Improving the usability and comprehensiveness of microbial databases

Caitlin Loeffler, Aaron Karlsberg, Lana S. Martin, Eleazar Eskin, David Koslicki, Serghei Mangul

    Research output: Contribution to journalArticle

    Abstract

    Metagenomics studies leverage genomic reference databases to generate discoveries in basic science and translational research. However, current microbial studies use disparate reference databases that lack consistent standards of specimen inclusion, data preparation, taxon labelling and accessibility, hindering their quality and comprehensiveness, and calling for the establishment of recommendations for reference genome database assembly. Here, we analyze existing fungal and bacterial databases and discuss guidelines for the development of a master reference database that promises to improve the quality and quantity of omics research.

    Original languageEnglish (US)
    Article number37
    JournalBMC Biology
    Volume18
    Issue number1
    DOIs
    StatePublished - Apr 7 2020

    All Science Journal Classification (ASJC) codes

    • Biotechnology
    • Structural Biology
    • Ecology, Evolution, Behavior and Systematics
    • Physiology
    • Biochemistry, Genetics and Molecular Biology(all)
    • Agricultural and Biological Sciences(all)
    • Plant Science
    • Developmental Biology
    • Cell Biology

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  • Cite this

    Loeffler, C., Karlsberg, A., Martin, L. S., Eskin, E., Koslicki, D., & Mangul, S. (2020). Improving the usability and comprehensiveness of microbial databases. BMC Biology, 18(1), [37]. https://doi.org/10.1186/s12915-020-0756-z