Supplementary information provided with Murray et al.: Discovery of an Antarctic ascidian-associated uncultivated Verrucomicrobia with antimelanoma palmerolide biosynthetic potential
The Antarctic marine ecosystem harbors a wealth of biological and chemical innovation that has risen in concert over millennia since the isolation of the continent and formation of the Antarctic circumpolar current. Scientific inquiry into the novelty of marine natural products produced by Antarctic...
Main Authors: | , , , , , , , , , , |
---|---|
Format: | Other/Unknown Material |
Language: | unknown |
Published: |
2021
|
Subjects: | |
Online Access: | https://zenodo.org/record/5586111 https://doi.org/10.5281/zenodo.5586111 |
id |
ftzenodo:oai:zenodo.org:5586111 |
---|---|
record_format |
openpolar |
spelling |
ftzenodo:oai:zenodo.org:5586111 2023-05-15T13:43:42+02:00 Supplementary information provided with Murray et al.: Discovery of an Antarctic ascidian-associated uncultivated Verrucomicrobia with antimelanoma palmerolide biosynthetic potential Murray, Alison E Lo, Chien-chi Daligault, Hajnalka E Avalon, Nicole E Read, Robert W Davenport, Karen W Higham, Mary L Kunde, Yuliya Dichosa, Armand EK Baker, Bill J Chain, Patrick SG 2021-11-04 https://zenodo.org/record/5586111 https://doi.org/10.5281/zenodo.5586111 unknown doi:10.1101/2021.05.05.442870 doi:10.5061/dryad.8sf7m0cpp doi:10.5281/zenodo.5586110 https://zenodo.org/communities/dryad https://zenodo.org/record/5586111 https://doi.org/10.5281/zenodo.5586111 oai:zenodo.org:5586111 info:eu-repo/semantics/openAccess https://creativecommons.org/licenses/by/4.0/legalcode info:eu-repo/semantics/other other 2021 ftzenodo https://doi.org/10.5281/zenodo.558611110.1101/2021.05.05.44287010.5061/dryad.8sf7m0cpp10.5281/zenodo.5586110 2023-03-11T02:43:13Z The Antarctic marine ecosystem harbors a wealth of biological and chemical innovation that has risen in concert over millennia since the isolation of the continent and formation of the Antarctic circumpolar current. Scientific inquiry into the novelty of marine natural products produced by Antarctic benthic invertebrates led to the discovery of a bioactive macrolide, palmerolide A, that has specific activity against melanoma and holds considerable promise as an anticancer therapeutic. While this compound was isolated from the Antarctic ascidian Synoicum adareanum, its biosynthesis has since been hypothesized to be microbially mediated, given structural similarities to microbially-produced hybrid non-ribosomal peptide-polyketide macrolides. Here, we describe a metagenome-enabled investigation aimed at identifying the biosynthetic gene cluster (BGC) and palmerolide A-producing organism. A 74 Kbp candidate BGC encoding the multi-modular enzymatic machinery (hybrid Type I-trans-AT polyketide synthase-non-ribosomal peptide synthetase and tailoring functional domains) was identified and found to harbor key features predicted as necessary for palmerolide A biosynthesis. Surveys of ascidian microbiome samples targeting the candidate BGC revealed a high correlation between palmerolide-gene targets and a single 16S rRNA gene variant (R=0.83 – 0.99). Through repeated rounds of metagenome sequencing followed by binning contigs into metagenome-assembled genomes, we were able to retrieve a near-complete genome (10 contigs) of the BGC-producing organism, a novel verrucomicrobium within the Opitutaceae family that we propose here as Candidatus Synoicihabitans palmerolidicus. The refined genome assembly harbors five highly similar BGC copies, along with structural and functional features that shed light on the host-associated nature of this unique bacterium. The GFF File needs to be read in a genome editing program. Funding provided by: National Institutes of HealthCrossref Funder Registry ID: ... Other/Unknown Material Antarc* Antarctic Zenodo Antarctic The Antarctic |
institution |
Open Polar |
collection |
Zenodo |
op_collection_id |
ftzenodo |
language |
unknown |
description |
The Antarctic marine ecosystem harbors a wealth of biological and chemical innovation that has risen in concert over millennia since the isolation of the continent and formation of the Antarctic circumpolar current. Scientific inquiry into the novelty of marine natural products produced by Antarctic benthic invertebrates led to the discovery of a bioactive macrolide, palmerolide A, that has specific activity against melanoma and holds considerable promise as an anticancer therapeutic. While this compound was isolated from the Antarctic ascidian Synoicum adareanum, its biosynthesis has since been hypothesized to be microbially mediated, given structural similarities to microbially-produced hybrid non-ribosomal peptide-polyketide macrolides. Here, we describe a metagenome-enabled investigation aimed at identifying the biosynthetic gene cluster (BGC) and palmerolide A-producing organism. A 74 Kbp candidate BGC encoding the multi-modular enzymatic machinery (hybrid Type I-trans-AT polyketide synthase-non-ribosomal peptide synthetase and tailoring functional domains) was identified and found to harbor key features predicted as necessary for palmerolide A biosynthesis. Surveys of ascidian microbiome samples targeting the candidate BGC revealed a high correlation between palmerolide-gene targets and a single 16S rRNA gene variant (R=0.83 – 0.99). Through repeated rounds of metagenome sequencing followed by binning contigs into metagenome-assembled genomes, we were able to retrieve a near-complete genome (10 contigs) of the BGC-producing organism, a novel verrucomicrobium within the Opitutaceae family that we propose here as Candidatus Synoicihabitans palmerolidicus. The refined genome assembly harbors five highly similar BGC copies, along with structural and functional features that shed light on the host-associated nature of this unique bacterium. The GFF File needs to be read in a genome editing program. Funding provided by: National Institutes of HealthCrossref Funder Registry ID: ... |
format |
Other/Unknown Material |
author |
Murray, Alison E Lo, Chien-chi Daligault, Hajnalka E Avalon, Nicole E Read, Robert W Davenport, Karen W Higham, Mary L Kunde, Yuliya Dichosa, Armand EK Baker, Bill J Chain, Patrick SG |
spellingShingle |
Murray, Alison E Lo, Chien-chi Daligault, Hajnalka E Avalon, Nicole E Read, Robert W Davenport, Karen W Higham, Mary L Kunde, Yuliya Dichosa, Armand EK Baker, Bill J Chain, Patrick SG Supplementary information provided with Murray et al.: Discovery of an Antarctic ascidian-associated uncultivated Verrucomicrobia with antimelanoma palmerolide biosynthetic potential |
author_facet |
Murray, Alison E Lo, Chien-chi Daligault, Hajnalka E Avalon, Nicole E Read, Robert W Davenport, Karen W Higham, Mary L Kunde, Yuliya Dichosa, Armand EK Baker, Bill J Chain, Patrick SG |
author_sort |
Murray, Alison E |
title |
Supplementary information provided with Murray et al.: Discovery of an Antarctic ascidian-associated uncultivated Verrucomicrobia with antimelanoma palmerolide biosynthetic potential |
title_short |
Supplementary information provided with Murray et al.: Discovery of an Antarctic ascidian-associated uncultivated Verrucomicrobia with antimelanoma palmerolide biosynthetic potential |
title_full |
Supplementary information provided with Murray et al.: Discovery of an Antarctic ascidian-associated uncultivated Verrucomicrobia with antimelanoma palmerolide biosynthetic potential |
title_fullStr |
Supplementary information provided with Murray et al.: Discovery of an Antarctic ascidian-associated uncultivated Verrucomicrobia with antimelanoma palmerolide biosynthetic potential |
title_full_unstemmed |
Supplementary information provided with Murray et al.: Discovery of an Antarctic ascidian-associated uncultivated Verrucomicrobia with antimelanoma palmerolide biosynthetic potential |
title_sort |
supplementary information provided with murray et al.: discovery of an antarctic ascidian-associated uncultivated verrucomicrobia with antimelanoma palmerolide biosynthetic potential |
publishDate |
2021 |
url |
https://zenodo.org/record/5586111 https://doi.org/10.5281/zenodo.5586111 |
geographic |
Antarctic The Antarctic |
geographic_facet |
Antarctic The Antarctic |
genre |
Antarc* Antarctic |
genre_facet |
Antarc* Antarctic |
op_relation |
doi:10.1101/2021.05.05.442870 doi:10.5061/dryad.8sf7m0cpp doi:10.5281/zenodo.5586110 https://zenodo.org/communities/dryad https://zenodo.org/record/5586111 https://doi.org/10.5281/zenodo.5586111 oai:zenodo.org:5586111 |
op_rights |
info:eu-repo/semantics/openAccess https://creativecommons.org/licenses/by/4.0/legalcode |
op_doi |
https://doi.org/10.5281/zenodo.558611110.1101/2021.05.05.44287010.5061/dryad.8sf7m0cpp10.5281/zenodo.5586110 |
_version_ |
1766192220123168768 |