From Fundamentals to Applications: Recent Developments in Atmospheric Pressure Photoionization Mass Spectrometry

Only five years after the first publication on atmospheric pressure photoionization (APPI), this technique has evolved rapidly as a very useful complement to established ionization techniques for liquid chromatography/mass spectrometry (LC/MS). This is reflected in a rapidly increasing number of publications in this field. On the one hand, thorough studies into the photoionization mechanism have provided deep insights into the roles and influences of the solvent, the dopant and other additives. On the other hand, a large number of new and attractive applications have recently been introduced. New instrumental developments have resulted in combined APPI/ESI (PAESI) and APPI/APCI sources and a microfabricated APPI source. In this review, the most important developments within the field are summarized, focusing in particular on the applications of the technique

Sweet spheres: Succession and CAZyme expression of marine bacterial communities colonizing a mix of alginate and pectin particles

Polysaccharide particles are important substrates and microhabitats for marine bacteria. However, substrate-specific bacterial dynamics in mixtures of particle types with different polysaccharide composition, as likely occurring in natural habitats, are undescribed. Here, we studied the composition, functional diversity and gene expression of marine bacterial communities colonising a mix of alginate and pectin particles. Amplicon, metagenome and metatranscriptome sequencing revealed that communities on alginate and pectin particles significantly differed from their free-living counterparts. Unexpectedly, microbial dynamics on alginate and pectin particles were similar, with predominance of amplicon sequence variants (ASVs) from Tenacibaculum, Colwellia, Psychrobium and Psychromonas. Corresponding metagenome-assembled genomes (MAGs) expressed diverse alginate lyases, several co-localised in polysaccharide utilisation loci. Only a single, low-abundant MAG showed elevated transcript abundances of pectin-degrading enzymes. One specific Glaciecola ASV dominated the free-living fraction, possibly persisting on particle-derived oligomers through different glycoside hydrolases. Elevated ammonium uptake and metabolism signified nitrogen as important factor for degrading carbon-rich particles, whereas elevated methylcitrate and glyoxylate cycles suggested nutrient limitation in surrounding waters. The bacterial preference for alginate, whereas pectin primarily served as colonization scaffold, illuminates substrate-driven dynamics within mixed polysaccharide pools. These insights expand our understanding of bacterial niche specialisation and the biological carbon pump in macroalgae-rich habitats

Geographical and temporal distribution of SARS-CoV-2 clades in the WHO European Region, January to June 2020

We show the distribution of SARS-CoV-2 genetic clades over time and between countries and outline potential genomic surveillance objectives. We applied three available genomic nomenclature systems for SARS-CoV-2 to all sequence data from the WHO European Region available during the COVID-19 pandemic until 10 July 2020. We highlight the importance of real-time sequencing and data dissemination in a pandemic situation. We provide a comparison of the nomenclatures and lay a foundation for future European genomic surveillance of SARS-CoV-2.Peer reviewe