PXD024608

PXD024608 is an original dataset announced via ProteomeXchange.

Title	Transcriptional landscape of Candida parapsilosis cells assimilating hydroxyaromatic substrates
Description	The pathogenic yeast Candida parapsilosis can utilize a wide range of hydroxyaromatic substrates as sole carbon sources through the 3-oxoadipate pathway (3-OAP) and the gentisate pathway (GP). It was previously established that the genes coding for the components of these pathways are arranged in two metabolic gene clusters. In this study we investigated the transcriptional regulation of these gene clusters, as well as the changes in major metabolic pathways in cells assimilating hydroxyaromates. First, using second and third generation sequencing technologies we determined the genomic sequence of the C. parapsilosis CLIB214 strain. This was then used as a platform to a transcriptomic and proteomic analysis of CLIB214 cells utilizing different substrates of the 3-OAP and the GP. Our results show that the activation of both pathways leads to upregulation of genes related to β-oxidation of fatty acids, glyoxylate cycle, metabolism of amino acids and the biogenesis of peroxisomes. In spite of the similar overall response, we identified quite the difference in gene expression between cells assimilating individual aromatic substrates and surprisingly, not only when comparing the substrates of the 3OAP with the GP substrates, but also between substrates channelled through the same pathway. Moreover, with the phenotype analysis of knockout mutants, we showed evidence that transcription factors Otf1 and Gtf1 function as transcriptional activators of genes coding for core components of the 3-OAP and GP, respectively.
HostingRepository	PRIDE
AnnounceDate	2023-07-28
AnnouncementXML	Submission_2023-07-28_04:22:30.840.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD024608
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	PeterBarath
SpeciesList	scientific name: Candida parapsilosis; NCBI TaxID: 5480;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	LTQ Orbitrap Elite

Revision	Datetime	Status	ChangeLog Entry
0	2021-03-09 05:35:11	ID requested
1	2022-02-01 05:37:12	announced
⏵ 2	2023-07-28 04:22:31	announced	2023-07-28: Updated project metadata.

Cillingov, á A, T, ó, th R, Moj, á, kov, á A, Zeman I, Vrzo, ň, ov, á R, Siv, á, kov, á B, Bar, á, th P, Neboh, á, č, ov, á M, Klepcov, á Z, Br, á, zdovi, č F, Lichancov, á H, Hodorov, á V, Brejov, á B, Vina, ř T, Mutalov, á S, Voz, á, rikov, á V, Mutti G, Tom, á, š, ka Ľ, G, á, cser A, Gabald, ó, n T, Nosek J, Transcriptome and proteome profiling reveals complex adaptations of Candida parapsilosis cells assimilating hydroxyaromatic carbon sources. PLoS Genet, 18(3):e1009815(2022) [pubmed]

10.6019/PXD024608;

submitter keyword: hydroxybenzene, peroxisome, yeast,biochemical pathway evolution, catabolism, hydroxybenzoate, metabolic gene cluster, transcription activator

PeterBarath
contact affiliation	Department of Glycobiology, Institute of Chemistry, Slovak Academy of Sciences, Bratislava, Slovakia
contact email	peter.barath@savba.sk
lab head
PeterBarath
contact affiliation	Institute of Chemistry, Slovak Academy of Sciences
contact email	peter.barath@savba.sk
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD024608
     1. Label: PRIDE project
     2. Name: Transcriptional landscape of Candida parapsilosis cells assimilating hydroxyaromatic substrates