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Diversity of Secondary Metabolism in Aspergillus nidulans Clinical Isolates

M. T. Drott Orcid Logo, R. W. Bastos, A. Rokas Orcid Logo, L. N. A. Ries, T. Gabaldón, G. H. Goldman Orcid Logo, N. P. Keller Orcid Logo, Claudio Greco Orcid Logo

mSphere, Volume: 5, Issue: 2

Swansea University Author: Claudio Greco Orcid Logo

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DOI (Published version): 10.1128/msphere.00156-20

Abstract

The filamentous fungus Aspergillus nidulans has been a primary workhorse used to understand fungal genetics. Much of this work has focused on elucidating the genetics of biosynthetic gene clusters (BGCs) and the secondary metabolites (SMs) they produce. SMs are both niche defining in fungi and of gr...

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Published in: mSphere
ISSN: 2379-5042
Published: American Society for Microbiology 2020
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URI: https://cronfa.swan.ac.uk/Record/cronfa61519
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Despite the focus on A. nidulans, very little is known about the natural diversity in secondary metabolism within this species. We determined the BGC content and looked for evolutionary patterns in BGCs from whole-genome sequences of two clinical isolates and the A4 reference genome of A. nidulans. Differences in BGC content were used to explain SM profiles determined using liquid chromatography&#x2013;high-resolution mass spectrometry. We found that in addition to genetic variation of BGCs contained by all isolates, nine BGCs varied by presence/absence. We discovered the viridicatumtoxin BGC in A. nidulans and suggest that this BGC has undergone a horizontal gene transfer from the Aspergillus section Nigri lineage into Penicillium sometime after the sections Nigri and Nidulantes diverged. We identified the production of viridicatumtoxin and several other compounds previously not known to be produced by A. nidulans. 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We are also grateful for support from the University of Wisconsin&#x2014;Madison Department of Medical Microbiology and Immunology through the Microbial Doctoral Training Program funded by NIH T32 ES007015 (awarded to M.T.D.) and NIH grant R01AI065728 to N.P.K. A.R. was supported by a National Science Foundation grant (DEB-1442113) and a Discovery Grant from Vanderbilt University. T.G. was supported by a grant from the European Union&#x2019;s Horizon 2020 research and innovation program under grant agreement ERC-2016-724173. We thank the Funda&#xE7;&#xE3;o de Amparo &#xE0; Pesquisa do Estado de S&#xE3;o Paulo (FAPESP), Brazil, for support (grant numbers 2016/ 07870-9 and 2017/14159-2 to G.H.G. and L.N.A.R. and 2019/00631-7, 2017/19821-5 to R.W.B.) and the Conselho Nacional de Desenvolvimento Cient&#xED;fico e Tecnol&#xF3;gico (CNPq), Brazil to G.H.G. We also thank the Sao Paulo Research foundation for financial support awarded to L.N.A.R. 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spelling 2022-10-20T13:11:26.5487323 v2 61519 2022-10-10 Diversity of Secondary Metabolism in Aspergillus nidulans Clinical Isolates cacac6459bd7cf4a241f63661006036f 0000-0003-3067-0999 Claudio Greco Claudio Greco true false 2022-10-10 SBI The filamentous fungus Aspergillus nidulans has been a primary workhorse used to understand fungal genetics. Much of this work has focused on elucidating the genetics of biosynthetic gene clusters (BGCs) and the secondary metabolites (SMs) they produce. SMs are both niche defining in fungi and of great economic importance to humans. Despite the focus on A. nidulans, very little is known about the natural diversity in secondary metabolism within this species. We determined the BGC content and looked for evolutionary patterns in BGCs from whole-genome sequences of two clinical isolates and the A4 reference genome of A. nidulans. Differences in BGC content were used to explain SM profiles determined using liquid chromatography–high-resolution mass spectrometry. We found that in addition to genetic variation of BGCs contained by all isolates, nine BGCs varied by presence/absence. We discovered the viridicatumtoxin BGC in A. nidulans and suggest that this BGC has undergone a horizontal gene transfer from the Aspergillus section Nigri lineage into Penicillium sometime after the sections Nigri and Nidulantes diverged. We identified the production of viridicatumtoxin and several other compounds previously not known to be produced by A. nidulans. One isolate showed a lack of sterigmatocystin production even though it contained an apparently intact sterigmatocystin BGC, raising questions about other genes and processes known to regulate this BGC. Altogether, our work uncovers a large degree of intraspecies diversity in BGC and SM production in this genetic model species and offers new avenues to understand the evolution and regulation of secondary metabolism. Journal Article mSphere 5 2 American Society for Microbiology 2379-5042 Aspergillus nidulans, secondary metabolism, intraspecific variation, horizontal gene transfer, viridicatumtoxin 29 4 2020 2020-04-29 10.1128/msphere.00156-20 COLLEGE NANME Biosciences COLLEGE CODE SBI Swansea University This project was supported by the U.S. Department of Agriculture, National Institute of Food and Agriculture (USDA NIFA) postdoctoral fellowship award 2019-67012-29662 to M.T.D. We are also grateful for support from the University of Wisconsin—Madison Department of Medical Microbiology and Immunology through the Microbial Doctoral Training Program funded by NIH T32 ES007015 (awarded to M.T.D.) and NIH grant R01AI065728 to N.P.K. A.R. was supported by a National Science Foundation grant (DEB-1442113) and a Discovery Grant from Vanderbilt University. T.G. was supported by a grant from the European Union’s Horizon 2020 research and innovation program under grant agreement ERC-2016-724173. We thank the Fundação de Amparo à Pesquisa do Estado de São Paulo (FAPESP), Brazil, for support (grant numbers 2016/ 07870-9 and 2017/14159-2 to G.H.G. and L.N.A.R. and 2019/00631-7, 2017/19821-5 to R.W.B.) and the Conselho Nacional de Desenvolvimento Científico e Tecnológico (CNPq), Brazil to G.H.G. We also thank the Sao Paulo Research foundation for financial support awarded to L.N.A.R. (grant 2017/14159-2). 2022-10-20T13:11:26.5487323 2022-10-10T17:24:37.6745435 Faculty of Science and Engineering School of Biosciences, Geography and Physics - Biosciences M. T. Drott 0000-0001-9715-2200 1 R. W. Bastos 2 A. Rokas 0000-0002-7248-6551 3 L. N. A. Ries 4 T. Gabaldón 5 G. H. Goldman 0000-0002-2986-350x 6 N. P. Keller 0000-0002-4386-9473 7 Claudio Greco 0000-0003-3067-0999 8 61519__25520__f7d145fc50d843c691056dddfc863597.pdf 61519_VoR.pdf 2022-10-20T13:10:33.2367338 Output 1258613 application/pdf Version of Record true © 2020 Drott et al. This is an openaccess article distributed under the terms of the Creative Commons Attribution 4.0 International license true eng https://creativecommons.org/licenses/by/4.0/
title Diversity of Secondary Metabolism in Aspergillus nidulans Clinical Isolates
spellingShingle Diversity of Secondary Metabolism in Aspergillus nidulans Clinical Isolates
Claudio Greco
title_short Diversity of Secondary Metabolism in Aspergillus nidulans Clinical Isolates
title_full Diversity of Secondary Metabolism in Aspergillus nidulans Clinical Isolates
title_fullStr Diversity of Secondary Metabolism in Aspergillus nidulans Clinical Isolates
title_full_unstemmed Diversity of Secondary Metabolism in Aspergillus nidulans Clinical Isolates
title_sort Diversity of Secondary Metabolism in Aspergillus nidulans Clinical Isolates
author_id_str_mv cacac6459bd7cf4a241f63661006036f
author_id_fullname_str_mv cacac6459bd7cf4a241f63661006036f_***_Claudio Greco
author Claudio Greco
author2 M. T. Drott
R. W. Bastos
A. Rokas
L. N. A. Ries
T. Gabaldón
G. H. Goldman
N. P. Keller
Claudio Greco
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container_title mSphere
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container_issue 2
publishDate 2020
institution Swansea University
issn 2379-5042
doi_str_mv 10.1128/msphere.00156-20
publisher American Society for Microbiology
college_str Faculty of Science and Engineering
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hierarchy_top_id facultyofscienceandengineering
hierarchy_top_title Faculty of Science and Engineering
hierarchy_parent_id facultyofscienceandengineering
hierarchy_parent_title Faculty of Science and Engineering
department_str School of Biosciences, Geography and Physics - Biosciences{{{_:::_}}}Faculty of Science and Engineering{{{_:::_}}}School of Biosciences, Geography and Physics - Biosciences
document_store_str 1
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description The filamentous fungus Aspergillus nidulans has been a primary workhorse used to understand fungal genetics. Much of this work has focused on elucidating the genetics of biosynthetic gene clusters (BGCs) and the secondary metabolites (SMs) they produce. SMs are both niche defining in fungi and of great economic importance to humans. Despite the focus on A. nidulans, very little is known about the natural diversity in secondary metabolism within this species. We determined the BGC content and looked for evolutionary patterns in BGCs from whole-genome sequences of two clinical isolates and the A4 reference genome of A. nidulans. Differences in BGC content were used to explain SM profiles determined using liquid chromatography–high-resolution mass spectrometry. We found that in addition to genetic variation of BGCs contained by all isolates, nine BGCs varied by presence/absence. We discovered the viridicatumtoxin BGC in A. nidulans and suggest that this BGC has undergone a horizontal gene transfer from the Aspergillus section Nigri lineage into Penicillium sometime after the sections Nigri and Nidulantes diverged. We identified the production of viridicatumtoxin and several other compounds previously not known to be produced by A. nidulans. One isolate showed a lack of sterigmatocystin production even though it contained an apparently intact sterigmatocystin BGC, raising questions about other genes and processes known to regulate this BGC. Altogether, our work uncovers a large degree of intraspecies diversity in BGC and SM production in this genetic model species and offers new avenues to understand the evolution and regulation of secondary metabolism.
published_date 2020-04-29T04:20:24Z
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