Karim Gharbi

The paper develops lrSAGA, a tool to improve genome assembly from long-read MDA sequencing of single cells, achieving higher completeness and fewer misassemblies.

The paper uses single-cell sequencing to reveal genetic diversity in Bodo flagellates and their bacterial endosymbionts, showing SSU rDNA is insufficient for species classification.

The paper uses whole genome sequencing to analyze genetic differentiation and plasticity in sympatric morphs of Arctic charr across multiple lakes, revealing a polygenic basis and varying levels of reproductive isolation.

This study compares long-read single-cell sequencing platforms, identifying common limitations and demonstrating their utility for isoform-resolved analyses.

The paper uses single-molecule sequencing to show most DNA replication initiation in human cells occurs at dispersed sites, not just previously identified zones.

The paper presents a high-quality genome assembly for the GIANT Nile tilapia strain, enabling the reconstruction of X and Y haplotypes and identifying sex determination loci on LG23.

This study presents a chromosome-scale genome assembly and annotation of Alopecurus aequalis, revealing its genetic similarity to barley and expansion of herbicide resistance genes.

The paper presents a reference genome assembly for the Violet Carpenter Bee, including gene annotation and mitochondrial genome, as part of the European Reference Genome Atlas.

This study annotates the wheat pan-transcriptome de novo and identifies gene diversity and expression patterns across multiple wheat cultivars and tissues.

The paper identifies a non-canonical genetic code in a ciliate where UAA and UAG codons specify different amino acids, challenging the universality of the genetic code.

The paper presents a chromosome-level genome assembly for the GIFT tilapia strain, identifying introgressed regions from O. mossambicus associated with growth and immunity traits.

The paper uses long-read sequencing to identify novel isoforms and splicing regulators during neuronal differentiation in human neuroblastoma cells.

This study compares genetic diversity between wild and laboratory zebrafish strains using RAD-seq, finding higher diversity in wild populations and distinct patterns in different regions.

The paper examines genomic divergence in Drosophila montana to identify cold adaptation signatures, finding 250 genes with accelerated divergence and outlier loci on the X chromosome.