Dataset Information

Gestational age-dependent proteome changes in amniotic fluid extracellular vesicles

ABSTRACT: This study isolated and analysed extracellular vesicles from human amniotic fluid derived from routine second-trimester amniocentesis and elective Caesarean section at term. Label-free proteomics identified 4137 proteins with high confidence.

INSTRUMENT(S):

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Amniotic Fluid

SUBMITTER: Ishara Atukorala

LAB HEAD: Lisa Hui

PROVIDER: PXD058882 | Pride | 2025-06-23

REPOSITORIES: Pride

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Source:

			Action	DRS
	231010AFEVsTermvs2ndTrimester.tsv	Tabular
	231012AFEVsTermvs2ndTrimester.sps	Other
	AFEVs2ndtrimester1.raw	Raw
	AFEVs2ndtrimester2.raw	Raw
	AFEVs2ndtrimester3.raw	Raw

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Project description:Background: Cyst formation in parasitic protist Giardia duodenalis is critical to its transmission. Proteomic data is essential for the system-level understanding of the molecular mechanisms managing stage transition from a flagellated, binucleate trophozoite to a tetra-nucleate cyst. The current encystation proteome quantifies 16% of predicted protein coding genes and lacks complete coverage of the developmental transition. Given recent gains in mass spectrometry instrumentation, we have generated significantly improved proteomes for Giardia across encystation, providing framework for transcriptome-proteome correlation drawing insights into molecular networks modulating encystation in Giardia. Results: We have reproducibly identified 3,796 (64.6% of Giardia proteins) and quantified 3,402 proteins (56.12 % of Giardia proteins), tripling the currently published encystation proteome coverage. This includes timepoints from standard trophozoite growth (TY), during low-bile encystation priming (LB), mid-encystation (EC), and enriched, mature cysts (C), making this the first proteome study across the entire encystation process. This is also the first proteome analysis of trophozoites during low bile priming prior to in vitro induction of encystation, and analysis of mature cyst proteomes. Almost 28% (1,102 proteins) of the proteome is differentially changed during encystation including within proteasomal machinery, metabolic pathways and lipid metabolism, indicating a multimodal regulation in encystation. To further understand novel observations in lipid metabolism, we used hidden markov model (HMM) based domain prediction strategies and i-Tasser based structural modelling to provide evidence for the presence of three families of lipid transporters (LTP’s) StARkin (steroidogenic acute regulatory protein–related lipid transfer), ORP/Osh (Oxysterol Binding protein related protein), GLTP (Glycosphingolipid transfer protein) in Giardia. Finally, we performed functional interaction studies using in silico docking of newly identified LTP’s with corresponding lipid ligands to validate their interaction. This identified a shift in lipid species dependency in Giardia as the parasite progress towards cyst formation.

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Gestational age-dependent proteome changes in amniotic fluid extracellular vesicles

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