A. Wagner

Multimodal profiling reveals tissue-directed signatures of human immune cells altered with age

The paper profiles immune cell RNA and protein expression across tissues and age to identify tissue-specific and age-related immune signatures.

Tree diversity increases carbon stocks and fluxes above- but not belowground in a tropical forest experiment

Engineered Ubiquitin Variants Mitigate Pathogenic Bacterial Ubiquitin Ligase Function

This paper identifies engineered ubiquitin variants that suppress Salmonella NEL SspH1 toxicity in yeast by modulating ubiquitination activity and cell cycle interference.

Full-length structure of the host targeted bacterial effector Bep1 reveals a novel structural domain conserved in FIC effector proteins from Bartonella

The paper determines the crystal structure of Bep1, revealing a novel FIC-OB-BAS(BID) domain arrangement and its role in T4SS translocation.

The emergence and evolution of gene expression in genome regions replete with regulatory motifs

This study investigates how promoter motifs influence promoter emergence and evolution by mutagenizing promoter islands and measuring gene expression in mutants.

Oligomerisation mediated by the D2 domain of DTX3L is critical for DTX3L-PARP9 reading function of mono-ADP-ribosylated androgen receptor

This study identifies the D2 domain of DTX3L as critical for forming oligomeric complexes that enable the DTX3L-PARP9 complex to read mono-ADP-ribosylated androgen receptor.

The latent cis-regulatory potential of mobile DNA

This study shows that transposable elements in E. coli can evolve de-novo promoter activity through mutations, highlighting their latent cis-regulatory potential.

Horizontal gene transfer of a key translation protein has shaped the polyproline proteome

This study identifies horizontal transfer of the efp gene in bacteria and links it to loss of polyproline motifs and proteins, suggesting functional consequences for genome evolution.

Activation-induced shift in nutrient preference and function-specific nutrient dependence in human neutrophils

This study shows that human neutrophils shift nutrient preference from glycogen to glucose upon activation, with function-specific metabolic dependencies.

A direct experimental test of Ohno's hypothesis

This study experimentally tests Ohno's hypothesis by evolving fluorescent protein genes in E. coli, finding that double-copy populations show increased mutational robustness and diversity but not accelerated phenotypic evolution.

Myeloid-mesenchymal crosstalk drives Arg1-dependent profibrotic metabolism via ornithine in lung fibrosis

The paper identifies a myeloid-mesenchymal crosstalk pathway involving Arg1 and ornithine that drives profibrotic metabolism in lung fibrosis.

The highly rugged yet navigable regulatory landscape of the bacterial transcription factor TetR

This study maps the adaptive landscape of bacterial TetR TFBSs using an in vivo reporter assay, revealing a rugged yet navigable landscape with many high peaks accessible through evolution.

Parallelized Acquisition of Orbitrap and Astral Analyzers Enables High-Throughput Quantitative Analysis.

The paper introduces a new hybrid mass spectrometer combining Orbitrap and Astral analyzers to enable faster and more sensitive high-resolution accurate mass MS/MS spectra acquisition for proteomics.

A longitudinal single-cell therapeutic atlas of anti-tumour necrosis factor treatment in inflammatory bowel disease

This study creates a therapeutic atlas of anti-TNF treatment in IBD, showing disease- and therapy-specific cellular changes and identifying IFN signalling as a potential target for JAK inhibition.

A phase-field model for non-small cell lung cancer under the effects of immunotherapy

This paper develops a phase-field model to simulate NSCLC growth under immunotherapy, showing it can qualitatively describe tumor behavior and predict relapse in patient data.

Clonal associations of lymphocyte subsets and functional states revealed by single cell antigen receptor profiling of T and B cells in rheumatoid arthritis synovium

This study uses single-cell antigen receptor profiling to identify clonal relationships and functional states of T and B cells in RA synovium.

A rugged yet easily navigable fitness landscape of antibiotic resistance

The paper maps the fitness landscape of E. coli DHFR mutants under trimethoprim and finds that while rugged, high fitness peaks are accessible and have large basins of attraction.

Not quite lost in translation: Mistranslation alters adaptive landscape topography and the dynamics of evolution

This study shows mistranslation alters adaptive landscape topography and evolutionary dynamics by changing genotype fitness and mutation effects.

The Formation of Biogenic Guanine Crystals Closely Resembles Melanosome Morphogenesis

This study shows that the formation of biogenic guanine crystals in scallops resembles melanosome morphogenesis in vertebrates, revealing shared mechanisms in crystal template formation.

Integrative Single Cell Multiomic Profiling Analysis Reveals HOX-PBX Gene Regulatory Network Contributing to the Survival of mTOR Hyperactive Cells

This study identifies PBX1 as a critical regulator of LAM progression by analyzing scRNA-seq data and validating its role in LAM cell survival and lung colonization.

Adipose tissue mitochondrial respiration in Atlantic salmon: implications for sex-dependent life-history variation

The paper measures mitochondrial respiration in Atlantic salmon adipose tissue and links it to sex, genotype, and maturation timing.

Rapid evolutionary change in trait correlations of a single protein

This study shows that trait correlations of a single protein can evolve rapidly through mutation and selection, driven by changes in protein foldability.

Functional metagenomic screening in microfluidic droplets identifies a β-glucuronidase in an unprecedented sequence neighbourhood

This study identifies a novel β-glucuronidase from a metagenomic library using microfluidic droplet screening, revealing a new GH3 family member with unique functional and structural properties.

Bartonella taylorii: A model organism for studying Bartonella infection in vitro and in vivo

This paper introduces B. taylorii as a new model organism for studying Bartonella infection, showing improved in vitro and in vivo infectivity under specific growth conditions.

Light activation of Orange Carotenoid Protein reveals bicycle-pedal single-bond isomerization

This study reveals the bicycle-pedal single-bond isomerization of carotenoid in OCP and its thermal recovery, elucidating the mechanism of OCP photoreception.

Structure and function of the ROR2 cysteine-rich domain in vertebrate noncanonical WNT5A signaling

This study determines the structure of ROR2's CRD and Kr domains, revealing a novel mechanism for WNT5A signaling and identifying the CRD's role in ROR2 function and secretion.

The length scale of multivalent interactions is evolutionarily conserved in fungal and vertebrate phase-separating proteins

The paper investigates the evolutionary conservation of multivalency length scale in fungal and vertebrate phase-separating proteins, finding it is maintained despite variation in multivalency.

GroEL/S helps purge deleterious mutations and reduce genetic diversity during adaptive protein evolution

This study shows that GroE chaperones reduce genetic diversity and purge deleterious mutations during adaptive evolution of GFP in E. coli.

Selection on growth rate and local adaptation drive genomic adaptation during experimental range expansions in the protist Tetrahymena thermophila

This study examines genomic adaptation in Tetrahymena thermophila during range expansions, finding sexual reproduction influences genetic architecture and adaptation to environmental gradients.

Ecology drives the evolution of diverse siderophore-production strategies in the opportunistic human pathogen Pseudomonas aeruginosa

The paper shows that Pseudomonas aeruginosa evolves diverse pyoverdine production strategies in different environments, with hyper-producers favored in high viscosity and iron-rich conditions.