A5025687001- Yersinia bacterium, plague, ectoparasites research
- Bacillus and Francisella bacterial research
- Forensic and Genetic Research
- Poxvirus research and outbreaks
- Zoonotic diseases and public health
- Archaeology and ancient environmental studies
- Vector-borne infectious diseases
- Forensic Anthropology and Bioarchaeology Studies
- Environmental DNA in Biodiversity Studies
- Genomics and Phylogenetic Studies
- Bacteriophages and microbial interactions
- Brucella: diagnosis, epidemiology, treatment
- Paleopathology and ancient diseases
- Antibiotic Resistance in Bacteria
- Malaria Research and Control
- Salmonella and Campylobacter epidemiology
- Plant-based Medicinal Research
- Bacterial Identification and Susceptibility Testing
- Wildlife Ecology and Conservation
- Isotope Analysis in Ecology
- Species Distribution and Climate Change
- Viral Infections and Vectors
- Dietary Effects on Health
- Animal Diversity and Health Studies
- Historical and Cultural Archaeology Studies
McMaster University
2014-2025
Aastrom Biosciences (United States)
2022-2025
Michigan United
2023
Interface (United States)
2022
Faculty of 1000 (United States)
2021
The 14th–18th century pandemic of Yersinia pestis caused devastating disease outbreaks in Europe for almost 400 years. reasons plague’s persistence and abrupt disappearance are poorly understood, but could have been due to either the presence now-extinct plague foci itself, or successive introductions from other locations. Here we present five Y. genomes one last European plague, 1722 Marseille, France. lineage identified has not found any extant sampled date, its ancestry strains obtained...
Hepatitis B virus (HBV) is a ubiquitous viral pathogen associated with large-scale morbidity and mortality in humans. However, there considerable uncertainty over the time-scale of its origin evolution. Initial shotgun data from mid-16th century Italian child mummy, that was previously paleopathologically identified as having been infected Variola (VARV, agent smallpox), showed no DNA reads for VARV yet did hepatitis (HBV). Previously, electron microscopy provided evidence presence this...
Identification of the nucleotide sequences encoding antibiotic resistance elements and determination their association with are critical to improve surveillance monitor trends in resistance. Current methods study various environments rely on extensive deep sequencing or laborious culturing fastidious organisms, both which heavily time-consuming operations.
Abstract Sedimentary ancient DNA (sedaDNA) has been established as a viable biomolecular proxy for tracking taxon presence through time in local environment, even the total absence of surviving tissues. SedaDNA is thought to survive mineral binding, facilitating long-term preservation, but also challenging isolation. Two common limitations sedaDNA extraction are carryover other substances that inhibit enzymatic reactions, and loss authentic when attempting reduce inhibitor co-elution. Here,...
Abstract Vaccination has transformed public health, most notably including the eradication of smallpox. Despite its profound historical importance, little is known origins and diversity viruses used in smallpox vaccination. Prior to twentieth century, method, source origin vaccinations remained unstandardised opaque. We reconstruct analyse viral vaccine genomes associated with vaccination from artefacts. Significantly, we recover molecules through non-destructive sampling materials lacking...
Age profiling of archaeological bone assemblages can inform on past animal management practices, but is limited by the fragmentary nature fossil record and lack universal skeletal markers for age. DNA methylation clocks offer new, albeit challenging, alternatives estimating age-at-death ancient individuals. Here, we take advantage availability a clock based 31,836 CpG sites dental age in horses to assess predictions 84 remains. We evaluate our approach using whole-genome sequencing data...
Abstract
In the 14th century AD, medieval Europe was severely affected by Great European Famine as well repeated bouts of disease, including Black Death, causing major demographic shifts. This high volatility led to increased mobility and migration due new labor economic opportunities, evidenced documentary stable isotope data. study uses ancient DNA (aDNA) isolated from skeletal remains examine whether evidence for large-scale population movement can be gleaned complete mitochondrial genomes 264...
DNA damage in the form of abasic sites, chemically altered nucleotides, and strand fragmentation is foremost limitation obtaining genetic information from many ancient samples. Upon cell death, continues to endure various chemical attacks such as hydrolysis oxidation, but repair pathways found vivo no longer operate. By incubating degraded with specific enzyme combinations adopted these pathways, it possible reverse some post-mortem nucleic acid prior downstream analyses library preparation,...
Brucellosis is a disease caused by the bacterium Brucella and typically transmitted through contact with infected ruminants. It one of most common chronic zoonotic diseases particular interest to public health agencies. Despite its well-known transmission history characteristic symptoms, we lack more complete understanding evolutionary best-known species— melitensis . To address this knowledge gap fortuitously found, sequenced assembled high-quality ancient B. draft genome from kidney stone...
Abstract Pleistocene glacial-interglacial cycles are correlated with dramatic temperature oscillations. Examining how species responded to these natural fluctuations can provide valuable insights into the impacts of present-day anthropogenic climate change. Here we present a phylogeographic study extinct American mastodon ( Mammut americanum ), based on 35 complete mitochondrial genomes. These data reveal presence multiple lineages within this species, including two distinct clades from...
Ancient DNA preserved in the dental pulp offers opportunity to characterize genome of some deadliest pathogens human history. However, while capture technologies help, focus sequencing efforts, and therefore, reduce experimental costs, recovery ancient pathogen remains challenging. Here, we tracked kinetics Yersinia pestis release solution during a pre-digestion pulp. We found that most Y. is released within 60 min at 37°C our conditions. recommend simple as an economical procedure obtain...
The 14th-18th century pandemic of Yersinia pestis caused devastating disease outbreaks in Europe for almost 400 years. reasons plague's persistence and abrupt disappearance are poorly understood, but could have been due to either the presence now-extinct plague foci itself, or successive introductions from other locations. Here we present five Y. genomes one last European plague, 1722 Marseille, France. lineage identified has not found any extant sampled date, its ancestry strains obtained...
Summary Ancient environmental DNA has been established as a viable biomolecular proxy for tracking taxonomic presence through time in local environment, even the total absence of primary tissues. It is thought that sedimentary ancient (sedaDNA) survives mineral binding. And while these organo-mineral complexes likely facilitate long-term preservation, they also challenge our ability to release and isolate target molecules. Two limitations sedaDNA extraction impede many palaeoenvironmental...
Abstract Barton et al . 1 raise several statistical concerns regarding our original analyses 2 that highlight the challenge of inferring natural selection using ancient genomic data. We show here these have limited impact on conclusions. Specifically, we recover same signature enrichment for high F ST values at immune loci relative to putatively neutral sites after switching allele frequency estimation method a maximum likelihood approach, filtering only consider known human variants, and...