当前位置： SCI文献检索 > Journal of Proteomics期刊下所有文献 > Application of integrated transcriptomic, proteomic and metabolomic profiling for the delineation of mechanisms of drug induced cell stress.

Application of integrated transcriptomic, proteomic and metabolomic profiling for the delineation of mechanisms of drug induced cell stress.

Abstract：

:High content omic techniques in combination with stable human in vitro cell culture systems have the potential to improve on current pre-clinical safety regimes by providing detailed mechanistic information of altered cellular processes. Here we investigated the added benefit of integrating transcriptomics, proteomics and metabolomics together with pharmacokinetics for drug testing regimes. Cultured human renal epithelial cells (RPTEC/TERT1) were exposed to the nephrotoxin Cyclosporine A (CsA) at therapeutic and supratherapeutic concentrations for 14days. CsA was quantified in supernatants and cellular lysates by LC-MS/MS for kinetic modeling. There was a rapid cellular uptake and accumulation of CsA, with a non-linear relationship between intracellular and applied concentrations. CsA at 15μM induced mitochondrial disturbances and activation of the Nrf2-oxidative-damage and the unfolded protein-response pathways. All three omic streams provided complementary information, especially pertaining to Nrf2 and ATF4 activation. No stress induction was detected with 5μM CsA; however, both concentrations resulted in a maximal secretion of cyclophilin B. The study demonstrates for the first time that CsA-induced stress is not directly linked to its primary pharmacology. In addition we demonstrate the power of integrated omics for the elucidation of signaling cascades brought about by compound induced cell stress.

journal_name

J Proteomics

journal_title

Journal of proteomics

authors

Wilmes A,Limonciel A,Aschauer L,Moenks K,Bielow C,Leonard MO,Hamon J,Carpi D,Ruzek S,Handler A,Schmal O,Herrgen K,Bellwon P,Burek C,Truisi GL,Hewitt P,Di Consiglio E,Testai E,Blaauboer BJ,Guillou C,Huber CG,Luka

doi

10.1016/j.jprot.2012.11.022

subject

Has Abstract

pub_date

2013-02-21 00:00:00

pages

180-94

eissn

1874-3919

issn

1876-7737

pii

S1874-3919(12)00777-4

journal_volume

79

pub_type

杂志文章

相关文献

Journal of Proteomics文献大全
  • Sensing parasites: Proteomic and advanced bio-detection alternatives.

    abstract：:Parasitic diseases have a great impact in human and animal health. The gold standard for the diagnosis of the majority of parasitic infections is still conventional microscopy, which presents important limitations in terms of sensitivity and specificity and commonly requires highly trained technicians. More accurate m...

    journal_title：Journal of proteomics

    pub_type： 杂志文章,评审

    doi：10.1016/j.jprot.2015.12.030

    authors： Sánchez-Ovejero C,Benito-Lopez F,Díez P,Casulli A,Siles-Lucas M,Fuentes M,Manzano-Román R

    更新日期：2016-03-16 00:00:00

  • Recombinant glycoproteins: The impact of cell lines and culture conditions on the generation of protein species.

    abstract：UNLABELLED:Glycosylation is the most complex post-translational modification. Thus, it contributes to versatile chemical compositions of proteins, leading to high amounts of protein species. The structural heterogeneity of glycoproteins was also described by the definition of glycoforms. We therefore introduced a new t...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2015.08.011

    authors： Rosenlöcher J,Sandig G,Kannicht C,Blanchard V,Reinke SO,Hinderlich S

    更新日期：2016-02-16 00:00:00

  • Aspergillus fumigatus spore proteomics and genetics reveal that VeA represses DefA-mediated DNA damage response.

    abstract：:Aspergillus fumigatus reproduces and infects host by forming a high number of small asexual spores (conidia). The velvet proteins are global transcriptional regulators governing the complex process of conidiogenesis in this fungus. Here, to further understand the velvet-mediated regulation, we carried out comparative ...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2016.07.022

    authors： Shin KS,Park HS,Kim Y,Heo IB,Kim YH,Yu JH

    更新日期：2016-10-04 00:00:00

  • The mammary gland in domestic ruminants: a systems biology perspective.

    abstract：UNLABELLED:Milk and dairy products are central elements in the human diet. It is estimated that 108kg of milk per year are consumed per person worldwide. Therefore, dairy production represents a relevant fraction of the economies of many countries, being cattle, sheep, goat, water buffalo, and other ruminants the main ...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2013.09.012

    authors： Ferreira AM,Bislev SL,Bendixen E,Almeida AM

    更新日期：2013-12-06 00:00:00

  • Proteome analysis of aerobically and anaerobically grown Saccharomyces cerevisiae cells.

    abstract：:The yeast Saccharomyces cerevisiae is able to grow under aerobic as well as anaerobic conditions. We and others previously found that transcription levels of approximately 500 genes differed more than two-fold when cells from anaerobic and aerobic conditions were compared. Here, we addressed the effect of anaerobic gr...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2008.11.012

    authors： Bruckmann A,Hensbergen PJ,Balog CI,Deelder AM,Brandt R,Snoek IS,Steensma HY,van Heusden GP

    更新日期：2009-01-30 00:00:00

  • Secreted protein extract analyses present the plant pathogen Alternaria alternata as a suitable industrial enzyme toolbox.

    abstract：:Lignocellulosic plant biomass is the most abundant carbon source in the planet, which makes it a potential substrate for biorefinery. It consists of polysaccharides and other molecules with applications in pharmaceutical, food and feed, cosmetics, paper and textile industries. The exploitation of these resources requi...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2018.02.012

    authors： García-Calvo L,Ullán RV,Fernández-Aguado M,García-Lino AM,Balaña-Fouce R,Barreiro C

    更新日期：2018-04-15 00:00:00

  • Protein S-nitrosylation and denitrosylation in the mouse spinal cord upon injury of the sciatic nerve.

    abstract：:Nitric oxide is a pain signaling molecule and exerts its influence through two primary pathways: by stimulation of soluble guanylylcyclase and by direct S-nitrosylation (SNO) of target proteins. We assessed in the spinal cord the SNO-proteome with two methods, two-dimensional S-nitrosothiol difference gel electrophore...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2012.05.006

    authors： Scheving R,Wittig I,Heide H,Albuquerque B,Steger M,Brandt U,Tegeder I

    更新日期：2012-07-16 00:00:00

  • Use of ribosomal proteins as biomarkers for identification of Flavobacterium psychrophilum by MALDI-TOF mass spectrometry.

    abstract：:Matrix-assisted laser desorption ionization-time of flight mass spectrometry (MALDI-TOF-MS) is a rapid methodology for identification of bacteria that is increasingly used in diagnostic laboratories. This work aimed at evaluating the potential of MALDI-TOF-MS for identification of the main serotypes of Flavobacterium ...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2017.09.007

    authors： Fernández-Álvarez C,Torres-Corral Y,Santos Y

    更新日期：2018-01-06 00:00:00

  • Screening, discovery, and characterization of angiotensin-I converting enzyme inhibitory peptides derived from proteolytic hydrolysate of bitter melon seed proteins.

    abstract：UNLABELLED:In this study, new angiotensin-I converting enzyme (ACE) inhibitory peptides were comprehensively identified from a thermolysin digest of bitter melon (Momordica charantia) seed proteins. The hydrolysate was fractionated by reversed-phase high performance liquid chromatography (RP-HPLC), and the inhibitory a...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2015.08.018

    authors： Priyanto AD,Doerksen RJ,Chang CI,Sung WC,Widjanarko SB,Kusnadi J,Lin YC,Wang TC,Hsu JL

    更新日期：2015-10-14 00:00:00

  • Love me tender: an Omics window on the bovine meat tenderness network.

    abstract：:Meat tenderness prediction is a challenging task, especially in Maremmana, an Italian autochtonous and highly appreciated beef breed. In the present study we reported an integrated proteomics, phosphoproteomics and metabolomics overview of meat tenderness in longissimus dorsi from 15 male Maremmana individuals, throug...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2012.02.013

    authors： D'Alessandro A,Rinalducci S,Marrocco C,Zolla V,Napolitano F,Zolla L

    更新日期：2012-07-19 00:00:00

  • Proteomic analysis of thioproline misincorporation in Escherichia coli.

    abstract：:Recently it was discovered that thioproline, an unnatural analog of proline, can arise in vivo from the reaction of cysteine and formaldehyde in cells under oxidative stress. Sequence-specific bioincorporation of thioproline into proteins was studied via shotgun proteomics of Escherichia coli (E. coli) cells. In a str...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2019.103541

    authors： Liu J,Hao C,Wu L,Madej D,Chan W,Lam H

    更新日期：2020-01-06 00:00:00

  • Comparative phosphoproteomic analysis of intestinal phosphorylated proteins in active versus aestivating sea cucumbers.

    abstract：UNLABELLED:The sea cucumber Apostichopus japonicus is becoming an excellent model marine invertebrate for studies of environmentally-induced aestivation. Reversible protein phosphorylation as a regulatory mechanism in aestivation is known for some terrestrial aestivators but has never before been documented in sea cucu...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2015.09.016

    authors： Chen M,Zhu A,Storey KB

    更新日期：2016-03-01 00:00:00

  • A comparative study of the Se/S substitution in methionine and cysteine in Se-enriched yeast using an inductively coupled plasma mass spectrometry (ICP MS)-assisted proteomics approach.

    abstract：UNLABELLED:A proteomics approach based on 2D gel electrophoresis followed by HPLC-electrospray Orbitrap MS/MS was developed to investigate the replacement and the degree of the Se/S substitution in methionine and cysteine in Se-rich yeast. Capillary HPLC-inductively coupled plasma mass spectrometry (ICP-MS), employed i...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2013.05.010

    authors： Bierla K,Bianga J,Ouerdane L,Szpunar J,Yiannikouris A,Lobinski R

    更新日期：2013-07-11 00:00:00

  • A quantitation module for isotope-labeled peptides integrated into PatternLab for proteomics.

    abstract：:We present a new module integrated into the widely adopted PatternLab for proteomics to enable analysis of isotope-labeled peptides produced using dimethyl or SILAC. The accurate quantitation of proteins lies within the heart of proteomics; dimethylation has shown to be reliable, inexpensive, and applicable to any sam...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2019.04.021

    authors： Santos MDM,Lima DB,Silva ARF,Kurt LU,Clasen MA,Pinto AFM,Moresco JJ,Yates JR 3rd,Aquino P,Barbosa VC,Fischer JSG,Carvalho PC

    更新日期：2019-06-30 00:00:00

  • Serological autoantibody profiling of type 1 diabetes by protein arrays.

    abstract：UNLABELLED:The need for biomarkers that illuminate the pathophysiology of type 1 diabetes (T1D), enhance early diagnosis and provide additional avenues for therapeutic intervention is well recognized in the scientific community. We conducted a proteome-scale, two-stage serological AAb screening followed by an independe...

    journal_title：Journal of proteomics

    pub_type： 杂志文章,多中心研究,随机对照试验

    doi：10.1016/j.jprot.2013.10.018

    authors： Miersch S,Bian X,Wallstrom G,Sibani S,Logvinenko T,Wasserfall CH,Schatz D,Atkinson M,Qiu J,LaBaer J

    更新日期：2013-12-06 00:00:00

  • Applicability of 2-DE to assess differences in the protein profile between cold storage and not cold storage in nectarine fruits.

    abstract：:Cold storage is being used to increase nectarine fruits' postharvest life. However, low temperatures lead to chilling injury and limit their commercial quality and value. In this study a proteomic approach was used to compare the protein profile between control and cold storage nectarine fruits. Protein extracted from...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2012.08.005

    authors： Giraldo E,Díaz A,Corral JM,García A

    更新日期：2012-10-22 00:00:00

  • An in vivo characterization of colostrum protein uptake in porcine gut during early lactation.

    abstract：:Understanding the bioactive roles of colostrum proteins has gained much attention, and in particular, their potential use in human and veterinary medicine has been extensively studied. However, studies of bioactivity have mainly been conducted in vitro, but it has not yet been well characterized at the individual prot...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2010.08.011

    authors： Danielsen M,Pedersen LJ,Bendixen E

    更新日期：2011-01-01 00:00:00

  • Quantitative proteomics of the yeast Hsp70/Hsp90 interactomes during DNA damage reveal chaperone-dependent regulation of ribonucleotide reductase.

    abstract：UNLABELLED:The highly conserved molecular chaperones Hsp90 and Hsp70 are indispensible for folding and maturation of a significant fraction of the proteome, including many proteins involved in signal transduction and stress response. To examine the dynamics of chaperone-client interactions after DNA damage, we applied ...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2014.09.028

    authors： Truman AW,Kristjansdottir K,Wolfgeher D,Ricco N,Mayampurath A,Volchenboum SL,Clotet J,Kron SJ

    更新日期：2015-01-01 00:00:00

  • Reductive chemical release of N-glycans as 1-amino-alditols and subsequent 9-fluorenylmethyloxycarbonyl labeling for MS and LC/MS analysis.

    abstract：:Glycoproteins play pivotal roles in a series of biological processes and their glycosylation patterns need to be structurally and functionally characterized. However, the lack of versatile methods to release N-glycans as functionalized forms has been undermining glycomics studies. Here a novel method is developed for ...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2018.06.002

    authors： Wang C,Qiang S,Jin W,Song X,Zhang Y,Huang L,Wang Z

    更新日期：2018-09-15 00:00:00

  • Developments for a growing Japanese patient population: facilitating new technologies for future health care.

    abstract：:Lung cancer, COPD and cardiovascular diseases are highlighted as some of the most common disease that cause mortality, and for that reason are the most active areas for drug development. This perspective paper overviews the urgent need to develop a health care system for a rapidly growing patient population in Japan, ...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2010.12.006

    authors： Kato H,Nishimura T,Ikeda N,Yamada T,Kondo T,Saijo N,Nishio K,Fujimoto J,Nomura M,Oda Y,Lindmark B,Maniwa J,Hibino H,Unno M,Ito T,Sawa Y,Tojo H,Egawa S,Edula G,Lopez M,Wigmore M,Inase N,Yoshizawa Y,Nomura F,

    更新日期：2011-05-16 00:00:00

  • Fermentation and proteome profiles of Lactobacillus plantarum strains during growth under food-like conditions.

    abstract：UNLABELLED:This study aimed at investigating the proteomic adaptation of Lactobacillus plantarum strains. Cultivation of L. plantarum strains under food-like conditions (wheat flour hydrolyzed, whey milk, tomato juice) affected some metabolic traits (e.g., consumption of carbohydrates and synthesis of organic acids) co...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2013.11.003

    authors： Siragusa S,De Angelis M,Calasso M,Campanella D,Minervini F,Di Cagno R,Gobbetti M

    更新日期：2014-01-16 00:00:00

  • Quantitative iTRAQ LC-MS/MS proteomics reveals the cellular response to heterologous protein overexpression and the regulation of HAC1 in Pichia pastoris.

    abstract：UNLABELLED:The methylotrophic yeast Pichia pastoris is an attractive platform for a plethora of recombinant proteins. There is growing evidence that host cells producing recombinant proteins are exposed to a variety of cellular stresses resulting in the induction of the unfolded protein response (UPR) pathway. At prese...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2013.06.031

    authors： Lin XQ,Liang SL,Han SY,Zheng SP,Ye YR,Lin Y

    更新日期：2013-10-08 00:00:00

  • Proteoform profiling of peripheral blood serum proteins from pregnant women provides a molecular IUGR signature.

    abstract：:Intrauterine growth restriction (IUGR) is an important cause of perinatal morbidity and mortality and contributes substantially to medically indicated preterm birth; preventing fetal death. Molecular profiling of the mothers' peripheral blood was desired to monitor the health conditions of the fetuses. To develop such...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2016.04.027

    authors： Wölter M,Röwer C,Koy C,Rath W,Pecks U,Glocker MO

    更新日期：2016-10-21 00:00:00

  • How many spots with missing values can be tolerated in quantitative two-dimensional gel electrophoresis when applying univariate statistics?

    abstract：:Quantitative proteomic comparisons require a sufficient number of samples to reach an acceptable level of significance. But 2D gel electrophoresis commonly results in incomplete data sets due to spots with missing values reducing thereby the number of parallel measurements for individual proteins. Here we investigated...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2011.12.019

    authors： Zellner M,Graf A,Zehetmayer S,Winkler W,Staes A,Gevaert K,Vandekerckhove J,Marchetti-Deschmann M,Miller I,Bauer P,Allmaier G,Oehler R

    更新日期：2012-03-16 00:00:00

  • Effect of dietary fiber/starch balance on the cecal proteome of growing rabbits.

    abstract：UNLABELLED:Dietary fiber/starch imbalance can lead to diarrhea in rabbits. However, the underlying molecular mechanisms are largely unknown, and this is the first study on the proteome profile of the cecal tissue of diarrheic rabbits. In this study, one group of weanling rabbits was fed a high fiber/starch diet (contro...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2014.03.019

    authors： Zhu Y,Wang C,Wang X,Li B,Li F

    更新日期：2014-05-30 00:00:00

  • Assessment of BAK1 activity in different plant receptor-like kinase complexes by quantitative profiling of phosphorylation patterns.

    abstract：UNLABELLED:Plant receptor-like kinases (RLKs) constitute a large family of receptors coordinating developmental programs with adaptation to environmental stresses including immune defenses. BRI1-ASSOCIATED KINASE 1 (BAK1), a member of the plant RLK family, forms receptor complexes with multiple RLK proteins including B...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2014.06.009

    authors： Wang Y,Li Z,Liu D,Xu J,Wei X,Yan L,Yang C,Lou Z,Shui W

    更新日期：2014-08-28 00:00:00

  • Comparative proteomic study in serum of patients with primary open-angle glaucoma and pseudoexfoliation glaucoma.

    abstract：UNLABELLED:Alterations in the sera proteins between patients with Primary Open-Angle Glaucoma (POAG), Pseudoexfoliation Glaucoma (PEXG), and healthy controls were identified through a proven approach utilizing equalization of high-abundance serum proteins with ProteoMiner™, two-dimensional fluorescent difference gel el...

    journal_title：Journal of proteomics

    pub_type： 临床试验,杂志文章

    doi：10.1016/j.jprot.2013.12.006

    authors： González-Iglesias H,Álvarez L,García M,Escribano J,Rodríguez-Calvo PP,Fernández-Vega L,Coca-Prados M

    更新日期：2014-02-26 00:00:00

  • Profiling of local disease-sparing responses to bovine respiratory syncytial virus in intranasally vaccinated and challenged calves.

    abstract：:Bovine and human respiratory syncytial viruses (BRSV, HRSV) are primary causes of pneumonia in calves and children respectively, with vaccination offering protection via antibody and cellular immune responses. However, with no vaccines currently licensed for human use, evaluation of local responses to BRSV vaccination...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2019.103397

    authors： Gray D,Ellis JA,Gow SP,Lacoste SR,Allan GM,Mooney MH

    更新日期：2019-07-30 00:00:00

  • Proteomic analysis of the effect of plant-derived smoke on soybean during recovery from flooding stress.

    abstract：:Flooding negatively affects the growth of soybean, whereas the plant-derived smoke enhances seedling growth of crops. To clarify the mechanism underlying the recovery from flooding stress, proteomic analysis was performed based on morphological results. Growth of soybean seedlings was inhibited under flooding stress, ...

    journal_title：Journal of proteomics

    pub_type： 杂志文章

    doi：10.1016/j.jprot.2018.04.031

    authors： Li X,Rehman SU,Yamaguchi H,Hitachi K,Tsuchida K,Yamaguchi T,Sunohara Y,Matsumoto H,Komatsu S

    更新日期：2018-06-15 00:00:00

  • MHC class I presented antigens from malignancies: A perspective on analytical characterization & immunogenicity.

    abstract：:The field of cancer immunotherapy has expanded rapidly in the past few years, with many new approaches entering the clinic for T cell mediated killing of tumors. Several of these clinical approaches involve the exploitation of a CD8 + T cell response against MHC I presented tumor antigens. Here, we describe the types ...

    journal_title：Journal of proteomics

    pub_type： 杂志文章,评审

    doi：10.1016/j.jprot.2018.04.021

    authors： Schmidt M,Lill JR

    更新日期：2019-01-16 00:00:00