Rabbiner, Recht, Reichsstadt ... : neue Forschung zur Frankfurter Judengasse

Rezension zu: Fritz Backhaus, Gisela Engel, Robert Liberles, Margarete Schlüter (Hrsg.) : Die Frankfurter Judengasse : Jüdisches Leben in der frühen Neuzeit. Schriftenreihe des Jüdischen Museums Frankfurt am Main, Band 9, Societäts-Verlag, Frankfurt 2006, ISBN 3-7973-0927-9, 366 Seiten, 19,90 Euro

Use of Cerny epoxides for the accelerated synthesis of glycosaminoglycans

1,6:2,3-Dianhydrohexopyranoses (Cerny epoxides) are versatile intermediates for the synthesis of glycosaminoglycans. Complex heparan and chondroitin sulfate disaccharide synthons can be assembled from a single common precursor in a short sequence of steps

Assessing global-scale organic matter reactivity patterns in marine sediments using a lognormal reactive continuum model

Organic matter (OM) degradation in marine sediments is largely controlled by its reactivity and profoundly affects the global carbon cycle. Yet, there is currently no general framework that can constrain OM reactivity on a global scale. In this study, we propose a reactive continuum model based on a lognormal distribution (l-RCM), where OM reactivity is fully described by parameters μ (the mean reactivity of the initial OM bulk mixture) and σ (the variance of OM components around the mean reactivity). We use the l-RCM to inversely determine μ and σ at 123 sites across the global ocean. The results show that the apparent OM reactivity (〈k〉=μ⋅exp⁡(σ2/2)) decreases with decreasing sedimentation rate (ω) and that OM reactivity is more than 3 orders of magnitude higher in shelf than in abyssal regions. Despite the general global trends, higher than expected OM reactivity is observed in certain ocean regions characterized by great water depth or pronounced oxygen minimum zones, such as the eastern–western coastal equatorial Pacific and the Arabian Sea, emphasizing the complex control of the depositional environment (e.g., OM flux, oxygen content in the water column) on benthic OM reactivity. Notably, the l-RCM can also highlight the variability in OM reactivity in these regions. Based on inverse modeling results in our dataset, we establish the significant statistical relationships between 〈k〉 and ω and further map the global OM reactivity distribution. The novelty of this study lies in its unifying view but also in contributing a new framework that allows predicting OM reactivity in data-poor areas based on readily available (or more easily obtainable) information. Such a framework is currently lacking and limits our abilities to constrain OM reactivity in global biogeochemical or Earth system models

Collaborative Work on Ontologies - A Report

Supply chains are vulnerable and inherently complex processes. In-creasing the resilience of supply chains is realised, if the stakeholders involved have agreed on a clear language. Only this enables a comprehensive, unambiguous and fast exchange of information. Ontologies serve as a powerful formal tool to realize an appropriate communication framework. They are designed to make communication and information exchange between stakeholders and machines unambiguous and thus efficient. This paper addresses the challenges and solutions associated with the fact that ontologies need to reflect agreed definitions of a domain, as we face them in the SC3 and CoyPu projects

Adhesion and Degranulation Promoting Adapter Protein (ADAP) Is a Central Hub for Phosphotyrosine-Mediated Interactions in T Cells

TCR stimulation leads to an increase in cellular adhesion among other outcomes. The adhesion and degranulation promoting adapter protein (ADAP) is known to be rapidly phosphorylated after T cell stimulation and relays the TCR signal to adhesion molecules of the integrin family. While three tyrosine phosphorylation sites have been characterized biochemically, the binding capabilities and associated functions of several other potential phosphotyrosine motifs remain unclear. Here, we utilize in vitro phosphorylation and mass spectrometry to map novel phosphotyrosine sites in the C-terminal part of human ADAP (486–783). Individual tyrosines were then mutated to phenylalanine and their relevance for cellular adhesion and migration was tested experimentally. Functionally important tyrosine residues include two sites within the folded hSH3 domains of ADAP and two at the C-terminus. Furthermore, using a peptide pulldown approach in combination with stable isotope labeling in cell culture (SILAC) we identified SLP-76, PLCγ, PIK3R1, Nck, CRK, Gads, and RasGAP as phospho-dependent binding partners of a central YDDV motif of ADAP. The phosphorylation-dependent interaction between ADAP and Nck was confirmed by yeast two-hybrid analysis, immunoprecipitation and binary pulldown experiments, indicating that ADAP directly links integrins to modulators of the cytoskeleton independent of SLP-76

Nucleotide exchange and excision technology (NExT) DNA shuffling: a robust method for DNA fragmentation and directed evolution

DNA shuffling is widely used for optimizing complex properties contained within DNA and proteins. Demonstrated here is the amplification of a gene library by PCR using uridine triphosphate (dUTP) as a fragmentation defining exchange nucleotide with thymidine, together with the three other nucleotides. The incorporated uracil bases were excised using uracil-DNA-glycosylase and the DNA backbone subsequently cleaved with piperidine. These end-point reactions required no adjustments. Polyacrylamide urea gels demonstrated adjustable fragmentation size over a wide range. The oligonucleotide pool was reassembled by internal primer extension to full length with a proofreading polymerase to improve yield over Taq. We present a computer program that accurately predicts the fragmentation pattern and yields all possible fragment sequences with their respective likelihood of occurrence, taking the guesswork out of the fragmentation. The technique has been demonstrated by shuffling chloramphenicol acetyltransferase gene libraries. A 33% dUTP PCR resulted in shuffled clones with an average parental fragment size of 86 bases even without employment of a fragment size separation, and revealed a low mutation rate (0.1%). NExT DNA fragmentation is rational, easily executed and reproducible, making it superior to other techniques. Additionally, NExT could feasibly be applied to several other nucleotide analogs

Detection of changes in mitochondrial hydrogen sulfide (H2S) in vivo in the fish model Poecilia mexicana (Poeciliidae)

In this paper, we outline the use of a mitochondria-targeted ratiometric mass spectrometry probe, MitoA, to detect in vivo changes in mitochondrial hydrogen sulfide (H2S) in Poecilia mexicana (family Poeciliidae). MitoA is introduced via intraperitoneal injection into the animal and is taken up by mitochondria, where it reacts with H2S to form the product MitoN. The MitoN/MitoA ratio can be used to assess relative changes in the amounts of mitochondrial H2S produced over time. We describe the use of MitoA in the fish species P. mexicana to illustrate the steps for adopting the use of MitoA in a new organism, including extraction and purification of MitoA and MitoN from tissues followed by tandem mass spectrometry. In this proof-of-concept study we exposed H2S tolerant P. mexicana to 59 µM free H2S for 5 h, which resulted in increased MitoN/MitoA in brain and gills, but not in liver or muscle, demonstrating increased mitochondrial H2S levels in select tissues following whole-animal H2S exposure. This is the first time that accumulation of H2S has been observed in vivo during whole-animal exposure to free H2S using MitoA