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PXD011161-1

PXD011161 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleIron regulation in Clostridioides difficile
DescriptionThe response to iron limitation of several bacteria is regulated by the ferric uptake regulator (Fur). The Fur-regulated transcriptional, translational and metabolic networks of the Gram-positive, pathogen Clostridioides difficile were investigated by a combined RNA sequencing, proteomic, metabolomic and electron microscopy approach. At high iron conditions (760 g/l) the C. difficile fur mutant displayed a growth deficiency compared to wild type C. difficile cells. Several iron transporters were found induced by Fur regulation during low iron (11 g/l) conditions. The major adaptation to low iron conditions was observed for the central energy metabolism. Most ferredoxin-dependent amino acid fermentations were found significantly down regulated (had, etf, acd, grd, trx, bdc, hbd). The substrates of these pathways phenylalanine, leucine, glycine and some initial intermediates (phenylpyruvate, oxo-isocaproate, 3-hydroxy-butanoyl-CoA, crotonyl-CoA) were found accumulated, while some end product like isocaproate and butanoate were found reduced. Flavodoxin (fldX) formation and riboflavin biosynthesis (rib) were found enhanced, most likely to replace the missing ferredoxins. Proline reductase (prd), the corresponding ion pumping RNF complex (rnf) and the reaction product 5-aminovalerate were significantly enhanced. An ATP forming ATPase (atpCDGAHFEB,) of the F0F1-type was found induced while the formation of a V-type, mostly proton-pumping, ATP-consuming ATPase (atpDBAFCEKI, was decreased. The [Fe-S] enzyme-dependent pyruvate formate lyase (pfl), formate dehydrogenase (fdh) and hydrogenase (hyd) branch of glucose utilization and glycogen biosynthesis (glg) were significantly reduced, leading to an accumulation of glucose and pyruvate. The formation of [Fe-S] enzyme carbon monoxide dehydrogenase (coo) was inhibited. An intensive remodeling of the cell wall was observed most likely to increase antibiotic resistance. Polyamine biosynthesis (spe) was found induced leading to an accumulation of spermine, spermidine and putrescine. The fur mutant lost most of its flagella. Finally, the CRISPR/Cas and a prophage encoding operon were downregulated. Fur binding sites were found upstream of 20 of the regulated genes. Overall, adaptation to low iron conditions in C. difficile focused on an increase of iron import, significant decrease in metabolic iron utilization and protection during the complex transition.
HostingRepositoryPRIDE
AnnounceDate2019-01-11
AnnouncementXMLSubmission_2019-01-11_00:58:37.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterSandra Maass
SpeciesList scientific name: Clostridioides difficile 050-P50-2011; NCBI TaxID: 997828;
ModificationListmonohydroxylated residue
InstrumentLTQ Orbitrap Elite
Dataset History
RevisionDatetimeStatusChangeLog Entry
02018-09-24 00:41:15ID requested
12019-01-11 00:58:39announced
22024-10-22 04:14:38announced2024-10-22: Updated project metadata.
Publication List
Berges M, Michel AM, Lassek C, Nuss AM, Beckstette M, Dersch P, Riedel K, Sievers S, Becher D, Otto A, Maa, ß S, Rohde M, Eckweiler D, Borrero-de Acu, ñ, a JM, Jahn M, Neumann-Schaal M, Jahn D, . Front Microbiol, 9():3183(2018) [pubmed]
Keyword List
curator keyword: Biological, Biomedical
submitter keyword: Fur, iron regulation, metabolism, iron transport. cell wall, polyamine
Contact List
Dörte Becher
contact affiliationUniversity of Greifswald Institute for Microbiology Department for Microbial Proteomics
contact emaildbecher@uni-greifswald.de
lab head
Sandra Maass
contact affiliationUniversity of Greifswald, Department for Microbial Proteomics
contact emailsandra.maass@uni-greifswald.de
dataset submitter
Full Dataset Link List
Dataset FTP location
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