PXD025129

PXD025129 is an original dataset announced via ProteomeXchange.

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

Revision	Datetime	Status	ChangeLog Entry
0	2021-03-31 07:47:53	ID requested
⏵ 1	2021-03-31 09:06:58	announced

no publication

submitter keyword: secondary metabolism , population genomics, allopatric speciation, eukaryotic pangenome, comparative genome

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

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/