Screening of Chemical Modifications in Human Skin Keratins by Mass Spectrometry-Based Proteomic Analysis via Noninvasive Sampling and On-Tape Digestion.

Abstract:

:Proteins are continuously exposed to diverse chemical stresses, and the resulting chemical modifications can provide significant information on biological events. Keratins are the main constituent of human skin and are the major target proteins of various chemical modifications. We have previously developed a mass spectrometry-based noninvasive proteomic methodology to screen oxidative modifications in human skin keratins. We have improved this methodology in terms of sample preparation time and amino acid sequence coverage using an on-tape digestion method. After sampling by tape stripping, skin proteins on the tape were subjected to reduction/alkylation, followed by trypsin digestion without a presolubilization step using detergents. To screen chemical modifications in keratins, target modifications and tryptic target peptides carrying the modification sites were determined from in vitro experiments with major reactive chemical species (4-hydroxy-2(E)-nonenal (HNE), 4-oxo-2(E)-nonenal, glucose, methylglyoxal, peroxynitrite, and hydrogen peroxide). The developed method was used to screen target modifications in controls and patients with a swollen red rash. Basal levels of lipid-derived modification, oxidation, nitration, and glycation in keratins were detected in controls. Principal component analysis based on the relative chemical modification resulted in a clear classification of both groups within a 95% confidence interval. Lipid-derived HNE modification increased most significantly in the patient group. This methodology can be easily applied to patients with other diseases, and the target modifications can be used as biomarkers of certain physiological conditions.

journal_name

J Proteome Res

authors

Lee SH,Kawase J,Hiroshima Y,Oe T

doi

10.1021/acs.jproteome.0c00406

subject

Has Abstract

pub_date

2020-09-04 00:00:00

pages

3837-3845

issue

9

eissn

1535-3893

issn

1535-3907

journal_volume

19

pub_type

杂志文章
  • Network-Based Analysis on Orthogonal Separation of Human Plasma Uncovers Distinct High Density Lipoprotein Complexes.

    abstract::High density lipoprotein (HDL) particles are blood-borne complexes whose plasma levels have been associated with protection from cardiovascular disease (CVD). Recent studies have demonstrated the existence of distinct HDL subspecies; however, these have been difficult to isolate and characterize biochemically. Here, w...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/acs.jproteome.5b00419

    authors: Li H,Gordon SM,Zhu X,Deng J,Swertfeger DK,Davidson WS,Lu LJ

    更新日期:2015-08-07 00:00:00

  • Primary cell cultures arising from normal kidney and renal cell carcinoma retain the proteomic profile of corresponding tissues.

    abstract::Renal cell carcinoma (RCC) tissue is composed of a mixture of neoplastic and normal cells, which complicate proteome analysis. The aim of our study was to investigate whether it is feasible to establish primary cell cultures of RCC and of renal cortex maintaining the tissue phenotype along with a more homogeneous and ...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr050002o

    authors: Perego RA,Bianchi C,Corizzato M,Eroini B,Torsello B,Valsecchi C,Di Fonzo A,Cordani N,Favini P,Ferrero S,Pitto M,Sarto C,Magni F,Rocco F,Mocarelli P

    更新日期:2005-09-01 00:00:00

  • A two-dimensional array for simultaneous sequencing of N- and o-glycans and their glycoforms on specific glycosylation sites.

    abstract::Glycans play major roles in living organisms. Thus, essential information is required on diverse glycans, their location, and moieties in proteins, as well as for technology in a high-throughput manner, for improving functional glycomics. In the present study, we describe a new approach involving a 2-D array, which ha...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr070392+

    authors: Tzur Y,Markovich A,Lichtenstein RG

    更新日期:2008-03-01 00:00:00

  • Optimizing performance of glycopeptide capture for plasma proteomics.

    abstract::Selective capture of glycopolypeptides followed by release and analysis of the former glycosylation-site peptides has been shown to have promise for reducing the complexity of body fluids such as blood for biomarker discovery. In this work, a protocol based on capture of polypeptides containing a N-linked carbohydrate...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr900845m

    authors: Berven FS,Ahmad R,Clauser KR,Carr SA

    更新日期:2010-04-05 00:00:00

  • Phospho-iTRAQ: assessing isobaric labels for the large-scale study of phosphopeptide stoichiometry.

    abstract::The ability to distinguish between phosphopeptides of high and low stoichiometry is essential to discover the true extent of protein phosphorylation. We here extend the strategy whereby a peptide sample is briefly split in two identical parts and differentially labeled preceding the phosphatase treatment of one part. ...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr500889v

    authors: Glibert P,Meert P,Van Steendam K,Van Nieuwerburgh F,De Coninck D,Martens L,Dhaenens M,Deforce D

    更新日期:2015-02-06 00:00:00

  • Site-Specific N-Glycosylation Characterization of Windmill Palm Tree Peroxidase Using Novel Tools for Analysis of Plant Glycopeptide Mass Spectrometry Data.

    abstract::Plant secretory (Class III) peroxidases are redox enzymes that rely on N-glycosylation for full enzyme activity and stability. Peroxidases from palm tree leaves comprise the most stable and active plant peroxidases characterized to date. Herein, site-specific glycosylation and microheterogeneity of windmill palm tree ...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/acs.jproteome.6b00205

    authors: Baker MR,Tabb DL,Ching T,Zimmerman LJ,Sakharov IY,Li QX

    更新日期:2016-06-03 00:00:00

  • Interaction of Drug Candidates with Various SARS-CoV-2 Receptors: An in Silico Study to Combat COVID-19.

    abstract::The world is currently facing the COVID-19 pandemic caused by the SARS-CoV-2 virus. The pandemic is causing the death of people around the world, and public and social health measures to slow or prevent the spread of COVID-19 are being implemented with the involvement of all members of society. Research institutions a...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/acs.jproteome.0c00327

    authors: Barros RO,Junior FLCC,Pereira WS,Oliveira NMN,Ramos RM

    更新日期:2020-11-06 00:00:00

  • Challenges in Peptide-Spectrum Matching: A Robust and Reproducible Statistical Framework for Removing Low-Accuracy, High-Scoring Hits.

    abstract::Workflows for large-scale (MS)-based shotgun proteomics can potentially lead to costly errors in the form of incorrect peptide-spectrum matches (PSMs). To improve the robustness of these workflows, we have investigated the use of the precursor mass discrepancy (PMD) to detect and filter potentially false PSMs that hav...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/acs.jproteome.9b00478

    authors: Hubler SL,Kumar P,Mehta S,Easterly C,Johnson JE,Jagtap PD,Griffin TJ

    更新日期:2020-01-03 00:00:00

  • High-Resolution Mass Spectrometry Based Proteomic Analysis of the Response to Vancomycin-Induced Cell Wall Stress in Streptomyces coelicolor A3(2).

    abstract::Understanding how bacteria survive periods of cell wall stress is of fundamental interest and can help generate ideas for improved antibacterial treatments. In this study we use tandem mass tagging to characterize the proteomic response of vancomycin resistant Streptomyces coelicolor to the exposure to sublethal level...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/acs.jproteome.5b00242

    authors: Hesketh A,Deery MJ,Hong HJ

    更新日期:2015-07-02 00:00:00

  • Molecular Simulations and Network Modeling Reveal an Allosteric Signaling in the SARS-CoV-2 Spike Proteins.

    abstract::The development of computational strategies for the quantitative characterization of the functional mechanisms of SARS-CoV-2 spike proteins is of paramount importance in efforts to accelerate the discovery of novel therapeutic agents and vaccines combating the COVID-19 pandemic. Structural and biophysical studies have...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/acs.jproteome.0c00654

    authors: Verkhivker GM

    更新日期:2020-11-06 00:00:00

  • Quantitative overview of N2 fixation in Nostoc punctiforme ATCC 29133 through cellular enrichments and iTRAQ shotgun proteomics.

    abstract::Nostoc punctiforme ATCC 29133 is a photoautotrophic cyanobacterium with the capacity to fix atmospheric N 2. Its ability to mediate this process is similar to that described for Nostoc sp. PCC 7120, where vegetative cells differentiate into heterocysts. Quantitative proteomic investigations at both the filament level ...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr800285v

    authors: Ow SY,Noirel J,Cardona T,Taton A,Lindblad P,Stensjö K,Wright PC

    更新日期:2009-01-01 00:00:00

  • Phosphoproteomics reveals the effect of ethylene in soybean root under flooding stress.

    abstract::Flooding has severe negative effects on soybean growth. To explore the flooding-responsive mechanisms in early-stage soybean, a phosphoproteomic approach was used. Two-day-old soybean plants were treated without or with flooding for 3, 6, 12, and 24 h, and root tip proteins were then extracted and analyzed at each tim...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr500621c

    authors: Yin X,Sakata K,Komatsu S

    更新日期:2014-12-05 00:00:00

  • Evaluation of NCI-7 Cell Line Panel as a Reference Material for Clinical Proteomics.

    abstract::Reference materials are vital to benchmarking the reproducibility of clinical tests and essential for monitoring laboratory performance for clinical proteomics. The reference material utilized for mass spectrometric analysis of the human proteome would ideally contain enough proteins to be suitably representative of t...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/acs.jproteome.8b00165

    authors: Clark DJ,Hu Y,Bocik W,Chen L,Schnaubelt M,Roberts R,Shah P,Whiteley G,Zhang H

    更新日期:2018-06-01 00:00:00

  • MPK4 Phosphorylation Dynamics and Interacting Proteins in Plant Immunity.

    abstract::Arabidopsis MAP kinase 4 (MPK4) has been proposed to be a negative player in plant immunity, and it is also activated by pathogen-associated molecular patterns (PAMPs), such as flg22. The molecular mechanisms by which MPK4 is activated and regulates plant defense remain elusive. In this study, we investigated Arabidop...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/acs.jproteome.8b00345

    authors: Zhang T,Schneider JD,Lin C,Geng S,Ma T,Lawrence SR,Dufresne CP,Harmon AC,Chen S

    更新日期:2019-03-01 00:00:00

  • New developments in profiling and imaging of proteins from tissue sections by MALDI mass spectrometry.

    abstract::Molecular imaging of tissue by MALDI mass spectrometry is a powerful tool for visualizing the spatial distribution of constituent analytes with high molecular specificity. Although the technique is relatively young, it has already contributed to the understanding of many diverse areas of human health. In recent years,...

    journal_title:Journal of proteome research

    pub_type: 杂志文章,评审

    doi:10.1021/pr060346u

    authors: Chaurand P,Norris JL,Cornett DS,Mobley JA,Caprioli RM

    更新日期:2006-11-01 00:00:00

  • Suffocation of nerve fibers by living nanovesicles: a model simulation--part II.

    abstract::Nanobacteria may cause peripheral neuropathy by adhesion to the perineurium. This hypothesis receives support from five independent observations: (1) identification of perineurial apatite in diabetic patients with peripheral neuropathy, (2) massive presence of nanobacteria in a diabetic patient, (3) beneficial effect ...

    journal_title:Journal of proteome research

    pub_type: 信件

    doi:10.1021/pr049935v

    authors: Sommer AP

    更新日期:2004-09-01 00:00:00

  • Identification of Up- and Down-Regulated Proteins in Pemetrexed-Resistant Human Lung Adenocarcinoma: Flavin Reductase and Calreticulin Play Key Roles in the Development of Pemetrexed-Associated Resistance.

    abstract::Drug resistance is one of the major causes of cancer chemotherapy failure. In the current study, we used a pair of lung adenocarcinoma cell lines, A549 and the pemetrexed-resistant A549/PEM cells, as a model to monitor resistance-dependent cellular responses and identify potential therapeutic targets. By means of 2D d...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/acs.jproteome.5b00794

    authors: Chou HC,Chen JY,Lin DY,Wen YF,Lin CC,Lin SH,Lin CH,Chung TW,Liao EC,Chen YJ,Wei YS,Tsai YT,Chan HL

    更新日期:2015-11-06 00:00:00

  • Comparison of the membrane proteome of virulent Mycobacterium tuberculosis and the attenuated Mycobacterium bovis BCG vaccine strain by label-free quantitative proteomics.

    abstract::The Mycobacterium tuberculosis membrane is rich in antigens that are potential targets for diagnostics and the development of new vaccines. To better understand the mechanisms underlying MTB virulence and identify new targets for therapeutic intervention, we investigated the differential composition of membrane proteo...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr400334k

    authors: Gunawardena HP,Feltcher ME,Wrobel JA,Gu S,Braunstein M,Chen X

    更新日期:2013-12-06 00:00:00

  • Proteomic identification of in vivo interactors reveals novel function of skin cornification proteins.

    abstract::Protection against injurious external insults and loss of vital fluids is essential for life and is in all organisms, from bacteria to plants and humans, provided by some form of barrier. Members of the small proline-rich (SPRR) protein family are major components of the cornified cell envelope (CE), a structure respo...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr300310b

    authors: Vermeij WP,Florea BI,Isenia S,Alia A,Brouwer J,Backendorf C

    更新日期:2012-06-01 00:00:00

  • Relative quantification of membrane proteins in wild-type and prion protein (PrP)-knockout cerebellar granule neurons.

    abstract::Approximately 25% of eukaryotic proteins possessing homology to at least two transmembrane domains are predicted to be embedded in biological membranes. Nevertheless, this group of proteins is not usually well represented in proteome-wide experiments due to their refractory nature. Here we present a quantitative mass ...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr200759m

    authors: Stella R,Cifani P,Peggion C,Hansson K,Lazzari C,Bendz M,Levander F,Sorgato MC,Bertoli A,James P

    更新日期:2012-02-03 00:00:00

  • Dual LC-MS platform for high-throughput proteome analysis.

    abstract::We describe a dual-column interface for parallel chromatography to improve throughput during LC-MS experimentation. The system employs a high-voltage switch to operate two capillary column/nanospray emitters fixed at the MS orifice. Sequentially loading one column while operating the second nearly doubles the LC-MS du...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr400738a

    authors: Orton DJ,Wall MJ,Doucette AA

    更新日期:2013-12-06 00:00:00

  • Automated N-glycopeptide identification using a combination of single- and tandem-MS.

    abstract::We describe Peptoonist, a program that can automatically identify the glycans (sugars) present at each N-glycosylation site of a protein. The input to Peptoonist is a series of mass spectra, both MS and MS/MS, obtained from a liquid chromatography (LC) run of proteolytically digested purified glycoproteins. The progra...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr070239f

    authors: Goldberg D,Bern M,Parry S,Sutton-Smith M,Panico M,Morris HR,Dell A

    更新日期:2007-10-01 00:00:00

  • Comparison of extensive protein fractionation and repetitive LC-MS/MS analyses on depth of analysis for complex proteomes.

    abstract::In-depth, reproducible coverage of complex proteomes is challenging because the complexity of tryptic digests subjected to LC-MS/MS analysis frequently exceeds mass spectrometer analytical capacity, which results in undersampling of data. In this study, we used cancer cell lysates to systematically compare the commonl...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr900927y

    authors: Wang H,Chang-Wong T,Tang HY,Speicher DW

    更新日期:2010-02-05 00:00:00

  • Absolute protein quantification by LC/MS(E) for global analysis of salicylic acid-induced plant protein secretion responses.

    abstract::The plant cell wall is a dynamic cellular compartment consisting of a complex matrix of components that can change dramatically in response to environmental stresses. During pathogen attack, for instance, a wide spectrum of proteins that participate in various sequential processes involved in plant defense is secreted...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr800649s

    authors: Cheng FY,Blackburn K,Lin YM,Goshe MB,Williamson JD

    更新日期:2009-01-01 00:00:00

  • Western honeybee drones and workers (Apis mellifera ligustica) have different olfactory mechanisms than eastern honeybees (Apis cerana cerana).

    abstract::The honeybees Apis mellifera ligustica (Aml) and Apis cerana cerana (Acc) are two different western and eastern bee species that evolved in distinct ecologies and developed specific antennal olfactory systems for their survival. Knowledge of how their antennal olfactory systems function in regards to the success of ea...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr300298w

    authors: Woltedji D,Song F,Zhang L,Gala A,Han B,Feng M,Fang Y,Li J

    更新日期:2012-09-07 00:00:00

  • Comparative proteomic analysis reveals sex and estrogen receptor β effects in the pressure overloaded heart.

    abstract::In pressure overload (PO), sex differences in humans and rodents have been well documented and estrogen receptor (ER) β is considered cardioprotective. However, the underlying mechanisms are poorly understood. Our aim was to investigate sex- and ERβ-specific effects in protein abundance in PO employing a 2-dimensional...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr500749j

    authors: Kararigas G,Fliegner D,Forler S,Klein O,Schubert C,Gustafsson JÅ,Klose J,Regitz-Zagrosek V

    更新日期:2014-12-05 00:00:00

  • Analysis of oxygen/glucose-deprivation-induced changes in SUMO3 conjugation using SILAC-based quantitative proteomics.

    abstract::Transient cerebral ischemia dramatically activates small ubiquitin-like modifier (SUMO2/3) conjugation. In cells exposed to 6 h of transient oxygen/glucose deprivation (OGD), a model of ischemia, SUMOylation increases profoundly between 0 and 30 min following re-oxygenation. To elucidate the effect of transient OGD on...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr200834f

    authors: Yang W,Thompson JW,Wang Z,Wang L,Sheng H,Foster MW,Moseley MA,Paschen W

    更新日期:2012-02-03 00:00:00

  • LC-MS/MS characterization of O-glycosylation sites and glycan structures of human cerebrospinal fluid glycoproteins.

    abstract::The GalNAc O-glycosylation on Ser/Thr residues of extracellular proteins has not been well characterized from a proteomics perspective. We previously reported a sialic acid capture-and-release protocol to enrich tryptic N- and O-glycopeptides from human cerebrospinal fluid glycoproteins using nano-LC-ESI-MS/MS with co...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr300963h

    authors: Halim A,Rüetschi U,Larson G,Nilsson J

    更新日期:2013-02-01 00:00:00

  • Metabolomic analysis of biochemical changes in the plasma and urine of first-episode neuroleptic-naïve schizophrenia patients after treatment with risperidone.

    abstract::Early findings propose that impaired neurotransmission in the brain plays a key role in the pathophysiology of schizophrenia. Recent advances in understanding its multiple etiologies and pathogenetic mechanisms provide more speculative hypotheses focused on even broader somatic systems. Using a targeted tandem mass sp...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr300459d

    authors: Cai HL,Li HD,Yan XZ,Sun B,Zhang Q,Yan M,Zhang WY,Jiang P,Zhu RH,Liu YP,Fang PF,Xu P,Yuan HY,Zhang XH,Hu L,Yang W,Ye HS

    更新日期:2012-08-03 00:00:00

  • Nitric oxide and oxygen radical attack on GDP-dissociation inhibitor 2 (GDI-2) in spinal cord injury of the rat.

    abstract::Protein oxidation and nitration have been described during spinal cord injury (SCI) in animal models. Herein, mass spectrometry unambiguously identified GDP-dissociation inhibitor-2 (GDI-2) in SCI with post-translational modifications of 3-aminotyrosine (8 h post-injury) and an acrolein adduct of GDI-2 (72 h post-inju...

    journal_title:Journal of proteome research

    pub_type: 杂志文章

    doi:10.1021/pr060620k

    authors: John JP,Pintsov O,Petter-Puchner A,Redl H,Pollak A,Chen WQ,Lubec G

    更新日期:2007-04-01 00:00:00