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JIOMICS | VOL 5 | ISSUE 2 | DECEMBER 2015 | 1-62 JOURNAL OF INTEGRATED OMICS Journal of Integrated Omics A METHODOLOGICAL JOURNAL HTTP://WWW.JIOMICS.COM Special Issue: Proceeding Abstracts of the 4 th International Congress on Analytical Proteomics (ICAP 2015) Mechanisms underlying metabolic disorders deciphered using quantitative proteomics of non-sequenced species F. Bertile* CNRS – Université de Strasbourg, UMR7178, Institut Pluridisciplinaire Hubert Curien (IPHC), Département Sciences Analytiques, Laboratoire de Spectrométrie de Masse Bio-Organique, 25 rue Becquerel, 67087, Strasbourg, France. *Corresponding author: fbertile@unistra.fr Available Online: 31 December 2015 Abstract Purpose: Since the last few years, there is growing evidence that important questions related to human health may simply not be answered by only studies in the mainstream of laboratory murine models. In this context, there is an increasing interest on wild animals as a source of new information. The aim is here to present examples where proteomics applied to exotic species can help understanding how certain animals do support environmental conditions that would be detrimental to human health. Experimental description: We examined the impact of different conditions (e.g. food scarcity, weightlessness and physical inactivity, high -fat diets) on the proteome of various tissues collected from laboratory rodents and also from wild penguins, space-flown mice, wild bears and selected lines of voles. Because no protein or even genomic sequence was available for most of these species, we performed both classical database searches and de novo sequencing followed by Blast searches to identify a maximum of proteins. Quantitative proteomics was then achieved using a combination of complementary approaches, including 2D-DIGE/MS and label-free MS-based proteomics (spectral counting and/or on the basis of XICs). Results: In non-sequenced species, the use of de novo sequencing allowed identifying 20% more proteins in comparison with the use of only classical Mascot searches. To obtain this result, de novo sequencing was performed only from high quality spectra as filtered using the Recover module of our software suite (https://msda.unistra.fr/). In any studied species, hundreds to thousands of proteins were identified (FDR
JIOMICS | VOL 5 | ISSUE 2 | DECEMBER 2015 | 1-62 JOURNAL OF INTEGRATED OMICS Journal of Integrated Omics A METHODOLOGICAL JOURNAL HTTP://WWW.JIOMICS.COM Special Issue: Proceeding Abstracts of the 4 th International Congress on Analytical Proteomics (ICAP 2015) Aptamers in cancer research A. Drabik* 1 , J. Ner-Kluza 1 , Laia Civit 2 , Günter Mayer 2 , Jerzy Silberring 1 1 AGH University of Science and Technology, Kraków, Poland. 2 University of Bonn, LIMES Institute, Bonn, Germany. *Corresponding author: drabik@agh.edu.pl Available Online: 31 December 2015 Abstract Introduction: Along with the generation of the term “magic bullet” by Ehrlich a great concept arises of a cancer treatment method, where only tumor cells would be killed by an ideal therapeutic agent. The targeted therapy has become a main goal for conquer cancer. Most therapeutic agents in current clinical use, such as chemotherapy, radiotherapy, and immunotherapy are not specific for the molecules responsible for human disease, thus distribution of the drug in the organism results in unwanted side effects. Targeted treatment is based on specific ligand recognition. Aptamers are short single-stranded nucleic acids with a defined three-dimensional shape that allows them to interact with high affinity with a target molecule. They have advantage that they do not induce immunological response. The low immunogenicity and cellular-targeting properties, together with the fact that they can be chemically synthesizes in a vast amounts might result in a suitable drugs with low side effects. They can be used for identification of cell-surface molecules associated with a pathogenic state of a cell. Purpose: Identification of proteins targeted by aptamers in cancer cells. Experimental description: We introduced the proteomic studies of aptamers targets in cancer cell lines PC3 and MCF7. We applied biotinylated forms of aptamers characterized by the strong affinity to streptavidin to isolate target proteins. We have performed traditional bottomup proteomic approach to analyze the group of proteins that bind to A26 and A33 aptamers that can serve as potential metastases molecular markers and targets for selective chemotherapy. We have found that cell surface receptors and proteins localized inside the cells are capable of binding A26 and A33. Results: Molecular targets of aptamers in cancer cells were identified. Based on the presented research we indicate the importance of the applicability of aptamers in many technologies including selective diagnostics and therapeutics Conclusions: Aptamers can be considered as effective tools, since they possess unique properties to aid in cancer diagnosis, prevention, and treatment. Keywords: aptamer, proteomics, cancer. Acknowledgements : This work was supported by the grant "META" No. 5/EuroNanoMed/2012 1-62: 26
Page 1 and 2: Volume 5 | Issue 2 | December 2015
Page 3 and 4: Randen Patterson Center for Computa
Page 5 and 6: Biodiversity Research Center, Acade
Page 7 and 8: Belgium Bart De Spiegeleer Ghent Un
Page 9 and 10: Instituto Superior Técnico, Centro
Page 11 and 12: Veronica Mainini Dept. Health Scien
Page 13: Xuequn Chen Department of Molecular
Page 16 and 17: Committees Conference Chairs 4 th I
Page 18 and 19: CONTENTS OF VOLUME 5 | ISSUE 2 | DE
Page 20 and 21: JIOMICS | VOL 5 | ISSUE 2 | DECEMBE

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