Timothy J. C. Anderson

Misleading inference of schistosome epidemiology from ribosomal internal transcribed spacer (ITS) and mitochondrial DNA

Whole-genome SNVs from Nigerian schistosomes show cox1/ITS genotyping wrongly flags human-derived parasites as recent hybrids or zoonotic infections; they are S. haematobium with low livestock introgression.

Enhanced Pathogenicity and Contact Transmissibility of Human-origin Avian Influenza H5N1 Clade 2.3.4.4b Genotype B3.13 Compared to D1.1 in Ferrets

This study compares the pathogenicity and transmissibility of two H5N1 genotypes in ferrets, finding B3.13 is more pathogenic and transmissible than D1.1, while D1.1 acquires adaptive mutations rapidly.

Pooled amplicon sequencing for characterizing mutations in the praziquantel molecular target TRPMPZQ in schistosome populations from Western Kenya

This study analyzes mutations in the Praziquantel target gene Sm.TRPMPZQ in schistosome populations from Western Kenya to assess their role in drug resistance.

Direct measurement of in vitro response to Praziquantel in Schistosoma mansoni populations from Western Kenya

The paper directly assays PZQ response in S. mansoni worms from Western Kenya and finds no evidence of PZQ resistance.

A Multidimensional Analysis of the Bimodal Piperaquine Response in Plasmodium falciparum

The paper investigates the bimodal piperaquine response in Plasmodium falciparum by analyzing metabolic, transcriptional, and molecular dynamics data to identify the role of plasmepsin II/III copy number and pfcrt mutations.

TRPtracker: a community database for monitoring praziquantel sensitivity at TRPMPZQ variants

TRPtracker aggregates TRPMPZQ variants and their PZQ sensitivity data to monitor resistance and support schistosomiasis control strategies.

Limited Impact of Schistosome Infection on Biomphalaria glabrata Snail Microbiomes

This study investigates how Schistosoma mansoni infection affects the microbiomes of Biomphalaria glabrata snails, finding limited changes in composition and no effect on bacterial density.

Efficient amplicon panels for evaluating hybridization and genetic structure in the Schistosoma haematobium species group

The paper evaluates efficient amplicon panels for detecting hybridization and genetic structure in Schistosoma haematobium, finding that 500 SNVs capture >99% of whole genome genetic information at lower cost.

Bioluminescent reporter influenza A viruses to track viral infections

This paper develops recombinant influenza A viruses expressing nanoluciferase for in vitro and in vivo tracking of viral infections, showing they replicate efficiently and can be imaged using IVIS.

Genetic crosses reveal genomic loci responsible for virulence in Cryptosporidium parvum infection

The paper identifies genomic loci associated with virulence in Cryptosporidium parvum by analyzing genetic crosses and whole-genome sequencing in mice.

A Human H5N1 Influenza Virus Expressing Bioluminescence for Evaluating Viral Infection and Identifying Therapeutic Interventions

This paper develops a bioluminescent H5N1 influenza virus to track infection and test antiviral drugs in vitro and in vivo.

Abundant genetic variation is retained in many laboratory schistosome populations

This study finds that laboratory Schistosoma mansoni populations retain abundant genetic variation, with implications for drug resistance studies and GWAS.

Measuring Growth, Resistance and Recovery after Artemisinin Treatment of Plasmodium falciparum in a semi-high-throughput Assay

This paper develops and validates a qPCR-based assay to measure growth, resistance, and recovery of Plasmodium falciparum after artemisinin treatment, showing distinct phenotypes with independent genetic determinants.

Advantages of outcrossing in Plasmodium falciparum: insights from genetic crosses using fluorescent labelled parasites

The paper investigates the fitness consequences of selfing and outcrossing in malaria parasites using fluorescent-labelled clones and finds an outcrossing advantage linked to faster sporozoite maturation and increased recombination.

Pooled long-read sequencing for structural variant characterization in schistosome populations

This study uses pooled long-read sequencing to identify and genotype 17,446 structural variants in five Schistosoma mansoni populations, revealing population-specific variants and associations with biomedically relevant traits.

Malaria parasite population genomics during an elimination program in Eastern Myanmar

This study analyzes malaria parasite population genomics during an elimination program in Myanmar, finding genetic depauperation, localized transmission, and a dominant kelch13-R561H genotype in 2020.

Organ-Specific Microbiomes of Biomphalaria Snails

The paper investigates organ-specific microbiomes in Biomphalaria snails and finds they are less diverse than hemolymph microbiomes but cluster by physiological function.

Genomic data reveal a north-south split and introgression history of blood fluke (Schistosoma haematobium) populations from across Africa

The paper analyzes genomic data from Schistosoma haematobium populations across Africa, revealing a north-south genetic split and ancient introgression events with S. bovis, with some genes approaching fixation and sex chromosomes showing introgression resistance.

Transcriptional phenotype of the anti-parasitic benzodiazepine meclonazepam on the blood fluke Schistosoma mansoni

This study investigates the transcriptional effects of meclonazepam on Schistosoma mansoni, showing it causes tegument damage and apoptosis, with gene expression patterns similar to but distinct from praziquantel.

A Live Attenuated Vaccine Candidate against Emerging Highly Pathogenic Cattle-Origin 2.3.4.4b H5N1 Viruses

This paper develops a live attenuated vaccine candidate, LPhTXdNS1, against H5N1 influenza viruses and shows it is safe, immunogenic, and protective in mice.

Rapid phenotypic and genotypic change in a laboratory schistosome population

The paper detects recent contamination in a laboratory Schistosoma mansoni population and shows how genetic drift causes divergence in parasite populations over time.

An FPGA-based hardware accelerator supporting sensitivesequence homology filtering with profile hidden Markovmodels

The paper introduces an FPGA-based accelerator for speeding up the SSV algorithm in pHMM alignment, achieving significant speed and energy efficiency improvements.

MalKinID: A Likelihood-Based Model for Identifying Malaria Parasite Genealogical Relationships Using Identity-by-Descent

MalKinID identifies malaria parasite genealogical relationships using IBD proportions and segment distributions, showing high accuracy in outcrossed importations but reduced performance in inbreeding scenarios.

A single locus determines praziquantel response in Schistosoma mansoni

The paper reanalyzes a GWAS to show that a single locus on chromosome 3 determines praziquantel response in Schistosoma mansoni, rather than two loci.

Prospecting for zoonotic pathogens using targeted DNA enrichment

The paper develops a targeted DNA enrichment method using RNA probes to identify zoonotic pathogens in museum-archived tissues, demonstrating its effectiveness in detecting bacterial species.

Using a P. falciparum genetic cross to dissect the relative contributions of pfcrt and plasmepsin II/III to piperaquine response-related traits

This study uses a genetic cross of Plasmodium falciparum isolates to analyze the roles of pfcrt and pm2/3 in piperaquine resistance and fitness traits.

Antigenic diversity in malaria parasites is maintained on extrachromosomal DNA

The paper identifies extrachromosomal DNA enriched with var genes in Plasmodium falciparum, suggesting a mechanism for rapid antigenic diversification.

An amino acid transporter AAT1 plays a pivotal role in chloroquine resistance evolution in malaria parasites

This study identifies pfaat1 as a key gene in chloroquine resistance evolution in malaria parasites, showing it modulates resistance and fitness through amino acid transport.

Optimizing bulk segregant analysis of drug resistance using Plasmodium falciparum genetic crosses conducted in humanized mice

This study optimizes bulk segregant analysis for identifying drug resistance loci in Plasmodium falciparum using genetic crosses in humanized mice, confirming the kelch13 locus and demonstrating the utility of cryopreserved pools.

Genetic analysis of praziquantel response in schistosome parasites implicates a Transient Receptor Potential channel

The paper identifies a transient receptor potential channel (Sm.TRPMPZQ) as the genetic basis for variation in praziquantel response in Schistosoma mansoni.