PXD025129
PXD025129 is an original dataset announced via ProteomeXchange.
Dataset Summary
Title | Raw LC-MS data for Drott et al., 2021 - PNAS |
Description | Fungi produce a wealth of pharmaceutically bioactive secondary metabolites (SMs) from biosynthetic gene clusters (BGCs). It is common practice for drug-discovery efforts to treat species secondary metabolomes as being well represented by a single or a small number of representative genomes. However, this approach misses the possibility that intraspecific population dynamics, such as adaptation to environmental conditions or local microbiomes, may harbor novel BGCs that contribute to the overall niche breadth of species. Using 94 isolates of Aspergillus flavus, a cosmopolitan model fungus, sampled from seven states in the United States, we dereplicate 7,821 BGCs into 92 unique BGCs. We find that more than 25% of pan-genomic BGCs show population-specific patterns of presence-absence or protein divergence. Population-specific BGCs make up most of the accessory-genome BGCs, suggesting that different ecological forces that maintain accessory genomes may be partially mediated by population-specific differences in secondary metabolism. We use ultra-high-performance high resolution mass spectrometry to confirm that these genetic differences in BGCs also result in chemotypic differences in SM production in different populations that could mediate ecological interactions and be acted on by selection. Thus, our results suggest a paradigm shift that previously unrealized population-level reservoirs of SM diversity may be of significant evolutionary, ecological, and pharmaceutical importance. Lastly, we find that several population-specific BGCs from A. flavus are present in Aspergillus parasiticus and Aspergillus minisclerotigenes and discuss how the importance of microevolutionary patterns we uncover inform macroevolutionary inferences and help to align fungal secondary metabolism with existing evolutionary theory. |
HostingRepository | MassIVE |
AnnounceDate | 2021-03-31 |
AnnouncementXML | Submission_2021-03-31_09:06:57.742.xml |
DigitalObjectIdentifier | |
ReviewLevel | Non peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Tomas Allen Rush |
SpeciesList | scientific name: Aspergillus flavus; NCBI TaxID: 5059; scientific name: Aspergillus minisclerotigenes; NCBI TaxID: 656917; |
ModificationList | No PTMs are included in the dataset |
Instrument | instrument model; instrument model |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
---|---|---|---|
0 | 2021-03-31 07:47:53 | ID requested | |
⏵ 1 | 2021-03-31 09:06:58 | announced |
Publication List
no publication |
Keyword List
submitter keyword: secondary metabolism , population genomics, allopatric speciation, eukaryotic pangenome, comparative genome |
Contact List
Milton T. Drott | |
---|---|
contact affiliation | University of Wisconsin-Madison |
contact email | mdrott@wisc.edu |
lab head | |
Tomas Allen Rush | |
contact affiliation | Oak Ridge National Laboratory |
contact email | rushta@ornl.gov |
dataset submitter |
Full Dataset Link List
MassIVE dataset URI |
Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://massive.ucsd.edu/MSV000087134/ |