PXD023205

PXD023205 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Experimental validation of a central carbon metabolic model in Aspergillus niger to enable metabolic engineering of a fungal cell factory
Description	The influence of selected pentose catabolic pathway (PCP) deletion strains on growth of plant biomass and re-routing of sugar catabolism was addressed to gain a better understanding of the flexibility of the fungus Aspergillus niger in using plant biomass-derived monomers. The transcriptome, metabolome and proteome response of three PCP mutant strains grown on wheat bran (WB) and sugar beet pulp (SBP) were evaluated. Proteomics samples were digested with trypsin then analyzed by LC-MS/MS with fractionation. Metabolomics samples were derivitized using a modified Fiehn protocol and analyzed by GC-MS with FAME added for retention alignment. Proteomics data was searched with MS-GF+ using PNNL's DMS Processing pipeline.
HostingRepository	MassIVE
AnnounceDate	2022-08-16
AnnouncementXML	Submission_2022-08-16_10:07:11.192.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Matthew Monroe
SpeciesList	scientific name: Aspergillus niger; NCBI TaxID: 5061;
ModificationList	Oxidation
Instrument	Q Exactive Plus; instrument model

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2020-12-17 16:02:24	ID requested
⏵ 1	2022-08-16 10:07:12	announced

Publication List

Chroumpi T, Peng M, Markillie LM, Mitchell HD, Nicora CD, Hutchinson CM, Paurus V, Tolic N, Clendinen CS, Orr G, Baker SE, M, ä, kel, ä MR, de Vries RP, Re-routing of Sugar Catabolism Provides a Better Insight Into Fungal Flexibility in Using Plant Biomass-Derived Monomers as Substrates. Front Bioeng Biotechnol, 9():644216(2021) [pubmed]

Chroumpi T, Peng M, Markillie LM, Mitchell HD, Nicora CD, Hutchinson CM, Paurus V, Tolic N, Clendinen CS, Orr G, Baker SE, M, ä, kel, ä MR, de Vries RP, Re-routing of Sugar Catabolism Provides a Better Insight Into Fungal Flexibility in Using Plant Biomass-Derived Monomers as Substrates. Front Bioeng Biotechnol, 9():644216(2021) [pubmed]

Keyword List

submitter keyword: lignocellulosic substrates, pentose catabolic pathway, D-galacturonic acid catabolic pathway, L-rhamnose catabolic pathway,, wheat bran, sugar beet pulp, CAZymes

submitter keyword: lignocellulosic substrates, pentose catabolic pathway, D-galacturonic acid catabolic pathway, L-rhamnose catabolic pathway,, wheat bran, sugar beet pulp, CAZymes

Contact List

Ronald de Vries
contact affiliation	Westerdijk Fungal Biodiversity Institute
contact email	r.devries@wi.knaw.nl
lab head
Matthew Monroe
contact affiliation	Pacific Northwest National Laboratory
contact email	matthew.monroe@pnnl.gov
dataset submitter

Full Dataset Link List

MassIVE dataset URI
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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/MSV000086614/