virus

This study identifies noncanonical RNA junctions and hidden coding potential in PEDV using integrated transcriptomic and translatomic approaches.

The paper identifies conserved overlapping accessory ORFs in coronavirus N genes and shows that nucleotide and codon biases drive their formation.

This paper designs a multi-epitope vaccine candidate against Nipah virus using immunoinformatics and reverse vaccinology, identifying VC033_V6_BD_L03 as a lead candidate with high global and regional population coverage.

This study compares how genomic and epigenomic relationships contribute to genotype-by-environment interaction in grapevine clones, finding that epigenomic factors capture more GEI variance than genomic factors.

This study identifies interdomain interactions in PB2 that regulate Influenza virus polymerase conformational transitions and transcription-replication balance, revealing a phosphomimetic adaptation mechanism in bat influenza viruses.

The paper evaluates how handling identical dengue genome records affects inferred envelope-protein variation in a Bangladesh DENV-3 dataset, showing that exclusion strategies can lead to loss of variation.

The paper identifies prokaryotic homologs of the major vault protein that assemble into vault nanocapsules, revealing structural and size variability.

MicrobeRT is a framework of fine-tuned language models for metagenomic analysis, achieving strong performance in taxonomic classification, antibiotic resistance detection, and pathogenicity assessment.

This study identifies cis-acting elements that regulate splicing balance between influenza A virus segment 7 mRNA1 and mRNA2, revealing key sequences that influence M1 and M2 protein expression.

This study shows H5N5 viruses have been repeatedly introduced across the Atlantic by high latitude seabirds, with more frequent introductions in fall and spring, and a distinct ecology from H5N1.

This study recovers ancient DNA from extinct species and human remains on Columbretes Island, revealing biogeographic origins and human-mediated introductions.

This study introduces a stochastic logistic growth model with carrying capacity to analyze mutation dynamics in microbial populations, showing that random fluctuations significantly impact population variability near carrying capacity.

This study maps SARS-CoV-2 protein-RNA interactions using eCLIP, revealing new regulatory sites for viral replication and translation.

The paper introduces PANIMaSTA, a method to construct minimally fragmented metagenomic pangenome graphs for highly diverse viral genomes, improving graph topology for comparative analysis.

This paper evaluates H5Nx influenza virus genotyping tools and finds they often group viruses with distinct evolutionary histories due to reassortment and reference bias.

The paper identifies an RNA-binding protein essential for female gamete development and sporozoite infectivity in Cryptosporidium by analyzing single-cell data and conducting conditional ablation experiments.

The paper infers a multi-host fitness landscape of endive necrotic mosaic virus using cross-inoculation experiments and a Bayesian model linked to Fisher's geometrical model.

The paper reanalyzes sequencing data to reconstruct full-length monkeypox virus transcripts and shows temporal changes in gene regulation and transcript structure.

This study develops a generative framework to infer influenza virus fitness landscapes from sequence data, revealing antigenic determinants and improving evolutionary predictions.

The paper introduces MEMAR, a Maximum Entropy model for predicting m6A methylation in human transcripts and influenza A viral segments, showing improved performance over existing methods.

This study compares the colonization patterns of Pseudomonas chlororaphis M71 and Trichoderma atroviride SC1 in grapevine after stem injection, showing distinct movement and persistence behaviors.

The paper identifies glycosyltransferases involved in the biosynthesis of stilbene glycosides in grapevine wood through metabolomic and genetic analyses.

The paper uses mathematical distances from HA sequences to forecast influenza vaccine effectiveness for the 2026--2027 season, predicting 40% and 57% effectiveness against H1N1 and H3N2, respectively.

The paper detects Giardia lamblia cysts in borehole water in Nigeria using light microscopy, finding 20% positivity in two rounds with no significant difference between rounds.

This study determines the structure of the 2026 Bundibugyo virus glycoprotein and identifies conserved epitopes for antibody therapeutics and pan-ebolavirus vaccines.

Serratus-guided Snakemake mining, expert curation, clustering and phylogenetic placement identify at least 32 putative novel tobamoviruses in public short-read data, mostly Amazon River metatranscriptomes; a random-forest classifier partly automates curation.

This paper develops a synthetic VEEV reporter virus for high-throughput antiviral screening, identifying inhibitors of VEEV replication using FDA-approved compounds.

The paper maps the fragment-binding landscape of SARS-CoV-2 nsp14, identifies promising sites for antiviral drug development, and provides a prioritized resource for future inhibitors.

This study evaluates the antifungal and defence-modulating effects of sodium nitrophenolate product Atonik against fungal trunk diseases in grapevines, showing reduced lesion length and increased defence gene expression.

The paper examines how plant-pollinator networks reorganize across a land-use gradient on Terceira Island, finding that plant species turnover drives network reshuffling and that indigenous generalist pollinators maintain network resilience.