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Global biogeographic sampling of bacterial secondary metabolism

Recent bacterial (meta)genome sequencing efforts suggest the existence of an enormous untapped reservoir of natural-product-encoding biosynthetic gene clusters in the environment. Here we use the pyro-sequencing of PCR amplicons derived from both nonribosomal peptide adenylation domains and polyketi...

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Autores principales: Charlop-Powers, Zachary, Owen, Jeremy G, Reddy, Boojala Vijay B, Ternei, Melinda A, Guimarães, Denise O, de Frias, Ulysses A, Pupo, Monica T, Seepe, Prudy, Feng, Zhiyang, Brady, Sean F
Formato: Online Artículo Texto
Lenguaje:English
Publicado: eLife Sciences Publications, Ltd 2015
Materias:
Acceso en línea:https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4383359/
https://www.ncbi.nlm.nih.gov/pubmed/25599565
http://dx.doi.org/10.7554/eLife.05048
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author Charlop-Powers, Zachary
Owen, Jeremy G
Reddy, Boojala Vijay B
Ternei, Melinda A
Guimarães, Denise O
de Frias, Ulysses A
Pupo, Monica T
Seepe, Prudy
Feng, Zhiyang
Brady, Sean F
author_facet Charlop-Powers, Zachary
Owen, Jeremy G
Reddy, Boojala Vijay B
Ternei, Melinda A
Guimarães, Denise O
de Frias, Ulysses A
Pupo, Monica T
Seepe, Prudy
Feng, Zhiyang
Brady, Sean F
author_sort Charlop-Powers, Zachary
collection PubMed
description Recent bacterial (meta)genome sequencing efforts suggest the existence of an enormous untapped reservoir of natural-product-encoding biosynthetic gene clusters in the environment. Here we use the pyro-sequencing of PCR amplicons derived from both nonribosomal peptide adenylation domains and polyketide ketosynthase domains to compare biosynthetic diversity in soil microbiomes from around the globe. We see large differences in domain populations from all except the most proximal and biome-similar samples, suggesting that most microbiomes will encode largely distinct collections of bacterial secondary metabolites. Our data indicate a correlation between two factors, geographic distance and biome-type, and the biosynthetic diversity found in soil environments. By assigning reads to known gene clusters we identify hotspots of biomedically relevant biosynthetic diversity. These observations not only provide new insights into the natural world, they also provide a road map for guiding future natural products discovery efforts. DOI: http://dx.doi.org/10.7554/eLife.05048.001
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spelling pubmed-43833592015-04-03 Global biogeographic sampling of bacterial secondary metabolism Charlop-Powers, Zachary Owen, Jeremy G Reddy, Boojala Vijay B Ternei, Melinda A Guimarães, Denise O de Frias, Ulysses A Pupo, Monica T Seepe, Prudy Feng, Zhiyang Brady, Sean F eLife Genomics and Evolutionary Biology Recent bacterial (meta)genome sequencing efforts suggest the existence of an enormous untapped reservoir of natural-product-encoding biosynthetic gene clusters in the environment. Here we use the pyro-sequencing of PCR amplicons derived from both nonribosomal peptide adenylation domains and polyketide ketosynthase domains to compare biosynthetic diversity in soil microbiomes from around the globe. We see large differences in domain populations from all except the most proximal and biome-similar samples, suggesting that most microbiomes will encode largely distinct collections of bacterial secondary metabolites. Our data indicate a correlation between two factors, geographic distance and biome-type, and the biosynthetic diversity found in soil environments. By assigning reads to known gene clusters we identify hotspots of biomedically relevant biosynthetic diversity. These observations not only provide new insights into the natural world, they also provide a road map for guiding future natural products discovery efforts. DOI: http://dx.doi.org/10.7554/eLife.05048.001 eLife Sciences Publications, Ltd 2015-01-19 /pmc/articles/PMC4383359/ /pubmed/25599565 http://dx.doi.org/10.7554/eLife.05048 Text en © 2015, Charlop-Powers et al http://creativecommons.org/licenses/by/4.0/ This article is distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/4.0/) , which permits unrestricted use and redistribution provided that the original author and source are credited.
spellingShingle Genomics and Evolutionary Biology
Charlop-Powers, Zachary
Owen, Jeremy G
Reddy, Boojala Vijay B
Ternei, Melinda A
Guimarães, Denise O
de Frias, Ulysses A
Pupo, Monica T
Seepe, Prudy
Feng, Zhiyang
Brady, Sean F
Global biogeographic sampling of bacterial secondary metabolism
title Global biogeographic sampling of bacterial secondary metabolism
title_full Global biogeographic sampling of bacterial secondary metabolism
title_fullStr Global biogeographic sampling of bacterial secondary metabolism
title_full_unstemmed Global biogeographic sampling of bacterial secondary metabolism
title_short Global biogeographic sampling of bacterial secondary metabolism
title_sort global biogeographic sampling of bacterial secondary metabolism
topic Genomics and Evolutionary Biology
url https://www.ncbi.nlm.nih.gov/pmc/articles/PMC4383359/
https://www.ncbi.nlm.nih.gov/pubmed/25599565
http://dx.doi.org/10.7554/eLife.05048
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