Paolo Ribeca

A 21-case nightclub-linked meningococcal outbreak variant differed from its closest relatives by horizontal gene transfer from carriage-associated Neisseria, affecting iron acquisition and type IV pili genes.

This paper reports the genome sequence and annotation of ovine herpesvirus-1, identifying conserved and unique genes among macaviruses.

The paper introduces diagnostic methods to evaluate the reliability of dated phylogenies in microbial population genetics without model comparison.

This study characterizes phage-plasmids in clinical Enterobacteriaceae isolates, finding they are common and associated with antimicrobial resistance and disease severity.

KPop provides a scalable method for comparing microbial genomes using sequence embeddings, accurately separating sequences at species and sub-species levels.

GIN-TONIC indexes graph-genomes for efficient substring queries without explicitly storing all walks, showing scalability on human pangenome and transcriptome data.

KmerAperture distinguishes core and accessory sequence differences between bacterial genomes using k-mer positions without alignment, outperforming existing k-mer tools.

This study identifies phage-plasmids in multiple Salmonella serovars, showing their prevalence and serovar-specific distribution, with implications for antimicrobial resistance transmission.

The paper estimates the almond genome size and assembly, identifies transposable elements (TEs) as key drivers of divergence between almond and peach genomes, and highlights TE insertions affecting gene expression in traits like kernel taste and mesocarp formation.

This paper introduces MPEG-G, an ISO standard for genomic data compression, highlighting its format, decoding process, and interoperability features.

This study benchmarks somatic mutation calling in cancer genomes, identifying inconsistencies and proposing solutions to improve accuracy.

This study compares whole genome sequencing pipelines across five centers using a uniform tumor-normal sample pair, identifying factors affecting output consistency.