Jesse D. Bloom

This study identifies evolutionary constraints linking Zika virus NS5 replication and interferon antagonism by analyzing fitness landscapes and attenuation in mice.

This study evaluates an H5 mRNA-LNP vaccine in lactating dairy cows, finding it reduces viral replication and disease in mammary glands.

This study uses deep mutational scanning to analyze how amino-acid mutations affect the pH stability and cell entry function of the Junin virus glycoprotein complex.

The study shows that SARS-CoV-2 variants have reduced the ability of human naive B cells to recognize the RBD compared to the original Wuhan-Hu-1 variant.

This study shows bovine H5N1 influenza viruses have adapted to efficiently use NeuGc receptors in cattle, enhancing replication without significantly altering zoonotic risk.

This study reports neutralization titers from 355 human sera against 148 influenza strains, showing reduced neutralization of new H3N2 and H1N1 variants.

This paper computationally designs thermostable miniproteins that neutralize Nipah and Hendra viruses with subnanomolar affinity and potent in vitro antiviral activity.

This study defines how mutations in RSV F protein affect antibody neutralization and shows that resistance to nirsevimab is rare but possible.

The paper investigates how IGHV3-53/3-66 antibodies from Omicron BA.1 infection neutralize emerging SARS-CoV-2 variants through structural and mutational analysis.

The paper identifies molecular interactions between influenza HAs and MHC-II, showing avian MHC-II enables more efficient entry than human MHC-II for most H5 HAs and reveals structural and functional similarities across different HA subtypes.

The paper characterizes mucin VNTR diversity using long-read genomes and identifies disease associations in cystic fibrosis patients.

An mRNA-based influenza vaccine induces broader and more durable B cell responses compared to inactivated influenza virus vaccine in humans.

Across 119 monoclonal germinal centers, B cell affinity rises reliably despite divergent phylogenies. Selection is noisy but persistent; mutability limits exploration. A DMS-based landscape shows saturating fitness and survivorship biases.

This study compares neutralizing antibody titers from egg-derived and recombinant protein influenza vaccines against diverse H1N1 strains, finding that egg-derived vaccines induce less boost against a new clade with specific antigenic mutations.

The paper estimates neutral mutation rates and fitness effects of mutations in influenza proteins using phylogenetic analysis of over 100,000 sequences, revealing context-dependent patterns across viruses.

The paper examines how mutations in the HCoV-229E spike affect receptor binding and serum neutralization, revealing counterbalancing effects on these functions.

A sequencing-based neutralization assay across 78 H3N2 HA strains and 150 sera shows strain growth in 2023 tracks the fraction of sera with low titers, but not pooled-serum titers.

This study measures the functional and antigenic effects of ~8,500 F protein mutations in Nipah virus using pseudoviruses, revealing constraints on its structure and neutralization by antibodies.

The paper compares sequence constraints across influenza HA subtypes and finds that despite similar structures, ~50% of sites show diverged amino-acid preferences.

Sequencing-based neutralization of 91 H3N2 and H1N1 hemagglutinins against 302 human sera (27,409 titers) shows reduced titers to H3N2 subclade K and H1N1 D.3.1.1.

This study examines how SARS-CoV-2 evolved to escape 1,603 antibodies by analyzing mutation dynamics and selective pressures over 3.5 years of the pandemic.

This paper identifies spike mutations in recent SARS-CoV-2 variants that reduce neutralization by human antibodies and clinically relevant monoclonal antibodies, highlighting key sites and mechanisms affecting antigenicity and function.

Booster SARS-CoV-2 mRNA vaccine recruits and broadens GC B cell responses targeting a highly conserved site on receptor binding domain of spike glycoprotein.

The paper identifies fragment binders and mutationally intolerant sites in Zika virus NS2B-NS3 protease to develop resistance-resilient antiviral inhibitors.

This paper identifies a potent, broad neutralizing antibody targeting a glycan-independent V3 epitope on HIV-1 Env, showing enhanced neutralization potency and resistance to escape mutations.

The paper identifies a new broadly neutralizing antibody, 04_A06, with high potency and breadth against HIV-1 strains, showing potential for prevention and therapy.

This study identifies amino-acid mutations in CHIKV envelope proteins that affect entry in human and mosquito cells, revealing species-specific determinants of viral tropism.

Stabilizing H5 HA mutations enhance neutralizing antibody responses by shifting epitope targeting toward the receptor binding site in vaccinated mice.

This study shows RSV F evolution can escape some monoclonal antibodies but does not strongly reduce neutralization by human polyclonal sera, and introduces a tool to measure neutralization against RSV strains.

The paper estimates mutation rates across SARS-CoV-2 genome sites and identifies factors influencing these rates, finding significant variability and patterns related to gene boundaries, sequence context, and RNA structure.