Extending the scope of neuropeptidomics in the mammalian brain
Publication date: June 2014 Source:EuPA Open Proteomics, Volume 3 Author(s): Xiaozhe Zhang , Filomena Petruzziello , Gregor Rainer Neuropeptides are signaling molecules of intermediate size that are involved in neurotransmission and endocrine regulation. Complete monitoring of neuropeptides using neuropeptidomics approaches remains an important goal for describing targeted physiological regulation pathways. Considerable effort has been expended, particularly in terms of technique and methodology development, to extend the scope of neuropeptidomics. The capability of peptide characterization has been gradually improv...
Source: EuPA Open Proteomics - October 13, 2014 Category: Bioinformatics Source Type: research
New insights into the FLPergic complements of parasitic nematodes: Informing deorphanisation approaches
Publication date: June 2014 Source:EuPA Open Proteomics, Volume 3 Author(s): Ciaran J. McCoy , Louise E. Atkinson , Mostafa Zamanian , Paul McVeigh , Tim A. Day , Michael J. Kimber , Nikki J. Marks , Aaron G. Maule , Angela Mousley FMRFamide-like peptide (FLP) receptors are appealing as putative anthelmintic targets. To date, 31 flp-encoding genes have been identified in Caenorhabditis elegans and thirteen FLP-activated G-protein coupled receptors (FLP-GPCRs) have been reported. The lack of knowledge on FLPs and FLP-GPCRs in parasites impedes their functional characterisation and chemotherapeutic exploitation....
Source: EuPA Open Proteomics - October 13, 2014 Category: Bioinformatics Source Type: research
A simple protocol for venom peptide barcoding in scorpions
Publication date: June 2014 Source:EuPA Open Proteomics, Volume 3 Author(s): Stephan Schaffrath , Reinhard Predel Scorpion venoms contain many species-specific peptides which target ion channels in cell membranes. Without harming the scorpions, these peptides can easily be extracted and detected by MALDI-TOF mass spectrometry. So far, only few studies compared the venom of different species solely for taxonomic purposes. Here, we describe a very simple protocol for venom extraction and mass fingerprinting that was developed for peptide barcoding (venom code for species identification) and facilitates reproducibility ...
Source: EuPA Open Proteomics - October 13, 2014 Category: Bioinformatics Source Type: research
Identification of two capa cDNA transcripts and detailed peptidomic characterization of their peptide products in Periplaneta americana
Publication date: June 2014 Source:EuPA Open Proteomics, Volume 3 Author(s): Susanne Neupert , Christian Derst , Sebastian Sturm , Reinhard Predel The first CAPA peptides of insects were identified from Periplaneta americana using extracts of 8000 abdominal perisympathetic organs. The corresponding gene of cockroaches and other basal insects, however, remained undiscovered. Here we identified two capa cDNA transcripts of P. americana. Single cell mass spectrometry of capa neurons in abdominal ganglia yielded a complete coverage of the precursor sequences of both transcripts; with intermediates of precursor processi...
Source: EuPA Open Proteomics - October 13, 2014 Category: Bioinformatics Source Type: research
Historical perspective of peptidomics
Publication date: June 2014 Source:EuPA Open Proteomics, Volume 3 Author(s): Michael Schrader , Peter Schulz-Knappe , Lloyd D. Fricker Peptides have been studied for over 100 years, but for most of this time the focus was on a specific peptide or peptides, and not on the general peptidome of a biological sample. In the 1990s, mass spectrometry techniques were developed for the analysis of proteins, usually after digestion into peptides. The field of peptidomics started soon after proteomics and has grown to over 600 publications that use the word “peptidomic” or “peptidomics”. Although peptidomics is related...
Source: EuPA Open Proteomics - October 13, 2014 Category: Bioinformatics Source Type: research
Mass spectrometric characterization of the crustacean neuropeptidome
Publication date: June 2014 Source:EuPA Open Proteomics, Volume 3 Author(s): Qing Yu , Chuanzi OuYang , Zhidan Liang , Lingjun Li Neuropeptides (NPs) are the largest class of signaling molecules used by nervous systems. Despite their functional importance, numerous challenges exist to characterize the full complement of NPs – the neuropeptidome. In this review, we discuss recent advances in MS-based techniques for NP identification and quantitation, as well as sample preparation strategies for various applications in several crustacean model organisms. By surveying published examples of crustacean neuropeptidomic...
Source: EuPA Open Proteomics - October 13, 2014 Category: Bioinformatics Source Type: research
Intracellular peptides: From discovery to function
Publication date: June 2014 Source:EuPA Open Proteomics, Volume 3 Author(s): Emer S. Ferro , Vanessa Rioli , Leandro M. Castro , Lloyd D. Fricker Peptidomics techniques have identified hundreds of peptides that are derived from proteins present mainly in the cytosol, mitochondria, and/or nucleus; these are termed intracellular peptides to distinguish them from secretory pathway peptides that function primarily outside of the cell. The proteasome and thimet oligopeptidase participate in the production and metabolism of intracellular peptides. Many of the intracellular peptides are common among mouse tissues and huma...
Source: EuPA Open Proteomics - October 13, 2014 Category: Bioinformatics Source Type: research
Peptidomics applied: A new strategy for development of selective antagonists/agonists of insect pyrokinin (FXPRLamide) family using a novel conformational-mimetic motif
Publication date: June 2014 Source:EuPA Open Proteomics, Volume 3 Author(s): Ronald J. Nachman Applied peptidomics: A PK active core analog incorporating a novel transPro conformational-mimetic motif, the dihydroimidazole moiety, was found to demonstrate pure, selective agonism in pyrokinin (PK) family bioassays. A second PK core analog incorporating the dihydroimidazole moiety proved to be an antagonist of the diapause-termination activity of another PK assay. The dihydroimidazole analogs feature a modification adjacent to the primary tissue-bound peptidase hydrolysis site that is expected to enhance biostability ove...
Source: EuPA Open Proteomics - October 13, 2014 Category: Bioinformatics Source Type: research
Little things make big things happen: A summary of micropeptide encoding genes
Publication date: June 2014 Source:EuPA Open Proteomics, Volume 3 Author(s): Jeroen Crappé , Wim Van Criekinge , Gerben Menschaert Classical bioactive peptides are cleaved from larger precursor proteins and are targeted toward the secretory pathway by means of an N-terminal signaling sequence. In contrast, micropeptides encoded from small open reading frames, lack such signaling sequence and are immediately released in the cytoplasm after translation. Over the past few years many such non-canonical genes (including open reading frames, ORFs smaller than 100 AAs) have been discovered and functionally characterized i...
Source: EuPA Open Proteomics - October 13, 2014 Category: Bioinformatics Source Type: research
Peptidomics and processing of regulatory peptides in the fruit fly Drosophila
Publication date: June 2014 Source:EuPA Open Proteomics, Volume 3 Author(s): Dennis Pauls , Jiangtian Chen , Wencke Reiher , Jens T. Vanselow , Andreas Schlosser , Jörg Kahnt , Christian Wegener More than a decade has passed since the release of the Drosophila melanogaster genome and the first predictions of fruit fly regulatory peptides (neuropeptides and peptide hormones). Since then, mass spectrometry-based methods have fuelled the chemical characterisation of regulatory peptides, from 7 Drosophila peptides in the pre-genomic area to more than 60 today. We review the development of fruit fly peptidomics, and...
Source: EuPA Open Proteomics - October 13, 2014 Category: Bioinformatics Source Type: research
Peptidomics state-of-the-art [2014]
Publication date: June 2014 Source:EuPA Open Proteomics, Volume 3 Author(s): Geert Baggerman , Steven Husson , Christian Wegener , Peter Verhaert (Source: EuPA Open Proteomics)
Source: EuPA Open Proteomics - October 13, 2014 Category: Bioinformatics Source Type: research
Proteomic and genomic analysis reveals novel Campylobacter jejuni outer membrane proteins and potential heterogeneity
In this study we identified 47 proteins within the Sarkosyl-insoluble fraction of Campylobacter jejuni 81-176, using LC–ESI-MS/MS. Comparative analysis of outer membrane protein sequences was visualised to reveal protein distribution within a panel of Campylobacter spp., identifying several C. jejuni-specific proteins. Smith–Waterman analyses of C. jejuni homologues revealed high sequence conservation amongst a number of hypothetical proteins, sequence heterogeneity of other proteins and several proteins which are absent in a proportion of strains. Graphical abstract (Source: EuPA Open Proteomics)
Source: EuPA Open Proteomics - October 13, 2014 Category: Bioinformatics Source Type: research
Proteomic analysis of metacyclogenesis in Leishmania infantum wild-type and PTR1 null mutant
Publication date: September 2014 Source:EuPA Open Proteomics, Volume 4 Author(s): Wilfried Moreira , Danielle Légaré , Gina Racine , Gaétan Roy , Marc Ouellette The parasite Leishmania exhibits a dimorphic life cycle with promastigotes found in the insect vector and amastigotes residing within mammalian macrophages. In the insect, promastigotes undergo metacyclogenesis with two main stages, the procyclic and metacyclic stages. Reduced pterins, provided by the pteridine reductase PTR1, are important factors controlling metacyclogenesis. We applied here the liquid-based free-flow electrophoresis technique for the...
Source: EuPA Open Proteomics - October 13, 2014 Category: Bioinformatics Source Type: research
Simple detection of phosphoproteins in SDS-PAGE by quercetin
Publication date: September 2014 Source:EuPA Open Proteomics, Volume 4 Author(s): Xi Wang , Maowei Ni , Chao Niu , Xinliang Zhu , Ting Zhao , Zhongxin Zhu , Yuanhu Xuan , Weitao Cong A novel fluorescence-based staining method was developed for phosphoprotein analysis in sodium dodecyl sulfate-polyacrylamide gel electrophoresis (SDS-PAGE). Similar to the mechanism of immobilized metal ion affinity chromatography (IMAC), the method employed quercetin–aluminum (III)-appended complex as a fluoroprobe to selectively visualize phosphorylated proteins among total proteins. According to the results, as low as 16–32...
Source: EuPA Open Proteomics - October 13, 2014 Category: Bioinformatics Source Type: research
Characterisation of potential novel allergens in the fish parasite Anisakis simplex
Publication date: September 2014 Source:EuPA Open Proteomics, Volume 4 Author(s): Christiane Kruse Fæste , Karen R. Jonscher , Maaike M.W.B. Dooper , Wolfgang Egge-Jacobsen , Anders Moen , Alvaro Daschner , Eliann Egaas , Uwe Christians The parasitic nematode Anisakis simplex occurs in fish stocks in temperate seas. A. simplex contamination of fish products is unsavoury and a health concern considering human infection with live larvae (anisakiasis) and allergic reactions to anisakid proteins in seafood. Protein extracts of A. simplex produce complex band patterns in gel electrophoresis and IgE-immunostaining. ...
Source: EuPA Open Proteomics - October 13, 2014 Category: Bioinformatics Source Type: research
