J. de Vries

Time-resolved oxidative signal convergence across the algae-embryophyte divide

The paper studies stress response kinetics in early land plants and their algal relatives using multi-omics data to infer ancient gene regulatory networks.

Genomic surveillance of multidrug-resistant organisms based on long-read sequencing

This study demonstrates that long-read sequencing is as accurate and more cost-effective than short-read sequencing for molecular characterization of multidrug-resistant organisms.

Metabolic rewiring compensates for the loss of glutamate and aspartate biosynthesis in Bacillus subtilis

This study identifies a non-canonical fumarate-based ammonium assimilation pathway in B. subtilis that compensates for glutamate and aspartate biosynthesis defects.

Phylogenomic insights into the first multicellular streptophyte

This study presents a phylogenomic analysis of Klebsormidiophyceae, revealing a novel four-order system and estimating the origin of the first multicellular streptophytes over 900 million years ago.

Additively manufactured multiplexed electrochemical device (AMMED) for portable sample-to-answer detection

This paper introduces AMMED, a portable electrochemical device for rapid, multiplexed biomarker detection in blood and saliva, demonstrating its ability to detect SARS-CoV-2 spike protein with high sensitivity and selectivity.

Fern cell walls and the evolution of arabinogalactan-proteins in streptophytes

This study characterizes arabinogalactan-proteins (AGPs) in ferns, revealing structural differences from seed plants and suggesting evolutionary trends in cell wall composition.

Environmental gradients reveal stress hubs predating plant terrestrialization

The paper uses RNAseq and photophysiological data from Mesotaenium under environmental stress to identify stress response hubs in algae, suggesting ancient molecular programs predating plant terrestrialization.

Unravelling drivers of local adaptation through Evolutionary Functional-Structural Plant modelling

This study develops an evolutionary functional-structural plant model to investigate the drivers of local adaptation in Dianthus carthusianorum along elevation gradients, finding abiotic factors predominantly drive adaptation.

A phylogenomically informed five-order system for the closest relatives of land plants

The paper presents a new five-order system for Zygnematophyceae based on phylogenomic analysis of a filamentous green alga, revealing five independent origins of filamentous growth.

Distinct physiological responses of Coccolithus braarudii life cycle phases to light intensity and nutrient availability

This study compares the physiological responses of Coccolithus braarudii life cycle phases to light and nutrient conditions, finding differences in calcification, growth, and division patterns.

Underwater CAM photosynthesis elucidated by Isoetes genome

This study investigates underwater CAM in Isoetes taiwanensis using genome and RNA-seq data, identifying key differences in carboxylation and circadian control compared to terrestrial CAM.

The evolution of the phenylpropanoid pathway entailed pronounced radiations and divergences of enzyme families

This study shows that enzyme families in the phenylpropanoid pathway underwent radiations and divergences in land plants and their algal relatives, suggesting evolutionary versatility in specialized metabolism.

South American freshwater fish diversity shaped by Andean uplift since the Late Cretaceous

The paper investigates how Andean uplift and river rerouting events shaped freshwater fish diversity in South America, showing that dynamic riverine habitats drove high diversification rates.

An ancient route towards salicylic acid and its implications for the perpetual Trichormus-Azolla symbiosis

The paper identifies salicylic acid (SA) in Azolla filiculoides and shows its role in a feedback loop with cyanobacteria, supporting the perpetual nature of their symbiosis.

SARS-coronavirus-2 replication in Vero E6 cells: replication kinetics, rapid adaptation and cytopathology

This study compares SARS-CoV-2 and SARS-CoV replication in Vero E6 cells, finding higher viral RNA levels in SARS-CoV-2 but lower infectious progeny, and adaptive mutations in its spike protein.

Comparative analyses of saprotrophy in Salisapilia sapeloensis and diverse plant pathogenic oomycetes reveal lifestyle-specific gene expression

This study compares gene expression between saprotrophic oomycete Salisapilia sapeloensis and plant pathogenic oomycetes to identify lifestyle-specific regulatory patterns.

The Long-run Effects of Secondary School Track Assignment

This study examines the long-term effects of secondary school track assignment on educational attainment and wages in the Netherlands, finding varying impacts depending on students' position relative to track thresholds.

METAGENOMIC SEQUENCING FOR COMBINED DETECTION OF RNA AND DNA VIRUSES IN RESPIRATORY SAMPLES FROM PAEDIATRIC PATIENTS

This study evaluates an in-house mNGS protocol for detecting RNA and DNA viruses in pediatric respiratory samples, showing high concordance with PCR and identifying additional pathogens not detected by routine methods.

The monoplastidic bottleneck in algae and plant evolution

This study investigates the monoplastidic bottleneck in algae and plants, finding that loss of MinD and MinE genes from the plastid genome is a prerequisite for multiple plastids per nucleus.