Dataset Information

Proteomic analysis of urine and stone matrix of patients with kidney calculi

ABSTRACT: Proteins have been extracted from kidney calculi with SDS buffer. Proteins were seperated by 1D-SDS-PAGE and stained with coomassie. Each gel lane was cut into 5 (or 6) pieces. Proteins were digested in gel with trypsin. Tryptic peptides were analysed by nanoLC-MS/MS on an ion trap instrument (6340 Ion Trap, Agilent) with CID. Peak lists were generated with Mascot Distiller, and database searching was performed with Mascot. The data from 5 (or 6) LC-MS/MS runs from one patient ware merged into one mgf file, which was searched against IPI (human) database.

INSTRUMENT(S): instrument model

ORGANISM(S): Homo Sapiens (human)

TISSUE(S): Urine, Kidney

SUBMITTER: Andreas Schlosser

LAB HEAD: Andreas Schlosser

PROVIDER: PXD000302 | Pride | 2016-07-11

REPOSITORIES: Pride

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Publications

Inflammatory and fibrotic proteins proteomically identified as key protein constituents in urine and stone matrix of patients with kidney calculi.

Boonla Chanchai C Tosukhowong Piyaratana P Spittau Björn B Schlosser Andreas A Pimratana Chaowat C Krieglstein Kerstin K

Clinica chimica acta; international journal of clinical chemistry 20131209

To uncover whether urinary proteins are incorporated into stones, the proteomic profiles of kidney stones and urine collected from the same patients have to be explored. We employed 1D-PAGE and nanoHPLC-ESI-MS/MS to analyze the proteomes of kidney stone matrix (n=16), nephrolithiatic urine (n=14) and healthy urine (n=3). We identified 62, 66 and 22 proteins in stone matrix, nephrolithiatic urine and healthy urine, respectively. Inflammation- and fibrosis-associated proteins were frequently detec ...[more]

PMID: 24333391

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Project description:Phenotypic plasticity, the ability of one genotype to express different phenotypes in response to changing environmental conditions, is one of the most common phenomena characterising the living world and is not only relevant for the ecology but also for the evolution of species. Daphnia, the waterflea, is a textbook example for predator induced phenotypic plastic defences including changes in life-history, behaviour and morphology. However, the analysis of molecular mechanisms underlying these inducible defences is still in its early stages. We exposed Daphnia magna to chemical cues of the predator Triops cancriformis to identify key processes underlying plastic defensive trait formation. D. magna is known to develop an array of morphological changes in the presence of T. cancriformis including changes of carapace morphology and cuticle hardening. To get a more comprehensive idea of this phenomenon, we studied four different genotypes originating from habitats with different predation history, reaching from predator-free to temporary habitats containing T. cancriformis. We analysed the morphologies as well as proteomes of predator-exposed and control animals. Three genotypes showed morphological changes when the predator was present. Using a high-throughput proteomics approach, we found 294 proteins which were significantly altered in their abundance after predator exposure in a general or genotype dependant manner. Proteins connected to genotype dependant responses were related to the cuticle, protein synthesis and calcium binding whereas the yolk protein vitellogenin increased in abundance in all genotypes, indicating their involvement in a more general response. Furthermore, genotype dependant responses at the proteome level correlated well with local adaptation to Triops predation. Altogether, our study provides new insights concerning genotype dependant and general molecular processes involved in predator-induced phenotypic plasticity in D. magna.

Dataset Information

Proteomic analysis of urine and stone matrix of patients with kidney calculi

Publications

Inflammatory and fibrotic proteins proteomically identified as key protein constituents in urine and stone matrix of patients with kidney calculi.

Similar Datasets

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