James M. Musser

Gene contribution of Streptococcus dysgalactiae subspecies equisimilis, an emerging pathogen, to experimental primate necrotizing myositis

This study identifies essential and conditionally essential genes in SDSE using TraDIS in vitro and in vivo, highlighting nutrient acquisition as critical for infection.

Intra-host genomic variation of Haemophilus influenzae isolates from asymptomatic nasopharyngeal carriers involves genes encoding proteins with diverse inferred functions

The paper analyzes intra-host genomic variation in Haemophilus influenzae isolates from asymptomatic nasopharyngeal carriers, identifying 120 genes with SNPs and diverse functional roles.

Descriptive Analysis of SARS-CoV-2 Genomics Data from Ambulatory Patients

This paper describes the processing pipeline and findings from SARS-CoV-2 genomics data collected from ambulatory patients treated with neutralizing monoclonal antibodies, showing variant distribution and mutations associated with antibody escape.

Systems Biology Analysis of Human Genomes Points to Key Pathways Conferring Spina Bifida Risk

The paper uses systems biology analysis of whole-genome sequences from 298 SB case-control pairs to identify key pathways and genes associated with spina bifida risk.

Analysis of the ARTIC version 3 and version 4 SARS-CoV-2 primers and their impact on the detection of the G142D amino acid substitution in the spike protein

The paper compares ARTIC V3 and V4 primer sets for SARS-CoV-2 sequencing, finding improved performance and underrepresentation of G142D substitution in early Delta genomes due to V3 primer limitations.

Synthetic repertoires derived from convalescent COVID-19 patients enable discovery of SARS-CoV-2 neutralizing antibodies and a novel quaternary binding modality

The paper identifies SARS-CoV-2 neutralizing antibodies from convalescent patients and describes a novel quaternary binding mechanism using high-throughput methods.

Molecular Architecture of Early Dissemination and Evolution of the SARS-CoV-2 Virus in Metropolitan Houston, Texas

The paper sequences 320 SARS-CoV-2 genomes from Houston to study early pandemic spread, finding diverse origins and no evidence of more virulent strains.

Population genomic molecular epidemiological study of macrolide resistant Streptococcus pyogenes in Iceland,1995-2016: Identification of a large clonal population with a pbp2x mutation conferring reduced in vitro beta-lactam susceptibility

The paper analyzes whole genome sequencing data of macrolide-resistant Streptococcus pyogenes isolates in Iceland to identify clonal populations and resistance mechanisms.

Developing an in silico minimum inhibitory concentration panel test for Klebsiella pneumoniae

This study develops an XGBoost-based machine learning model to predict minimum inhibitory concentrations for 20 antibiotics in Klebsiella pneumoniae using whole genome sequencing data, achieving 92% overall accuracy.