[HTML][HTML] Deciphering bacterial epigenomes using modern sequencing technologies

J Beaulaurier, EE Schadt, G Fang - Nature Reviews Genetics, 2019 - nature.com
Prokaryotic DNA contains three types of methylation: N6-methyladenine, N4-methylcytosine
and 5-methylcytosine. The lack of tools to analyse the frequency and distribution of …

A survey of the genetics of stomach, liver, and adipose gene expression from a morbidly obese cohort

…, J Beaulaurier, B Zhang, V Castro, J Zhu… - Genome …, 2011 - genome.cshlp.org
To map the genetics of gene expression in metabolically relevant tissues and investigate
the diversity of expression SNPs (eSNPs) in multiple tissues from the same individual, we …

[HTML][HTML] Liver and adipose expression associated SNPs are enriched for association to type 2 diabetes

H Zhong, J Beaulaurier, PY Lum, C Molony… - PLoS …, 2010 - journals.plos.org
Genome-wide association studies (GWAS) have demonstrated the ability to identify the
strongest causal common variants in complex human diseases. However, to date, the massive …

Metagenomic binning and association of plasmids with bacterial host genomes using DNA methylation

J Beaulaurier, S Zhu, G Deikus, I Mogno… - Nature …, 2018 - nature.com
Shotgun metagenomics methods enable characterization of microbial communities in human
microbiome and environmental samples. Assembly of metagenome sequences does not …

Evolutionary dynamics of Vibrio cholerae O1 following a single-source introduction to Haiti

LS Katz, A Petkau, J Beaulaurier, S Tyler, ES Antonova… - MBio, 2013 - Am Soc Microbiol
Prior to the epidemic that emerged in Haiti in October of 2010, cholera had not been
documented in this country. After its introduction, a strain of Vibrio cholerae O1 spread rapidly …

[HTML][HTML] Single molecule-level detection and long read-based phasing of epigenetic variations in bacterial methylomes

J Beaulaurier, XS Zhang, S Zhu, R Sebra… - Nature …, 2015 - nature.com
Beyond its role in host defense, bacterial DNA methylation also plays important roles in the
regulation of gene expression, virulence and antibiotic resistance. Bacterial cells in a clonal …

Assembly-free single-molecule sequencing recovers complete virus genomes from natural microbial communities

J Beaulaurier, E Luo, JM Eppley, P Den Uyl… - Genome …, 2020 - genome.cshlp.org
Viruses are the most abundant biological entities on Earth and play key roles in host ecology,
evolution, and horizontal gene transfer. Despite recent progress in viral metagenomics, the …

Mapping and characterizing N6-methyladenine in eukaryotic genomes using single-molecule real-time sequencing

S Zhu, J Beaulaurier, G Deikus, TP Wu… - Genome …, 2018 - genome.cshlp.org
… (I,J) Distribution of IPD ratios for partially methylated m 6 dA sites and nonmethylated A's
based on aggregate analysis (I) and single-molecule level analysis (J). The inset provides an …

Novel integrative elements and genomic plasticity in ocean ecosystems

…, E Luo, JM Eppley, AA Zayed, J Beaulaurier… - Cell, 2023 - cell.com
Horizontal gene transfer accelerates microbial evolution. The marine picocyanobacterium
Prochlorococcus exhibits high genomic plasticity, yet the underlying mechanisms are elusive. …

LamPORE: rapid, accurate and highly scalable molecular screening for SARS-CoV-2 infection, based on nanopore sequencing

P James, D Stoddart, ED Harrington, J Beaulaurier… - MedRxiv, 2020 - medrxiv.org
LamPORE™ is a rapid way of testing/screening large numbers of samples for the presence
or absence of SARS-CoV-2, the virus causing COVID-19. It combines barcoded multi-target …