M. A. Martin

Influenza A genomic diversity during human infections underscores the strength of genetic drift and the existence of tight transmission bottlenecks

This paper analyzes defective viral genomes (DVGs) in influenza A virus infections to show genetic drift drives within-host evolution and transmission bottlenecks limit between-host spread.

Transmission bottleneck size estimation from de novo viral genetic variation

This paper estimates transmission bottleneck sizes using de novo viral genetic variation in recipients, finding tight bottlenecks for influenza A and SARS-CoV-2.

Epidemiological inference for emerging viruses using segregating sites

This paper introduces a tree-free method to infer epidemiological parameters from viral sequence data by analyzing segregating site trajectories, showing it can estimate reproduction numbers and index case timing accurately.

CD4-binding site immunogens elicit heterologous anti-HIV-1 neutralizing antibodies in transgenic and wildtype animals

This study shows that CD4bs immunogens can elicit potent, broad anti-HIV-1 neutralizing antibodies in transgenic and wildtype animals.

Within-host evolutionary dynamics and tissue compartmentalization during acute SARS-CoV-2 infection

This study uses daily saliva and nasal samples to track SARS-CoV-2 genetic variants in infected individuals, revealing stochastic evolution, mutational hotspots, and compartmentalization between sample sites.

Neutralizing antibodies induced in immunized macaques recognize the CD4-binding site on an occluded-open HIV-1 envelope trimer

This study identifies two antibodies from immunized macaques that neutralize HIV-1 by targeting the CD4-binding site on an occluded-open Env trimer conformation.

Mycobacterium tuberculosis DosS binds H2S through its Fe3+ heme iron to regulate the Dos dormancy regulon

This study shows Mycobacterium tuberculosis uses its DosS sensor kinase to detect H2S via Fe3+ heme binding, activating the dormancy regulon.

Antibody elicited by HIV-1 immunogen vaccination in macaques displaces Env fusion peptide and destroys a neutralizing epitope

This study identifies an off-target antibody that displaces the HIV-1 Env fusion peptide and blocks neutralizing epitopes, providing insights for vaccine design.

Reanalysis of deep-sequencing data from Austria points towards a small SARS-COV-2 transmission bottleneck on the order of one to three virions

The paper reanalyzes SARS-CoV-2 deep-sequencing data from Austria and finds the transmission bottleneck is likely very tight, with 1-3 virions.

Prevention and Treatment of SHIVAD8 Infection in Rhesus Macaques by a Potent D-peptide HIV Entry Inhibitor

This study demonstrates that CPT31, a D-peptide HIV entry inhibitor, prevents SHIV infection in rhesus macaques and reduces viral load in chronically infected animals.

A Broadly Neutralizing Macaque Monoclonal Antibody Against the HIV-1 V3-Glycan Patch

This paper reports a broadly neutralizing monoclonal antibody from a macaque infected with SHIVAD8 that targets the V3-glycan patch of HIV-1 Env, showing neutralizing activity and protective efficacy in vivo.

The Dynamics of Influenza A H3N2 Defective Viral Genomes from a Human Challenge Study

This study analyzes defective viral genomes (DVGs) in longitudinal human challenge studies of influenza A H3N2, finding genetic drift drives their evolution rather than selection.