrin-coated pit (CCP). The model resolves single molecules in time and space, and incorporates the complex interplay of proteins and lipids, as well as their movement within the CCP. We find that the comparably small differences in lipid binding affinities of endocytic proteins are amplified by competition among them, allowing for the selective enrichment of SNX9 at late stage CCPs as a result of timed PI(3,4)P2 production.

q-bio.BM↗

Scanning Tunneling Spectroscopy of Ni/W(110): bcc and fcc properties in the second atomic layer

Nickel islands are grown on W(110) at elevated temperatures. Islands with a thickness of two layers are investigated with scanning tunneling microscopy. Spectroscopic measurements reveal that nanometer sized areas of the islands exhibit distinctly different apparent heights and dI/dV spectra. Spin polarized and paramagnetic band structure calculations indicate that the spectral features are due to fcc(111) and bcc(110) orientations of the Ni film, respectively.

cond-mat.mes-hall↗