T. D. Otto

Spatial transcriptomics reveals recasting of signalling networks in the small intestine following tissue invasion by the helminth parasite Heligmosomoides polygyrus

This study uses spatial transcriptomics to analyze gene expression changes in the small intestine of H. polygyrus-infected mice, identifying altered signaling pathways and cell interactions during infection.

A comprehensive analysis of rheumatoid arthritis B cells reveals the importance of CD11c+ve double-negative-2 B cells as the major synovial plasma cell precursor.

This study identifies CD11c+ve double-negative-2 B cells as the major synovial plasma cell precursor in rheumatoid arthritis using single-cell RNA and repertoire sequencing.

Profiling the bloodstream form and procyclic form Trypanosoma brucei cell cycle using single cell transcriptomics

This study uses single-cell transcriptomics to profile cell cycle dynamics in two forms of Trypanosoma brucei, identifying conserved and form-specific gene expression patterns.

Integrative single cell and spatial transcriptomic analysis reveal reciprocal microglia - plasma cell crosstalk in the mouse brain during chronic Trypanosoma brucei infection

This study uses single cell and spatial transcriptomics to identify microglia-plasma cell interactions in the mouse brain during chronic T. brucei infection.

Host cell maturation modulates parasite invasion and sexual differentiation in Plasmodium.

This study shows that host cell maturation state drives Plasmodium invasion and sexual differentiation in erythropoietic niches.

Single cell transcriptomic analysis of bloodstream form Trypanosoma brucei reconstructs cell cycle progression and differentiation via quorum sensing

This study uses scRNA-seq to analyze differentiation in Trypanosoma brucei, identifying gene expression patterns and regulators during cell cycle progression and quorum sensing.

TCRβ Sequencing Reveals Spatial and Temporal Evolution of Clonal CD4 T cell Responses in a Breach of Tolerance Model of Inflammatory Arthritis

The paper uses TCRβ sequencing to track CD4 T cell clonality and diversity in a mouse model of inflammatory arthritis, finding increased clonality and diversity in lymph nodes over time, with implications for tolerogenic therapy timing.

COVID-19 and Rheumatoid Arthritis share myeloid pathogenic and resolving pathways

This study identifies shared myeloid pathways between COVID-19 pneumonitis and RA synovitis, highlighting MerTK as a therapeutic target for both conditions.

Tolerance induction in memory CD4 T cells is partial and reversible

This study shows that memory CD4 T cells can partially tolerate antigen re-exposure but can be reversed by adjuvant-containing reactivation.

Transcriptional and genomic parallels between the monoxenous parasite Herpetomonas muscarum and Leishmania

This paper compares the genome and transcriptome of the monoxenous trypanosomatid Herpetomonas muscarum with the dixenous parasite Leishmania during insect infection, finding conserved features in host interaction.

Plasmodium falciparum schizont stage transcriptome variation among clinical isolates and laboratory-adapted clones

The paper analyzes transcriptome variation in Plasmodium falciparum schizonts across clinical isolates and lab-adapted clones using RNA-seq, identifying genes with differential expression and validating findings with RT-qPCR.

Genomes of all known members of a Plasmodium subgenus reveal paths to virulent human malaria

The paper sequenced genomes of all known Laverania Plasmodium species to understand evolutionary mechanisms and identify features enabling P. falciparum's virulence in humans.