Publications

Publications

On the non-oxygenic origins of thylakoids

2025 Cyanobacteria Thylakoids evolution Communications Biology Last author Corresponding author
Publications

A BAC-guided haplotype assembly pipeline increases the resolution of the virus resistance locus CMD2 in cassava

2025 Plant Genetics Genome Biology Corresponding author
Publications

From Cytoplasmic Membrane to Thylakoids: Evolution of Membrane Biogenesis and Photosystem II assembly in early-diverging Cyanobacteria

2025 Cyanobacteria Thylakoids evolution Preprint Last author Corresponding author
Publications

A FAIR Amplicon Sequencing Workflow for Long-term Environmental Monitoring

2025 Cyanobacteria Preprint Last author Corresponding author
Publications

Early-Diverging SQR Enzyme in Antarctic Gloeobacterales Indicates Sulfide Tolerance in Thylakoid-Lacking Cyanobacteria

2025 Cyanobacteria Thylakoids evolution Preprint Last author Corresponding author
Publications

Horizontal Gene Transfers Underpin Ribose Heterotrophy and Central Carbon Metabolism Remodeling in Gloeobacteraceae

2025 Cyanobacteria Thylakoids evolution Preprint Last author Corresponding author
Publications

Taxonomic Description of Uncultured Cyanobacteria from Extreme Habitats through Genome-Based Classification

2025 Cyanobacteria Preprint Corresponding author
Publications

Out of Antarctica: new insights into Antarctic Subcluster 5.2 picocyanobacteria based on high-quality genomes

2025 Cyanobacteria Preprint Corresponding author
Publications

Rapid Radiations Outweigh Reticulations During the Evolution of a 750-Million-Year-Old Lineage of Cyanobacteria

2025 Cyanolichens Molecular Biology and Evolution
Publications

Melissospora conviva gen. nov., sp. nov., a novel actinobacterial genus isolated from beehive through cross-feeding interactions

2025 Actinobacteria International Journal of Systematic and Evolutionary Microbiology
Publications

Evaluation of Genomic Contamination Detection Tools and Influence of Horizontal Gene Transfer on Their Efficiency through Contamination Simulations at Various Taxonomic Ranks

2024 Genomic Contamination Applied Microbiology Corresponding author
Publications

Ancient Rapid Radiation Explains Most Conflicts Among Gene Trees and Well-Supported Phylogenomic Trees of Nostocalean Cyanobacteria

2023 Cyanolichens Systematic Biology
Publications

The GEN-ERA toolbox: unified and reproducible workflows for research in microbial genomics

2023 Genomic workflows GigaScience Corresponding author
Publications

Contamination detection in genomic data: more is not enough

2022 Genomic Contamination Genome Biology
Publications

Phylogenomic Analyses of Snodgrassella Isolates from Honeybees and Bumblebees Reveal Taxonomic and Functional Diversity

2022 Metagenomic mSystems
Publications

Exploring syntenic conservation across genomes for phylogenetic studies of organisms subjected to horizontal gene transfers: A case study with Cyanobacteria and cyanolichens

2021 Cyanolichens Molecular Phylogenetics and Evolution
Publications

ORPER: A Workflow for Constrained SSU rRNA Phylogenies

2021 Cyanobacteria Diversity Estimation Genes
Publications

AMAW: automated gene annotation for non-model eukaryotic genomes

2021 Fungi F1000Research Last author
Publications

The taxonomy of the Trichophyton rubrum complex: a phylogenomic approach

2021 Fungi Microbial Genomics
Publications

Contamination in Reference Sequence Databases: Time for Divide-and-Rule Tactics

2021 Genomic Contamination Frontiers in Microbiology Last author
Publications

ToRQuEMaDA: tool for retrieving queried Eubacteria, metadata and dereplicating assemblies

2021 Genome dereplication PeerJ
Publications

Full-length sequencing of circular DNA viruses and extrachromosomal circular DNA using CIDER-Seq

2020 Plant genomics Nature Protocols
Publications

Palantir: a springboard for the analysis of secondary metabolite gene clusters in large-scale genome mining projects

2020 BGC Bioinformatics
Publications

Cyanobacteria evolution: Insight from the fossil record

2019 Cyanobacteria Fossil Free Radical Biology and Medicine
Publications

A constrained SSU-rRNA phylogeny reveals the unsequenced diversity of photosynthetic Cyanobacteria (Oxyphotobacteria)

2018 Cyanobacteria Diversity estimation BMC Research Notes
Publications

Consensus assessment of the contamination level of publicly available cyanobacterial genomes

2018 Genomic Contamination Cyanobacteria PLOS One
Publications

Draft Genome Sequence of the Axenic Strain Phormidesmispriestleyi ULC007, a Cyanobacterium Isolated from Lake Bruehwiler (Larsemann Hills, Antarctica)

2017 Cyanobacteria Genome Announcements
Publications

High-Throughput Sequencing Analysis of the Actinobacterial Spatial Diversity in Moonmilk Deposits

2018 Actinobacteria Antibiotics
Publications

Metagenomic assembly of new (sub)polar Cyanobacteria and their associated microbiome from non-axenic cultures

2018 Cyanobacteria Polar Microbial Genomics
Publications

The unusual Gasteromycetes Lycogalopsis solmsii belongs to the gomphoid-phalloid group.

2012 Fungi Acta Mycologica
Publications

A Middle Devonian Callixylon (Archaeopteridales) from Ronquières, Belgium

2012 Paleobotany Review of Palaeobotany and Palynology