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Genomic mining and diversity of assembly line polyketide synthases
Assembly line polyketide synthases (PKSs) are a large family of multifunctional enzymes responsible for synthesizing many medicinally relevant natural products with remarkable structural variety and biological activity. The decrease in cost of genomic sequencing paired with development of computatio...
Autores principales: | , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
The Royal Society
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10394414/ https://www.ncbi.nlm.nih.gov/pubmed/37528731 http://dx.doi.org/10.1098/rsob.230096 |
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author | Kishore, Shreya Khosla, Chaitan |
author_facet | Kishore, Shreya Khosla, Chaitan |
author_sort | Kishore, Shreya |
collection | PubMed |
description | Assembly line polyketide synthases (PKSs) are a large family of multifunctional enzymes responsible for synthesizing many medicinally relevant natural products with remarkable structural variety and biological activity. The decrease in cost of genomic sequencing paired with development of computational tools like antiSMASH presents an opportunity to survey the vast diversity of assembly line PKS. Mining the genomic data in the National Center for Biotechnology Information database, our updated catalogue (https://orphanpkscatalog2022.stanford.edu/catalog) presented in this article revealed 8799 non-redundant assembly line polyketide synthase clusters across 4083 species, representing a threefold increase over the past 4 years. Additionally, 95% of the clusters are ‘orphan clusters' for which natural products are neither chemically nor biologically characterized. Our analysis indicates that the diversity of assembly line PKSs remains vastly under-explored and also highlights the promise of a genomics-driven approach to natural product discovery. |
format | Online Article Text |
id | pubmed-10394414 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | The Royal Society |
record_format | MEDLINE/PubMed |
spelling | pubmed-103944142023-08-03 Genomic mining and diversity of assembly line polyketide synthases Kishore, Shreya Khosla, Chaitan Open Biol Commentary Assembly line polyketide synthases (PKSs) are a large family of multifunctional enzymes responsible for synthesizing many medicinally relevant natural products with remarkable structural variety and biological activity. The decrease in cost of genomic sequencing paired with development of computational tools like antiSMASH presents an opportunity to survey the vast diversity of assembly line PKS. Mining the genomic data in the National Center for Biotechnology Information database, our updated catalogue (https://orphanpkscatalog2022.stanford.edu/catalog) presented in this article revealed 8799 non-redundant assembly line polyketide synthase clusters across 4083 species, representing a threefold increase over the past 4 years. Additionally, 95% of the clusters are ‘orphan clusters' for which natural products are neither chemically nor biologically characterized. Our analysis indicates that the diversity of assembly line PKSs remains vastly under-explored and also highlights the promise of a genomics-driven approach to natural product discovery. The Royal Society 2023-08-02 /pmc/articles/PMC10394414/ /pubmed/37528731 http://dx.doi.org/10.1098/rsob.230096 Text en © 2023 The Authors. https://creativecommons.org/licenses/by/4.0/Published by the Royal Society under the terms of the Creative Commons Attribution License http://creativecommons.org/licenses/by/4.0/ (https://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use, provided the original author and source are credited. |
spellingShingle | Commentary Kishore, Shreya Khosla, Chaitan Genomic mining and diversity of assembly line polyketide synthases |
title | Genomic mining and diversity of assembly line polyketide synthases |
title_full | Genomic mining and diversity of assembly line polyketide synthases |
title_fullStr | Genomic mining and diversity of assembly line polyketide synthases |
title_full_unstemmed | Genomic mining and diversity of assembly line polyketide synthases |
title_short | Genomic mining and diversity of assembly line polyketide synthases |
title_sort | genomic mining and diversity of assembly line polyketide synthases |
topic | Commentary |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10394414/ https://www.ncbi.nlm.nih.gov/pubmed/37528731 http://dx.doi.org/10.1098/rsob.230096 |
work_keys_str_mv | AT kishoreshreya genomicmininganddiversityofassemblylinepolyketidesynthases AT khoslachaitan genomicmininganddiversityofassemblylinepolyketidesynthases |