Year: 2024

Sampling Methods in the Arctic

Eric Bortz is a professor at the University of Alaska Anchorage. Bortz presented at London Calling on “MinION Below Zero: sequencing microbes and marine mammals, birds, and the Alaskan coastal environment from low-quality samples, including whale snot”! What a title! I watched this session today to learn about the variety of samples they are sequencing. […]
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Astrobiology and Culture-based Science

Rebecca D. Prescott from the University of Edinburgh in the UK presented at London Calling 2019. The title of the session was ‘O na Hoku no na Kiu o ka Lani: Bridging genomics research and culture-based science education through astrobiology in Hawai’i.” Prescott started by mentioning that they represent a large team supported by numerous […]
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Sampling the James River

Bonnie Brown from the Virginia Commonwealth University presented at London Calling on “An Epidemiological River Metagenome Based on MinION.” James River is a major river that has impacts on the environment. Brown is a conservation biologist curious about the fluctuations in the river’s biodiversity. They began performing whole genome sequencing and identified several epidemiologically relevant […]
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Assembling Redwoods, Giant Sequoia, and a Fungus

“Sequencing and assembling the mega-genomes of mega-trees: the giant sequoia and coast redwood genomes” is the title of the session Steven Salzberg from Johns Hopkins University presented. I was curious why this session was classified as “Metagenomics.” Salzberg works on several different organisms. The project’s first results were released in April 2019, describing the genome […]
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Developing Production Workflows for Long-read Data

Kiran V. Garimella from the Broad Institute spoke at the Nanopore Community Meeting 2019 about “Long-read genomes and transcriptomes on the cloud.” Garimella shared photos of the PromethION 48 at the Broad. They shared a graphic of the amount of data produced at the institute over the last decade. Garimella explained that at one point, […]
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Simcere Diagnostics of Difficult-to-ID Organisms

Weizhi Chen from Simcere Diagnostics presented a lightning talk at the Nanopore Community Meeting 2017 titled “Nanopore metagenomics sequencing for identification of both culture-positive and culture-negative pathogens.”Chen explained how they are using MinION and sequencing for infectious disease diagnostics. These labs are associated with labs in China. The first case report Chen shared was the […]
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Multiple Enzymes and Beads for Longer Metagenomic Reads

Joshua Quick from the University of Birmingham in the UK has developed several Nanopore protocols and tools. Tonight I watched Quick present at London Calling 2019 on “The ‘Three Peaks Challenge’ and developing extraction methods suitable for long-read, ultra-deep stool metagenomics on the PromethION. Quick spoke about how they are studying fecal microbiome transplants for […]
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Mobile Metagenomics with MARTi

Richard Leggett from Earlham Institute in the UK presented at London Calling 2021 on “Real-time metagenomics with MARTi.” MARTi stands for “Metagenomic Analysis in Real Time.” They developed this workflow for rapid diagnostics. Once they developed MARTi, Leggett and the team realized there are numerous applications for “in situ sequencing.” NanoOK has been available but […]
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