S. Davis

Integration of 168,000 samples reveals global patterns of the human gut microbiome

The paper integrates 168,484 human gut microbiome samples to reveal global patterns, showing widespread presence of Firmicutes and regional differences in microbial genera.

Structural Elucidation of a Protective B cell Epitope on Outer Surface Protein C (OspC) of the Lyme disease spirochete, Borreliella burgdorferi

This paper determines the crystal structure of a protective B cell epitope on OspC, revealing its quaternary nature and informing vaccine design for Lyme disease.

Patterns of community science data use in peer-reviewed research on biodiversity

This study examines how community science data are used in biodiversity research, finding they are mostly applied to birds and invertebrates in the US and UK, but underutilized for threatened species and detailed biodiversity metrics.

α-Arrestins maintain phospholipid balance and Atg18 distribution to permit efficient autophagy

This study identifies a role for α-arrestins in maintaining phospholipid balance and Atg18 distribution to support efficient autophagy.

The kinase occupancy of T-cell coreceptors reconsidered

The paper re-evaluates kinase occupancy of T-cell coreceptors CD4 and CD8β, finding CD4-Lck interaction is stoichiometric while CD8β-Lck is substantial, with structural differences influencing binding.

Obesity Disrupts Pituitary UPR Leading to NAFLD

This study shows obesity disrupts pituitary UPR, leading to NAFLD, and demonstrates that restoring pituitary UPR can ameliorate metabolic defects.

The dual character of the inhibitory functions of CD6

This study investigates CD6's dual inhibitory and costimulatory functions, showing it suppresses T cell responsiveness via its cytoplasmic domain and modulates autoimmunity through extracellular interactions.

SARS-CoV-2 mutations affect proteasome processing to alter CD8+ T cell responses

The paper investigates how mutations in flanking regions of SARS-CoV-2 nucleoprotein epitopes affect proteasome processing and CD8+ T cell responses, finding some mutations reduce responses while others enhance them.

Deep topographic proteomics of a human brain tumour

This paper develops a workflow for spatially-resolved proteomics in human brain tumours, identifying spatial markers and immune-related protein networks in tissue slices.

Dynamic single-cell RNA sequencing reveals BCG vaccination curtails SARS-CoV-2 induced disease severity and lung inflammation

This study uses single-cell RNA sequencing to show BCG vaccination reduces SARS-CoV-2 lung inflammation and disease severity by enhancing antibody production and altering immune cell transcriptional profiles.

ABPP-HT* - Deep meets fast for activity-based profiling of deubiquitylating enzymes using advanced DIA mass spectrometry methods

The paper introduces ABPP-HT*, an improved ABPP method combining high depth and throughput for profiling deubiquitylating enzymes using DIA MS, achieving consistent profiling of 35-40 DUBs with reduced missing values.

Multiple metals influence distinct properties of the Arabidopsis circadian clock

The paper examines how different metal salts affect the circadian clock in Arabidopsis using promoter:luciferase systems and analyzes the results with Fourier and wavelet-based methods.

Network analysis of large phospho-signalling datasets: application to Plasmodium-erythrocyte interactions

The paper applies network analysis to phosphorylation datasets from Plasmodium-infected human red blood cells to identify significant phosphorylation pathways.

The discriminatory power of the T cell receptor

This study measures TCR discriminatory power against pMHC antigens and finds it is imperfect, with T cells responding to low-affinity self pMHC with KD ~1 mM.

T cells exhibit unexpectedly low discriminatory power and can respond to ultra-low affinity peptide-MHC ligands

The paper measures ultra-low TCR/pMHC affinities and finds T cells have low discriminatory power, requiring large affinity differences to trigger responses.

The urban-adapted underground mosquito, Culex molestus, maintains exogenously influenced circadian rhythms despite an absence of photoperiodically induced dormancy

This paper identifies genetic changes in circadian rhythm genes of Culex molestus that correlate with its lack of photoperiodic dormancy and retained exogenous circadian rhythms.

The chaperonin CCT8 controls proteostasis essential for T cell maturation, selection, and function

This study shows that the chaperonin CCT8 is essential for T cell maturation, selection, and function by maintaining proteostasis, and its absence impairs immune protection against helminths.

A Humanized Antibody against LRG1 that Inhibits Angiogenesis and Reduces Retinal Vascular Leakage

A novel USP30 inhibitor recapitulates genetic loss of USP30 and sets the trigger for PINK1-PARKIN amplification of mitochondrial ubiquitylation.

The paper identifies a USP30 inhibitor that mimics genetic loss of USP30, revealing its role in regulating mitochondrial ubiquitylation and mitophagy through TOM complex components.

Robust T-cell signaling triggered on soft polydimethylsiloxane-supported lipid-bilayers

This study investigates T-cell signaling on soft lipid bilayers, finding early calcium signaling is not mechanosensitive but phosphatase exclusion occurs on soft substrates.

The deubiquitylase USP9X controls ribosomal stalling

This study identifies USP9X as a deubiquitylase that regulates ZNF598 stability, impacting ribosomal quality control through modulation of di-ribosome resolution.

Intracellular Neutralization of Ricin Toxin by Single Domain Antibodies Targeting the Active Site Pocket

The paper identifies three potent single-domain antibodies that neutralize ricin toxin by targeting its active site, with structural insights into their mechanism of action.

Prevalent pH controls the capacity of Galdieria maxima to use ammonia and nitrate as a nitrogen source.

This study investigates how pH affects Galdieria maxima's ability to use ammonia and nitrate as nitrogen sources across different strains.

The mitochondrial Ca2+ uniporter MCU is required for normal glucose-stimulated insulin secretion in vitro and in vivo

This study shows that the mitochondrial Ca2+ uniporter MCU is essential for normal glucose-stimulated insulin secretion in pancreatic beta-cells, both in vitro and in vivo.

Melanoblast transcriptome analysis reveals novel pathways promoting melanoma metastasis

The paper analyzes the melanoblast transcriptome to identify genes involved in melanoma metastasis and discovers a 43-gene signature predictive of patient survival.

Molecular determinants of enterotoxigenic Escherichia coli heat-stable toxin secretion and delivery

This study investigates the molecular mechanisms of ST toxin secretion and delivery in ETEC, identifying key factors like TolC and EtpA, and potential therapeutic targets.

Hydrophobicity drives the systemic distribution of lipid-conjugated siRNAs via lipid transport pathways

This study shows that lipid conjugation affects siRNA hydrophobicity, influencing its distribution via lipoprotein pathways and enabling tissue-specific mRNA silencing without toxicity.