S. Kelly

A prion-like protein regulates the 2-dimensional to 3-dimensional growth transition in the moss Physcomitrium patens

This study identifies a prion-like protein that regulates the 2D-to-3D growth transition in moss by altering cytokinin signaling and participating in liquid-liquid phase separation.

Alternative ergosterol biosynthetic pathways confer antifungal drug resistance in the human pathogens within the Mucor species complex

This study identifies Erg3 and Erg6a as key enzymes in the ergosterol biosynthetic pathway of Mucor circinelloides, showing their roles in antifungal drug resistance and virulence.

Nitrogen source and Nod factor signaling map out the assemblies of Lotus japonicus root bacterial communities

The paper investigates how Nod factor signaling and nitrogen sources influence the assembly of root microbiota in Lotus japonicus, identifying distinct microbial states associated with different nutritional conditions.

Long-term survival and induction of operational tolerance to murine islet allografts through the co-transplantation of cyclosporine A eluting microparticles

This study shows that localized cyclosporine A delivery via microparticles combined with CTLA4-Ig reduces islet allograft rejection and induces operational tolerance in mice.

Genetics of Latin American Diversity (GLAD) Project: insights into population genetics and association studies in recently admixed groups in the Americas

The GLAD Project compiles genome-wide data from 54,077 Latin Americans and develops tools for ancestry matching and statistical software evaluation in admixed populations.

Response to Tcherkez and Farquhar: Rubisco adaptation is more limited by phylogenetic constraint than by catalytic trade-off

The paper responds to criticisms of previous findings that phylogenetic constraints limit Rubisco adaptation more than catalytic trade-offs, reaffirming the original conclusions.

Transposable elements contribute to the establishment of the glycine shuttle in Brassicaceae species

This study identifies transposable element insertions in cis-regulatory regions as drivers of differential gene expression in C3-C4 intermediate photosynthesis in Brassicaceae species.

The evolutionary constraints on angiosperm chloroplast adaptation

This study identifies factors constraining molecular evolution rates in angiosperm chloroplast genes, showing location, composition, and expression account for ≥32% of variation.

Rubisco is evolving for improved catalytic efficiency and CO2 assimilation in plants

This study shows rubisco is evolving toward improved catalytic efficiency and CO2 assimilation in plants through molecular and kinetic changes.

Evolutionarily conserved effects of Notch signaling drive intestinal graft-versus-host disease in mice and non-human primates

This study shows that Notch signaling, specifically through DLL4, promotes intestinal GVHD in mice and non-human primates by enhancing effector T-cell infiltration and reducing regulatory T-cell activity.

Thermodynamic coupling between neighboring binding sites in homo-oligomeric ligand sensing proteins from mass resolved ligand dependent population distributions

The paper quantifies thermodynamic coupling between ligand binding sites in homo-oligomeric proteins using statistical models and native mass spectrometry, revealing large differences in cooperativity.

Conditional Stomatal Closure in a Fern Shares Molecular Features with Flowering Plant Active Stomatal Responses

This study shows that active stomatal closure in the fern Ceratopteris richardii shares molecular features with flowering plant responses, suggesting conserved signaling pathways.

Identity and provenance of neighbors, genotype-specific traits and abiotic stress affect intraspecific interactions in the annual legume Medicago truncatula

The paper investigates how genotype-specific traits, abiotic stress, and neighbor identity influence intraspecific interactions in Medicago truncatula, finding that non-kin neighbors promote growth more than kin under low stress.

The economics of organellar gene loss and endosymbiotic gene transfer

This paper shows that energy savings from gene transfer to the nucleus drive organellar gene loss and endosymbiotic gene transfer in mitochondria and chloroplasts.

RuBisCO adaptation is more limited by phylogenetic constraint than by catalytic trade-off

This study shows that phylogenetic constraints, not catalytic trade-offs, primarily limit the evolution of RuBisCO kinetics, despite some trade-offs being present.

NO GAMETOPHORES 2 is a novel regulator of the 2D to 3D growth transition in the moss Physcomitrium patens

This paper identifies PpNOG2 as a regulator of 2D to 3D growth transition in moss, showing its role in cuticle formation and auxin-cytokinin crosstalk.

Distinct signalling routes mediates intercellular and intracellular rhizobial infection in Lotus japonicus

This study identifies distinct genetic and transcriptomic requirements for intercellular rhizobial infection in Lotus japonicus compared to intracellular infection.

A role for neutral variation in the evolution of C4 photosynthesis

The paper shows natural variation in C4 enzyme expression in Arabidopsis and demonstrates that high C4 enzyme expression is neutral in rice, supporting the role of neutral variation in C4 photosynthesis evolution.

Development of humanized mouse and rat models with full-thickness human skin and autologous immune cells

This paper develops humanized mouse and rat models with full-thickness human skin and autologous immune cells to study human host-skin pathogen interactions.

Gene expression data support the hypothesis that Isoetes rootlets are true roots and not modified leaves

Proteome of the secondary plastid of Euglena gracilis reveals metabolic quirks and colourful history

The paper identifies and annotates the plastid proteome of Euglena gracilis, revealing horizontally transferred genes and unique metabolic features.

Neofunctionalisation of basic helix loop helix proteins occurred when plants colonised the land

The paper investigates the evolutionary origin of RSL genes in land plants by comparing their function with a related gene in charophycean algae, suggesting neofunctionalisation occurred after land colonization.

Subdivision of light signalling networks contributes to cellular partitioning of C4 photosynthesis in maize

The paper shows that light signaling network subdivision in maize enables cellular partitioning of C4 photosynthesis genes between mesophyll and bundle sheath cells.

Bile acid metabolites control Th17 and Treg cell differentiation

This study identifies two bile acid metabolites that regulate Th17 and Treg cell differentiation through distinct mechanisms, affecting immune balance in mice.

Gene duplication accelerates the pace of protein gain and loss from plant organelles.

The paper shows gene duplication increases the rate of protein gain and loss in plant organelles, with regulatory functions being more prone to change.

Defining Inflammatory Cell States in Rheumatoid Arthritis Joint Synovial Tissues by Integrating Single-cell Transcriptomics and Mass Cytometry

The paper identifies key inflammatory cell states in RA synovial tissues using integrated single-cell and mass cytometry data from patient samples.

High dimensional analyses of cells dissociated from cryopreserved synovial tissue

This paper establishes a protocol for dissociating cryopreserved synovial tissue to obtain viable cells with preserved transcriptomes and surface markers, enabling high-dimensional analysis of rheumatoid arthritis pathology.

USP7 cooperates with NOTCH1 to drive the oncogenic transcriptionalprogram in T cell leukemia

This study identifies USP7 as a key driver of T-cell leukemia by stabilizing NOTCH1 and JMJD3, showing USP7 inhibition blocks leukemia growth and suggests it as a therapeutic target.

Selection-driven cost-efficiency optimisation of transcripts modulates gene evolutionary rate in bacteria

The paper shows that bacterial genes are subject to multi-objective selection-driven optimisation of codon use, which reduces mutation rates in highly expressed genes.

STRIDE: Species Tree Root Inference From Gene Duplication Events

STRIDE infers species tree roots using gene duplication events, showing accuracy in simulated and real data while handling root ambiguity.