Month: March 2024

Reticulatus

Samuel Nicholls from the University of Birmingham in the UK presented at London Calling on “Long-read nanopore metagenomics for reconstruction of bacterial genomes.” They spoke about the impact of microbial communities on human health and the difficulties we encounter trying to culture some microbes. Nicholls and team published a study sequencing the Zymo mock communities. […]
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User-friendly Computational Workflows

Tonight I watched the EPI2ME updates from Matt Parker, Associate Director of Clinical Bioinformatics at Oxford Nanopore Technologies. We will use EPI2ME next week as part of the Portable Genome Sequencing course, focusing on bacterial genome assembly and metagenomics. This Nanopore Community Meeting Houston update started with a high-energy EPI2ME video highlighting updates to compute […]
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Ultra-long Reads for Sea Snake, Lizard, and Dragon Genomes

I have been reading about the Ultra-long Sequencing Kit from Nanopore to try it this summer. Tonight I found the Ultra-long Reads YouTube playlist from ONT. I watched the session by Jillian Hammond from the Garvan Institute of Medical Research in Australia. They presented on the use of Ultra-long Reads for Australian Reptiles. They noted […]
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Primer Pools and Phylogeographic Analyses

Today we started sequencing in the Portable Genome Sequencing course! We used several Flongle flow cells on the MinION run. I watched the session by Kame A. Galan-Huerta from the Autonomous University of Nuevo Leon, Mexico, tonight. They presented at the Nanopore Community Meeting 2022 on “Identification of resistance mutations to direct-acting antiviral agents against […]
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Fungal-Bacterial Interaction Screens and Plant Pathogens

Manuel Anguita Maeso, a Ph.D. student at the Institute for Sustainable Agriculture at the CSIC in Spain, spoke at the Nanopore Community Meeting 2021. The session’s title was “Unravelling the whole genome of olive antagonist xylem-inhabitant bacteria to fight vascular plant pathogens in olive trees.” I had watched this session previously and wanted to learn […]
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Microbial Bioprospecting in the Desert

Adriel Latorre-Perez from the Darwin Bioprospecting Excellence S.L. in Spain presented at the Nanopore Community Meeting 2021. I had watched this session previously and wanted to review it since I assigned a video this week related to bioprospecting. The title of the session is “A round trip to the desert: in situ nanopore sequencing informs […]
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Characterization of Genetically-modified Microorganisms

Jolien E’aes from Sciensano in Belgium presented at the Nanopore Community Meeting 2021. The title of the presentation is “Characterization of genetically modified microorganisms is facilitated by long-read whole-genome sequencing.” I don’t think I have watched this session before! D’aes explained how Sciensano, the Belgian Institute for Public and Animal Health. They focus on food […]
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Sequencing Phage-Resistant Mutants

Anika Kinkhabwala, a Genomics Manager with EpiBiome, presented at the 2017 Nanopore Community Meeting on “Understanding phage-bacterial host interactions for smarter therapeutics.” They spoke about the trends of antimicrobial resistance. EpiBiome is working with phages. Kinkhabwala noted that phages are very specific and recognize cells. Phage research has been happening since the 1920s. EpiBiome uses […]
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Early Applications of Nanopore Sequencing

Yutaka Suzuki from the University of Tokyo presented at London Calling in 2016 on MinION sequencing of malaria parasites. While this was an older presentation, it provided information on different applications of long-read sequencing. Suzuki and team used MinION sequencing to study mutations with earlier versions of the flow cell: R7.3! Cancer mutations were analyzed […]
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