P. Acharya

Regenerative human liver organoids (HLOs) in a pillar/perfusion plate for hepatotoxicity assays

This paper develops a bioprinted liver organoid system for high-throughput hepatotoxicity assays, showing improved maturity, reproducibility, and regenerative capacity after drug exposure.

Dynamic culture of cerebral organoids using a pillar/perfusion plate for the assessment of developmental neurotoxicity

This study evaluates developmental neurotoxicity using dynamic cerebral organoid cultures in a pillar/perfusion plate, showing methylmercury induces changes in morphology and gene expression under dynamic conditions but not static ones.

Reproducible generation of human liver organoids (HLOs) on a pillar plate platform via microarray 3D bioprinting

This paper develops a microarray 3D bioprinting method to generate human liver organoids on a pillar plate, enabling high-throughput, reproducible hepatotoxicity assays with improved efficiency and function.

SARS-CoV-2 Omicron XBB lineage spike structures, conformations, antigenicity, and receptor recognition

The paper determines cryo-EM structures of SARS-CoV-2 XBB lineage spike proteins, revealing structural changes that enhance immune evasion and receptor binding.

Broadly neutralizing antibody induction by non-stabilized SARS-CoV-2 Spike mRNA vaccination in nonhuman primates

Non-stabilized SARS-CoV-2 Spike mRNA vaccination in macaques induces B cell lineages targeting conserved epitopes on Omicron variants or cross-neutralizing epitopes on Sarbecoviruses.

Engineering immunogens that select for specific mutations in HIV broadly neutralizing antibodies

This study uses molecular dynamics simulations to design HIV-1 immunogens that select for specific mutations in broadly neutralizing antibodies.

Conformational flexibility of HIV-1 envelope glycoproteins modulates transmitted / founder sensitivity to broadly neutralizing antibodies

This paper shows that some HIV-1 transmitted/founder Envs are incompletely closed, making them sensitive to antibodies targeting open conformations, and highlights the importance of Env conformational flexibility for bnAb neutralization.

Alcohol Responsive Genes in the Neutrophils of Acute-On-Chronic Liver Failure Reveal Modulation of Intracellular Calcium, ROS, and Phagocytosis

The paper identifies alcohol-responsive genes in neutrophils of ACLF patients, showing alcohol modulates ROS, phagocytosis, and intracellular calcium, while retaining inflammatory gene expression.

Microsecond dynamics control the HIV-1 envelope conformation

This study uses time-resolved scattering to observe microsecond dynamics in HIV-1 Env, revealing rapid transitions that conventional strategies may not address.

Uniform cerebral organoid culture on a pillar plate by simple and reproducible spheroid transfer from an ultralow attachment well plate

This paper introduces a method to generate reproducible cerebral organoids from iPSCs using a pillar plate platform, improving throughput and reducing variability compared to traditional methods.

A Pillar and Perfusion Plate Platform for Robust Human Organoid Culture and Analysis

This paper introduces a microarray 3D bioprinting platform with pillar and perfusion plates for high-throughput human organoid culture and analysis.

Vaccine induction of CD4-mimicking broadly neutralizing antibody precursors in macaques

This study shows that vaccinating macaques with a CD4bs-targeting immunogen elicits neutralizing bnAb precursors with structural features of CD4-mimicking antibodies.

Isoform-specific targeting properties of the protocadherin CDHR5 control its apical delivery to promote brush border assembly

This study identifies isoform-specific targeting properties of CDHR5 that drive apical delivery and brush border assembly through interactions with EBP50 and E3KARP.

A pillar/perfusion plate enhances cell growth, reproducibility, throughput, and user friendliness in dynamic 3D cell culture

The paper introduces a pillar/perfusion plate for dynamic 3D cell culture, improving growth, reproducibility, throughput, and user friendliness compared to static methods.

Mutation-Guided Vaccine Design: A Strategy for Developing Boosting Immunogens for HIV Broadly Neutralizing Antibody Induction

The paper demonstrates a mutation-guided vaccine strategy that induces HIV broadly neutralizing antibodies in mice by selecting for rare B cell lineage mutations.

Structure-based stabilization of SOSIP Env enhances recombinant ectodomain durability and yield

This paper introduces a proline-stabilization strategy (2P) to enhance the durability and yield of recombinant HIV-1 Env trimers without altering their antigenic or conformational properties.

Structural basis for breadth development in a HIV-1 neutralizing antibody

This paper determines structures of HIV-1 antibodies at different stages of maturation to understand how neutralization breadth develops through affinity optimization.

Cryo-EM structures of SARS-CoV-2 Omicron BA.2 spike

This study determines cryo-EM structures of SARS-CoV-2 Omicron BA.2 spike and compares them to BA.1, revealing structural changes and immune evasion mechanisms.

Structural diversity of the SARS-CoV-2 Omicron spike

The paper compares cryo-EM structures of SARS-CoV-2 Omicron and Delta spikes to analyze conformational changes affecting immune evasion and transmissibility.

Protective transfer: Maternal passive immunization with a rotavirus-neutralizing dimeric IgA protects against rotavirus disease in suckling neonates

Sequence and functional characterization of a public HIV-specific antibody clonotype

The paper characterizes a public HIV-specific antibody clonotype from three individuals, showing that antigen specificity is modulated by VH germline genes and that non-native heavy-light chain pairings maintain consistent antigen recognition.

A broadly neutralizing antibody protects against SARS-CoV, pre-emergent bat CoVs, and SARS-CoV-2 variants in mice

A broadly neutralizing antibody protects against multiple SARS-CoV and SARS-CoV-2 variants in mice by targeting a conserved epitope in the receptor-binding domain.

Effect of natural mutations of SARS-CoV-2 on spike structure, conformation and antigenicity

This study examines how mutations in SARS-CoV-2 spike protein affect its structure, conformation, and antigenicity across variants from different origins.

SARS-CoV-2 vaccination induces neutralizing antibodies against pandemic and pre-emergent SARS-related coronaviruses in monkeys

This study shows that SARS-CoV-2 vaccines induce neutralizing antibodies against SARS-CoV-1, SARS-CoV-2, and batCoVs in monkeys.

Cross-reactive coronavirus antibodies with diverse epitope specificities and extra-neutralization functions

The paper identifies cross-reactive antibodies against multiple coronaviruses, showing they target diverse epitopes and mediate effector functions.

D614G mutation alters SARS-CoV-2 spike conformational dynamics and protease cleavage susceptibility at the S1/S2 junction

This study shows the D614G mutation in SARS-CoV-2 spike protein increases furin cleavage efficiency and alters RBD dynamics through allosteric effects.

Mapping the SARS-CoV-2 spike glycoprotein-derived peptidome presented by HLA class II on dendritic cells

The paper identifies HLA-II-bound peptides from SARS-CoV-2 spike protein presented by dendritic cells, revealing glycan trimming and a receptor-binding motif-rich region for vaccine design.

Cold sensitivity of the SARS-CoV-2 spike ectodomain

The paper shows that the SARS-CoV-2 spike ectodomain construct 2P is cold-sensitive, and this sensitivity is resolved in a down-state stabilized spike.

A glycan cluster on the SARS-CoV-2 spike ectodomain is recognized by Fab-dimerized glycan-reactive antibodies

The paper shows that HIV-1 broadly neutralizing antibodies recognize a glycan cluster on the SARS-CoV-2 spike protein, revealing a potential target for vaccine design.

Fab-dimerized glycan-reactive antibodies neutralize HIV and are prevalent in humans and rhesus macaques

The paper identifies Fab-dimerized glycan-reactive antibodies in HIV-infected macaques and HIV-naïve humans that neutralize HIV-1 and can be elicited by vaccination.