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Separation of proteome of Kuenenia stuttgartiensis strain CSTR1 using size exclusion chromatography in 0.5 mL fractions

ABSTRACT: We analyzed proteome of the anammox bacterium Kuenenia stuttgartiensis strain CSTR1 after separation by size exclusion chromatography. Each fraction has a volume of 0.5 mL.

INSTRUMENT(S):

ORGANISM(S): Candidatus Kuenenia Stuttgartiensis

SUBMITTER: Chang Ding

LAB HEAD: Chang Ding

PROVIDER: PXD054988 | Pride | 2025-02-03

REPOSITORIES: Pride

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			Action	DRS
	AmxFrenchPress_F0.raw	Raw
	AmxFrenchPress_F0_F24_saveSpectra_normGapDH.msf	Msf
	AmxFrenchPress_F1.raw	Raw
	AmxFrenchPress_F10.raw	Raw
	AmxFrenchPress_F11.raw	Raw

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Separation of proteome of Kuenenia stuttgartiensis strain CSTR1 using size exclusion chromatography in 0.1 mL fractions

Project description:We analyzed proteome of the anammox bacterium Kuenenia stuttgartiensis strain CSTR1 after separation by size exclusion chromatography. Each fraction has a volume of 0.1 mL. Elution volume is between 11.5 and 13.9 mL

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Separation of prefractionated proteins of Kuenenia stuttgartiensis strain CSTR1 using size exclusion chromatograph after ultracentrifugation and ultrafiltration

Project description:We analyzed the prefractionated sample of the anammox bacterium Kuenenia stuttgartiensis strain CSTR1 after separation by size exclusion chromatograph. The prefractionated sample was obtained by first ultracentrifuging the cell extract and taking the intermediate fraction (the liquid fraction that was directly above the membrane pellet), and then ultrafiltering the intermediate fraction using 100kDa filter and taking the retained fraction.

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Separation of proteome of Kuenenia stuttgartiensis strain CSTR1 using anion exchange chromatography

Project description:We analyzed proteome of the anammox bacterium Kuenenia stuttgartiensis strain CSTR1 after separation by anion exchange chromatography. Each fraction has a volume of 0.2 or 0.4 mL.

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MicroRNAs are Transported in Plasma and Delivered to Recipient Cells by High-Density Lipoproteins (Human HDL and Exosome miRNA Signatures)

Project description:Circulating microRNAs (miRNA) are relatively stable in plasma and are a new class of disease biomarkers. Here we present evidence that human high-density lipoprotein (HDL) transports endogenous miRNAs and delivers them to recipient cells with functional targeting capabilities. Highly-purified fractions of human HDL contain small RNAs, and the HDL-miRNA profile from normal subjects is significantly different than familial hypercholesterolemia subjects. miRNAs were demonstrated to associate with both native and reconstituted HDL particles, and reconstituted HDL injected into mice retrieved distinct miRNA profiles from normal and atherogenic models. Cellular export of miRNAs to HDL was demonstrated to be regulated by neutral sphingomyelinase. HDL-mediated delivery of miRNAs to recipient cells was demonstrated to be scavenger receptor BI-dependent. Furthermore, HDL delivery of both exogenous and endogenous miRNAs resulted in the direct targeting of mRNA reporters. Notably, HDL-miRNA from atherosclerotic subjects induced differential gene expression, with significant loss of conserved mRNA targets in cultured hepatocytes. Collectively, these observations suggest that HDL participates in a novel mechanism of intercellular communication involving the transport and delivery of miRNAs. Human HDL and Exosome miRNA Signatures Profiled miRNA signatures from HDL and exosome in matched subjects

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Separation of proteome of Kuenenia stuttgartiensis strain CSTR1 using ultracentrifugation

Project description:We analyzed proteome of the anammox bacterium Kuenenia stuttgartiensis strain CSTR1 after separation by ultracentrifugation. Samples of the original cell extracts, membrane fraction, intermediate fraction (the liquid fraction that was directly above the membrane pellet), and cytosolic fraction were processed and analyzed.

2025-02-03 | PXD054936 | Pride

MicroRNAs are Transported in Plasma and Delivered to Recipient Cells by High-Density Lipoproteins

Project description:This SuperSeries is composed of the following subset Series: GSE25108: MicroRNAs are Transported in Plasma and Delivered to Recipient Cells by High-Density Lipoproteins (Human HDL miRNA Signatures) GSE25110: MicroRNAs are Transported in Plasma and Delivered to Recipient Cells by High-Density Lipoproteins (Human HDL and Exosome miRNA Signatures) GSE25149: MicroRNAs are Transported in Plasma and Delivered to Recipient Cells by High-Density Lipoproteins (Human exosome, LDL, and HDL miRNA Signatures) GSE25150: MicroRNAs are Transported in Plasma and Delivered to Recipient Cells by High-Density Lipoproteins (Mouse HDL signatures from WT and LDLR-/- high fat diet) GSE25311: MicroRNAs are Transported in Plasma and Delivered to Recipient Cells by High-Density Lipoproteins (HG-U133 2.0) GSE25424: MicroRNAs are Transported in Plasma and Delivered to Recipient Cells by High-Density Lipoproteins (microRNA signatures retrieved from rHDL injected into WT, ApoE-/- chow, ApoE-/-high fat diet) Refer to individual Series

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MicroRNAs are Transported in Plasma and Delivered to Recipient Cells by High-Density Lipoproteins (Human exosome, LDL, and HDL miRNA Signatures)

Project description:Circulating microRNAs (miRNA) are relatively stable in plasma and are a new class of disease biomarkers. Here we present evidence that human high-density lipoprotein (HDL) transports endogenous miRNAs and delivers them to recipient cells with functional targeting capabilities. Highly-purified fractions of human HDL contain small RNAs, and the HDL-miRNA profile from normal subjects is significantly different than familial hypercholesterolemia subjects. miRNAs were demonstrated to associate with both native and reconstituted HDL particles, and reconstituted HDL injected into mice retrieved distinct miRNA profiles from normal and atherogenic models. Cellular export of miRNAs to HDL was demonstrated to be regulated by neutral sphingomyelinase. HDL-mediated delivery of miRNAs to recipient cells was demonstrated to be scavenger receptor BI-dependent. Furthermore, HDL delivery of both exogenous and endogenous miRNAs resulted in the direct targeting of mRNA reporters. Notably, HDL-miRNA from atherosclerotic subjects induced differential gene expression, with significant loss of conserved mRNA targets in cultured hepatocytes. Collectively, these observations suggest that HDL participates in a novel mechanism of intercellular communication involving the transport and delivery of miRNAs. Human exosome, LDL, and HDL miRNA Signatures Profiled miRNA signatures from exosome, LDL, HDL in same subject

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Project description:Circulating microRNAs (miRNA) are relatively stable in plasma and are a new class of disease biomarkers. Here we present evidence that human high-density lipoprotein (HDL) transports endogenous miRNAs and delivers them to recipient cells with functional targeting capabilities. Highly-purified fractions of human HDL contain small RNAs, and the HDL-miRNA profile from normal subjects is significantly different than familial hypercholesterolemia subjects. miRNAs were demonstrated to associate with both native and reconstituted HDL particles, and reconstituted HDL injected into mice retrieved distinct miRNA profiles from normal and atherogenic models. Cellular export of miRNAs to HDL was demonstrated to be regulated by neutral sphingomyelinase. HDL-mediated delivery of miRNAs to recipient cells was demonstrated to be scavenger receptor BI-dependent. Furthermore, HDL delivery of both exogenous and endogenous miRNAs resulted in the direct targeting of mRNA reporters. Notably, HDL-miRNA from atherosclerotic subjects induced differential gene expression, with significant loss of conserved mRNA targets in cultured hepatocytes. Collectively, these observations suggest that HDL participates in a novel mechanism of intercellular communication involving the transport and delivery of miRNAs. Human HDL miRNA Signatures Profiled miRNA Signatures from N=6 Normal Human HDL; n=5 FH Human HDL

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Metabolomic and Proteomic Analysis of Renal Function After Liver Transplantation

Project description:Background: Renal dysfunction is a common and serious complication in patients with end-stage liver diseases. While some patients recover renal function after liver transplantation (LT), others do not. Additionally, patients with normal kidney function (Normal-KF) before LT may develop post-transplant renal dysfunction. Early identification of patients at risk for impaired kidney function (Impaired-KF) post-LT is critical to improving outcomes. This study integrated metabolomic and proteomic analyses to investigate molecular profiles distinguishing Normal-KF from Impaired-KF post-LT. Methods: Nine LT recipients were classified into Normal-KF (n=5) and Impaired-KF (n=4) groups. One additional recipient with pre-transplant renal function impairment who recovered renal function after LT, was analyzed separately. Plasma samples were collected at 2- and 5-weeks post-LT. The metabolomic and proteomic profiles were assessed by untargeted liquid chromatography-tandem mass spectrometry. Results: Metabolomic analysis identified 29 significantly altered metabolites between Normal-KF and Impaired-KF (fold change>2, p<0.05). Proteomic analysis revealed 45 differentially expressed proteins (fold change>1.25, p<0.05). For the recovered patient, the metabolomic profile closely resembled Normal-KF, whereas the proteomic profile remained aligned with Impaired-KF at both 14- and 35-days post-LT. From week 2 to week 5, both the metabolomic and proteomic profiles of the recovered patient showed trends toward the Normal-KF. Conclusion: This study revealed distinct metabolomic and proteomic signatures associated with renal dysfunction post-LT. Proteomic profiles indicated a delayed recovery compared to metabolomic profiles, suggesting a dynamic and muti-layered renal recovery process. Further research is warranted to elucidate the functional implications of the differential proteins and metabolites for improved monitoring and therapeutic strategies.

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