M. Schmidt

Ventral Morphology and Ecological Implications of Cindarella eucalla (Artiopoda, Xandarellida) from Chengjiang Biota, China

This study reconstructs the morphology of Cindarella eucalla using X-ray computed tomography and fluorescent microscopy, revealing features that suggest it lived in muddy, light-filled environments and had escape capabilities.

Ultra-sensitivity metaproteomics redefines the gut dark metaproteome, uncovering host-microbiome interactions and drug targets in intestinal inflammatory diseases.

The paper introduces uMetaP, an ultra-sensitive metaproteomic method that enhances detection of the gut dark metaproteome and identifies drug targets in intestinal inflammatory diseases.

Cancer-associated fibroblasts reveal aberrant DNA methylation across different types of cancer

The paper identifies aberrant DNA methylation in cancer-associated fibroblasts across multiple cancer types and links these changes to patient prognosis.

Stable isotopes and nanoSIMS single-cell imaging reveals soil plastisphere colonizers able to assimilate sulfamethoxazole

This study uses stable isotopes and nanoSIMS to show soil bacteria on plastics can assimilate sulfamethoxazole, revealing their role in soil ecosystems.

2-photon laser printing to mechanically stimulate multicellular systems in 3D

This paper develops a 2-photon printing method to create 3D microstructures for mechanically stimulating multicellular systems, showing cells change morphology under cyclic stretch.

GGA1 interacts with the endosomal Na+/H+ Exchanger NHE6 governing localization to the endosome compartment

This study identifies GGA1 as an interacting partner of NHE6, showing that their interaction is critical for NHE6 localization to endosomes.

KINNTREX: A Neural Network Unveils Protein Mechanism from Time Resolved X-ray Crystallography

KINNTREX uses a neural network to predict chemical kinetic mechanisms from time-resolved X-ray crystallography data without requiring candidate mechanisms.

Mitochondrial perturbation in the intestine causes microbiota-dependent injury and gene signatures discriminative of inflammatory disease

The paper shows mitochondrial dysfunction in intestinal epithelium leads to microbiota-dependent injury and identifies gene signatures that distinguish active from inactive inflammation in IBD.

Expanding the Characterization of Microbial Ecosystems using DIA-PASEF Metaproteomics

This study introduces a DIA-PASEF metaproteomic workflow that enhances protein and taxon identification in mouse gut microbiota and host proteome, revealing more functional pathways and host-microbiome interactions in a chronic pain model.

Phenotypic plasticity and genetic control in colorectal cancer evolution

This study investigates phenotypic plasticity and genetic control in colorectal cancer by analyzing gene expression and genetic variation across multiple tumor regions.

The co-evolution of the genome and epigenome in colorectal cancer

This study examines the co-evolution of genome and epigenome in colorectal cancer using single-clone spatial multi-omic profiling, revealing epigenetic changes and their impact on mutation accumulation.

YAP1 is essential for self-organized differentiation of pluripotent stem cells

This study shows YAP1 is critical for germ layer specification in iPSCs, particularly in self-organized embryoid bodies, through NODAL pathway activation.

Viridiplantae-specific GLXI and GLXII isoforms co-evolved and detoxify glucosone in planta

The paper identifies two distinct glyoxalase systems in plants, showing one evolved from eukaryotes and the other acquired via horizontal gene transfer, with unique structural and functional adaptations for detoxifying reactive carbonyl species.

Genomic, transcriptomic, and metabolomic analysis of Traditional Chinese Medicine plant Oldenlandia corymbosa reveals the biosynthesis and mode of action of anti-cancer metabolites

This study identifies ursolic acid as the main anti-cancer compound in Oldenlandia corymbosa and reveals its mode of action through genomic, transcriptomic, and metabolomic analysis.

Escherichia coli YigI is a conserved γ-proteobacterial acyl-CoA thioesterase permitting metabolism of unusual fatty acid substrates

This study identifies YigI as a third acyl-CoA thioesterase in E. coli involved in CLA degradation, showing distinct regulatory conditions compared to other thioesterases.

Nitrogen metabolism in Pseudomonas putida: functional analysis using random barcode transposon sequencing

This study identifies genes and proteins involved in nitrogen metabolism in Pseudomonas putida using transposon sequencing and provides an interactive visualization tool for the data.

Long-term culture system for deep-sea mussels Gigantidas childressi

This study develops a long-term culture system for deep-sea mussels Gigantidas childressi, demonstrating their ability to sustain energy budgets through methane oxidation and microalgae digestion.

Reconstitution of 3'-processing of mammalian pre-mRNA reveals a central role of RBBP6

The paper reconstitutes the 3'-processing of mammalian pre-mRNA and identifies essential and stimulatory proteins, highlighting RBBP6's role in activating CPSF73.

Potassium-chelating drug sodium polystyrene sulfonate enhances lysosomal function and suppresses proteotoxicity

This study shows that the FDA-approved drug sodium polystyrene sulfonate enhances lysosomal function and reduces proteotoxicity in C. elegans and human neuronal cells, while also increasing lifespan.

Before trilobite legs: Pygmaclypeatus daziensis reconsidered and the ancestral appendicular organization of Cambrian artiopods

This paper uses micro-CT to study the appendage structure of Pygmaclypeatus daziensis, revealing its heteronomy and suggesting an ancestral exopodite morphology in Artiopoda.

Phage co-transport with hyphal-riding bacteria fuels bacterial invasion in water-unsaturated microbial ecosystems

The paper shows hyphal-riding bacteria transport phages to new habitats, enhancing their colonization success in water-unsaturated environments.

Assessment of the evolutionary consequence of putative driver mutations in colorectal cancer with spatial multiomic data

This study uses spatial multiomic data to assess the evolutionary impact of putative driver mutations in colorectal cancer, identifying both genetic and non-genetic factors influencing subclonal expansion.

Human engineered skeletal muscle of hypaxial origin from pluripotent stem cells with advanced function and regenerative capacity

This study develops a human hypaxial muscle model from pluripotent stem cells with functional maturation and regenerative capacity for studying muscle biology and disease.

Vitamin C Binds to SARS Coronavirus-2 Main Protease Essential for Viral Replication

This study reports the crystal structure of SARS-CoV-2 main protease bound to Vitamin C, showing its potential as an inhibitor of viral replication.

Generation of Pathogenic TPP1 Mutations in Human Stem Cells as a Model for CLN2 Disease

This paper generates human stem cell models of CLN2 disease by introducing pathogenic TPP1 mutations using CRISPR/Cas9 and validates their reduced TPP1 enzyme activity.

Direct Observation of the Mechanism of Antibiotic Resistance by Mix-and-Inject at the European XFEL

The paper directly observes fast ligand binding in a biomedically relevant enzyme using MHz X-ray pulses at the European XFEL.

Unscheduled origin building in S-phase upon tight CDK1 inhibition suppresses CFS instability

The paper shows that tight CDK1 inhibition during S-phase reduces CFS instability by promoting extra replication origins in under-replicated regions.

Single-femtosecond atomic-resolution observation of a protein traversing a conical intersection

This paper presents single-femtosecond, atomic-resolution movies of a protein traversing a conical intersection, revealing its dynamical trajectories and key parameters.

Functional analysis of the fatty acid and alcohol metabolism of Pseudomonas putida using RB-TnSeq

This study uses RB-TnSeq to functionally analyze fatty acid and alcohol metabolism in Pseudomonas putida, identifying gene roles and catabolic pathways for isoprenol and isopentanol.

High-resolution Crystal Structures of Transient Intermediates in the Phytochrome Photocycle

The paper captures high-resolution crystal structures of transient phytochrome intermediates to elucidate the structural changes during the Pr-to-Pfr photocycle.