Patrick Wincker

The paper presents a new long-read assembly of the Brassica napus Darmor-bzh genome using nanopore sequencing, optical and genetic maps, resulting in a highly contiguous and complete reference genome.

This paper develops a field-friendly framework for characterizing coral holobionts using nanopore sequencing and bioinformatics pipelines, revealing reef-scale bacterial networks and host-specific associations.

This study evaluates eDNA metabarcoding protocols for deep-sea biodiversity, finding that DNA is more reliable than RNA and larger sediment samples improve accuracy.

The paper develops a transcriptome reconstruction method to analyze marine plankton communities using metagenomics and metatranscriptomics, identifying co-abundant gene groups and their functional roles.

The paper investigates population-scale allele-specific expression (psASE) in Oithona similis using metagenomic and metatranscriptomic data, finding that psASE is influenced by population genomic differentiation and linked to natural selection.

The paper investigates sexual dimorphism in Oithona nana by analyzing transcriptomic and protein-protein interaction data, finding male-specific enrichment in LNR domain proteins and pathways related to proteolysis and neurogenesis.

The paper introduces a method to separate host and symbiont reads in holobiont transcriptomes, improving assembly quality and enabling functional analysis.

The paper uses a sequence similarity network to analyze dinoflagellate transcriptomes, identifying novel protein domains linked to toxicity and symbiosis.

The paper presents a high-quality de novo genome assembly of Dekkera bruxellensis UMY321 using Nanopore and Illumina sequencing, providing insights into genomic variability within the species.

This study compares genomes of ameiotic root-knot nematodes to meiotic relatives, finding TE-rich composite genomes from hybridization events that may enhance parasitic success without sex.

The paper analyzes global ocean viruses to uncover their genomic diversity and ecological roles in biogeochemical cycles.

The paper evaluates nanopore-only genome assemblies of yeast isolates using MinION, showing improved contiguity and structural variant detection compared to Illumina-only assemblies.