The Natural Products Discovery Center: Release of the First 8490 Sequenced Strains for Exploring Actinobacteria Biosynthetic Diversity

Kalkreuter, E.; Kautsar, S. A.; Yang, D.; Teijaro, C. N.; Bader, C. D.; Fluegel, L. L.; Davis, C. M.; Simpson, J. R.; Steele, A. D.; Gui, C.; Meng, S.; Li, G.; Viehrig, K.; Ye, F.; Su, P.; Kiefer, A. F.; Lauterbach, L.; Nichols, A.; Cepeda, A. J.; Yan, W.; Fan, B.; Jiang, Y.; Adhikari, A.; Zheng, C.-J.; Shen, B.

doi:10.1101/2023.12.14.571759

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bioRxiv · 10.1101/2023.12.14.571759

The Natural Products Discovery Center: Release of the First 8490 Sequenced Strains for Exploring Actinobacteria Biosynthetic Diversity

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Abstract

Actinobacteria, the bacterial phylum most renowned for natural product discovery, has been established as a valuable source for drug discovery and biotechnology but is underrepresented within accessible genome and strain collections. Herein, we introduce the Natural Products Discovery Center (NPDC), featuring 122,449 strains assembled over eight decades, the genomes of the first 8490 NPDC strains (7142 Actinobacteria), and the online NPDC Portal making both strains and genomes publicly available. A comparative survey of RefSeq and NPDC Actinobacteria highlights the taxonomic and biosynthetic diversity within the NPDC collection, including three new genera, hundreds of new species, and [~]7000 new gene cluster families. Selected examples demonstrate how the NPDC Portals strain metadata, genomes, and biosynthetic gene clusters can be leveraged using genome mining approaches. Our findings underscore the ongoing significance of Actinobacteria in natural product discovery, and the NPDC serves as an unparalleled resource for both Actinobacteria strains and genomes.

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Kalkreuter, E., Kautsar, S. A., Yang, D., Teijaro, C. N., Bader, C. D., Fluegel, L. L., Davis, C. M., Simpson, J. R., Steele, A. D., Gui, C., Meng, S., Li, G., Viehrig, K., Ye, F., Su, P., Kiefer, A. F., Lauterbach, L., Nichols, A., Cepeda, A. J., Yan, W., Fan, B., Jiang, Y., Adhikari, A., Zheng, C.-J., Shen, B.. 2023-12-15. The Natural Products Discovery Center: Release of the First 8490 Sequenced Strains for Exploring Actinobacteria Biosynthetic Diversity. https://doi.org/10.1101/2023.12.14.571759

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