I'm a microbiologist/bioinformatician with experience in microbial ecology and epedimiology. I enjoy building analysis workflows that are accesible to people with no coding background, and making resources for collagues to learn how to code! I’ve worked as a Postdoctoral Research Associate on diverse projects (in the USA and UK), investigating bacterial and viral ecology (both DNA and RNA viruses) in environmental and agricultural. Currently, I work as a bioinformatician, where I focus on developing code and analyzing data for pathogen surveillance and diagnostics.

• 💻 Employment: Bioinformatician in the Diagnosis and Genomic Epidemiology of Pathogens (DxEpiPath) group, IGTP 🇪🇸
• 🌱 Current project: A Nextflow workflow for epidemiological outbreak analysis of Mycobacterium tuberculosis
• 🔭 Broadly working on: SARS-CoV-2 and Mycobacterium tuberculosis surveilance, rapid diagnostics with Oxford Nanopore sequencing
• 🌍 Languages: BASH, R, Nextflow, Python
• 📫 How to reach me: [email protected] || Institutional GitHub

• General workflow for the analysis of microbial (meta)genomic data
• Anatomy of a BASH (WIP)

• Deep sea sponges yield new bacterial strains that may battle pathogens
• #FEMSmicroBlog: Searching for antibiotics in the deep sea
• Rule-breaking anoxic bacteria infected with viruses

• Evolutionary and biological mechanisms underpinning chitin degradation in aquatic fungi

• Dominance of recombinant DWV genomes with changing viral landscapes as revealed in national US honey bee and varroa mite survey
• Host-specific viral predation network on coral reefs
• Sacbrood viruses and select Lake Sinai virus variants dominated Apis mellifera colonies symptomatic for European foulbrood
• A semi-automated and high-throughput approach for the detection of honey bee viruses in bee samples
• Globally distributed bacteriophage genomes reveal mechanisms of tripartite phage-bacteria-coral interactions
• Inducible prophages modulate symbiotic phenotypes in Sargassum-associated bacteria

• Viruses of sulfur oxidizing phototrophs encode genes for pigment, carbon, and sulfur metabolisms
• Whole genomes of deep-sea sponge-associated bacteria exhibit high novel natural product potential

• Impact of growth media and pressure on the diversity and antimicrobial activity of isolates from two species of hexactinellid sponge

• Galleria mellonella larvae exhibit a weight-dependent lethal median dose when infected with methicillin-resistant Staphylococcus aureus

Data anf script utilised in the analysis and writing of my first-author publications, or any publication where it was my responcibility to make code and data available, can be found in the following repositories:

• FigShare | Dominance of recombinant DWV genomes with changing viral landscapes as revealed in national US honey bee and varroa mite survey
• GitHub | Sacbrood viruses and select Lake Sinai virus variants dominated Apis mellifera colonies symptomatic for European foulbrood
  • To be uploaded to FigShare to reclaim storage on my personal github account 😅
• FigShare | A semi-automated and high-throughput approach for the detection of honey bee viruses in bee samples)
• FigShare | Viruses of sulfur oxidizing phototrophs encode genes for pigment, carbon, and sulfur metabolisms