RECENT ADVANCES In BIOLOGY, - WSEAS
RECENT ADVANCES in BIOLOGY,BIOPHYSICS, BIOENGINEERINGand COMPUTATIONALCHEMISTRYProceedings of the 5th WSEAS International Conference onCELLULAR and MOLECULAR BIOLOGY, BIOPHYSICS andBIOENGINEERING (BIO '09)Proceedings of the 3rd WSEAS International Conference onCOMPUTATIONAL CHEMISTRY (COMPUCHEM '09)Puerto De La Cruz, Tenerife, Canary Islands, SpainDecember 14-16, 2009Recent Advances in Biology and BiomedicineA Series of Reference Books and TextbooksPublished by WSEAS Presswww.wseas.orgISSN: 1790-5125ISBN: 978-960-474-141-0
RECENT ADVANCES in BIOLOGY,BIOPHYSICS, BIOENGINEERINGand COMPUTATIONALCHEMISTRYProceedings of the 5th WSEAS International Conference onCELLULAR and MOLECULAR BIOLOGY, BIOPHYSICS andBIOENGINEERING (BIO '09)Proceedings of the 3rd WSEAS International Conference onCOMPUTATIONAL CHEMISTRY (COMPUCHEM '09)Puerto De La Cruz, Tenerife, Canary Islands, SpainDecember 14-16, 2009Recent Advances in Biology and BiomedicineA Series of Reference Books and TextbooksPublished by WSEAS Presswww.wseas.orgCopyright 2009, by WSEAS PressAll the copyright of the present book belongs to the World Scientific and Engineering Academy andSociety Press. All rights reserved. No part of this publication may be reproduced, stored in a retrievalsystem, or transmitted in any form or by any means, electronic, mechanical, photocopying, recording, orotherwise, without the prior written permission of the Editor of World Scientific and Engineering Academyand Society Press.All papers of the present volume were peer reviewed by two independent reviewers. Acceptance wasgranted when both reviewers' recommendations were positive.See also: http://www.worldses.org/review/index.htmlISSN: 1790-5125ISBN: 978-960-474-141-0World Scientific and Engineering Academy and Society
RECENT ADVANCES in BIOLOGY,BIOPHYSICS, BIOENGINEERINGand COMPUTATIONALCHEMISTRYProceedings of the 5th WSEAS International Conference onCELLULAR and MOLECULAR BIOLOGY, BIOPHYSICS andBIOENGINEERING (BIO '09)Proceedings of the 3rd WSEAS International Conference onCOMPUTATIONAL CHEMISTRY (COMPUCHEM '09)Puerto De La Cruz, Tenerife, Canary Islands, SpainDecember 14-16, 2009
Editors:Prof. Cornelia A. Bulucea, University of Craiova, RomaniaProf. Valeri Mladenov, Technical University of Sofia, BulgariaProf. Emil Pop, University of Petrosani, RomaniaProf. Monica Leba, University of Petrosani, RomaniaProf. Nikos Mastorakis, Technical University of Sofia, BulgariaInternational Program Committee Members:Jill Mesirov (MIT)Thomas Lengauer (Saarbrucken)Alfonso Valencia (CNB, Madrid)Ceslovas Venclovas (Vilnius)Martin Vingron (Max Planck Institute, Berlin)Shoshana Wodak (University of Toronto)Ralf Zimmer (Saarbrucken)Haim Wolfson (Tel Aviv University)Alberto Apostolico (Padova University)Serafim Batzoglou (Stanford University)Rita Casadio (Bologna University)Soren Brunak (Technical University Denmark)Frank Eisenhaber (IMP, Vienna)Nir Friedman (Hebrew University of Jerusalem)Mikhail Gelfand (IITP, Moscow)Raffaele Giancarlo (Palermo University)David Gilbert (University of Glasgow)Concettina Guerra (Padova University)Roderic Guigo (IMIM, Barcelona)Sorin Istrail (Brown University)Simon Kasif (Boston University)Andrzej Kolinski (Warsaw University)Gregory Kucherov (LIFL, Lille)Giuseppe Lancia (Udine University)Satoru Miyano (Tokyo University)Pavel Pevzner (San Diego)Ron Pinter (Technion, Haifa)Tal Pupko (Tel Aviv University)Aviv Regev (Harvard University)Isidore Rigoutsos (TJ Watson Research Center)Burkhardt Rost (Columbia University)Mikhail Roytberg (IMPB, Russia)Marie-France Sagot (Lyon)Eran Segal (Weizmann Institute of Science)Ron Shamir (Tel Aviv University)Roded Sharan (Tel Aviv University)Steve Skiena (SUNY Stony Brook)Jeff Skolnick (Georgia Institute of Technology)Wojciech Szpankowski (Purdue University)Anna Tramontano (University of Rome) RonUnger (Bar Ilan University)Donald Truhlar (University of Minnesota)Graham Richards (University of Oxford)Minhaeng Cho (Korea University)Modesto Orozco (University of Barcelona)Pavel Hobza (Czech Republic)Rebecca Wade (EML Research)Richard Friesner (Columbia University)Todd Martinez (University of Illinois)Walter Thiel (Max Planck Institute)Wilfred van Gunsteren (ETH)Alexander Lyubartsev (Stockholm University)Alexey Mazur (CNRS-UPR9080, IBPC)Alexey Onufiev (Virginia Tech)Amedeo Palma (CNR-ISMN)Andriy Baumketner (UNC Charlotte)Dieter Hofmann (GKSS Research Centre)George Shields (Hamilton College)Hassan Safouhi (University of Alberta)Jaroslav Koca (Masaryk university, Fac Sci)Jiri Vanicek (EPFL)Laurence Leherte (University of Namur) MariePierre Gaigeot (Universite d'Evry val d'Essonne)Martin Parker (University of Leeds)Nick Quirke (Imperial College London)Paul Smith (Kansas State University)Robert Woods (Carbohydrate Research Center)Roberto Lins (Pacific Northwest Laboratory)Roman Efremov (Shemyakin-Ovchinnikov)Scott Brown (Abbott Laboratories)Shina Lynn Kamerlin (Southern California)Tanja van Mourik (University of St Andrews)Yaoqi Zhou (Indiana University)Yingkai Zhang (New York University)
PrefaceThis year the 5th WSEAS International Conference on CELLULAR and MOLECULARBIOLOGY, BIOPHYSICS and BIOENGINEERING (BIO'09) and the 3rd WSEAS InternationalConference on COMPUTATIONAL CHEMISTRY (COMPUCHEM'09) were held at Puerto DeLa Cruz, Tenerife, Canary Islands, Spain, December 14-16, 2009. The conferences remainfaithful to their original idea of providing a platform to discuss biology of cell, metabolism,molecular biology, neural modeling, biophysics, biochemistry, computer biology, genetics,theoretical chemistry, computational material science, numerical analysis for chemicalengineering and chemistry, computational intelligence tools for chemistry and chemicalengineering, computational molecular science and nanoscience, mathematical molecularmedicine, chemical fluid mechanics, environmental chemical engineering etc. with participantsfrom all over the world, both from academia and from industry.Their success is reflected in the papers received, with participants coming from several countries,allowing a real multinational multicultural exchange of experiences and ideas.The accepted papers of these conferences are published in this Book that will be indexed by ISI.Please, check it: www.worldses.org/indexes as well as in the CD-ROM Proceedings. They willbe also available in the E-Library of the WSEAS. The best papers will be also promoted in manyJournals for further evaluation.Conferences such as these can only succeed as a team effort, so the Editors want to thank theInternational Scientific Committee and the Reviewers for their excellent work in reviewing thepapers as well as their invaluable input and advice.The Editors
RECENT ADVANCES in BIOLOGY, BIOPHYSICS, BIOENGINEERING and COMPUTATIONAL CHEMISTRYTable of ContentsPlenary Lecture 1: Nanoparticles for the Transport of Antiretroviral Drugs across the BloodBrain Barrier: A Potential Therapy for the Acquired Immunodeficiency SyndromeYung-Chih Kuo11Plenary Lecture 2: Creation of Electromagnetic Structure-Creating Spaces to Improve theGrowth of Some Types of Cells and AlbuminsVladyslav Vlastopulo12Plenary Lecture 3: A New Way of Natural Oligopeptide Primary Structure ElucidationAlexander A. Zamyatnin13Studies on a Promising Anticancer Molecule of Marine Origin. Results of an InterdisciplinaryStudyA. Zovko, T. Turk, M. Faimali, F. Garaventa, E. Chelossi, C. Falugi, M. G. Aluigi, C. Angelini, S.Trombino, L. Gallus, S. Ferrando, P. Russo, L. Paleari, K. Sepcic15An Intelligent Controller of the Chemical ReactorJelenka Savkovic-Stevanovic24Evolution of Proliferating Cells under Different Decaying Behaviors of the Total Tumor CellsDuring a Course of TreatmentMitra Shojania Feizabadi30A New Way of Natural Oligopeptide Primary Structure ElucidationAlexander A. Zamyatnin33Nitrate Removal from the Cetina Surface Water by using Bacteria Attached to Lewatit M600Lucija Foglar, Ana-Marija Babic, Mario Siljeg39Information Theory-Based Code Optimization of Matrix Elements for Overall RotationAngular MomentaMaria Eugenia Castro, Camelia Munoz-Caro, Alfonso Nino45Nanoaggregation and Solubility of Crude Oil Asphaltenes from Molecular DynamicsSimulationsFrancesco Frigerio51Computational Study of Nodifloridin-A and Nodiflorifin-B, with Highlight on the Peculiaritiesof Acylated Phloroglucinol DerivativesLiliana Mammino, Mwadham M. Kabanda58Mitochondrial DNA Copy Number and Citrate Synthase Activity in Nonalcoholic Fatty LiverDisease Induced in Rats by a high-fat plus Fructose Diet Fortified or not withDehydroepiandrosterone (DHEA)Angela Maria Lezza, Pierluigi Cassano, Raffaella Mastrocola, Pesce Vito, Manuela Aragno, MariaNicola Gadaleta64DFT Study of Tautomeric Equilibria of 6-Hydroxy—FlourocytosineBehzad Chahkandi, Sorour Hasani68ISSN: 1790-51259ISBN: 978-960-474-141-0
RECENT ADVANCES in BIOLOGY, BIOPHYSICS, BIOENGINEERING and COMPUTATIONAL CHEMISTRYInvestigation of Various Conformations of HCO-Gly-L-Val-Gly-NH2 Tripeptide in Elastin: AbInitio and DFT CalculationsBehzad Chahkandi, Badrosadat Seyed Hosseini74Nanochannel and its Application in Analytical ChemistryZenglian Yue, Guoqing Zhao, Bin Peng, Shasheng Huang80On the Numerical Solution of Mathematical Models of Cancer Growth and Optimal CancerTherapyNikos E. Mastorakis94Development of Transgenic Cotton Expressing Modified Bt and CpTI Genes by Pollen TubePathway Mediated-TransformationJinying Guo, Tianzhen Zhang105High Pest Resistance Transgenic Cotton Transformed with Bt and Sck GeneGuo Jinying, Chen Tao, Zhang Tianzhen110The Genetic Stability of Transgenic Bt and Sck Insect-Resistant CottonGuo Jinying, Chen Tao, Zhang Tianzhen115Qsar Study of Anthranilic Acid Sulfonamides as Inhibitors of Methionine Aminopeptidase-2using Different Chemometrics ToolsRazieh Sabet, Mohsen Shahlaei, Afshin Fassihi119Virtual Reality Applied to the Management, Planning and Optimization of SurgicalInterventionsCristina Suarez-Mejias, Armando Cabral-Camacho, Daniel Derlinchan-Gonzalez, Tomas GomezCia, Purificacion Gacto-Sanchez, Manuel Perez-Lorente, Carlos Parra-Calderon, Jose Maria De LaHiguera-Gonzalez126Characterization of Codon Usage Bias in the Newly Identified DEV UL10 GeneTao Zhou, An-Chun Cheng, Ming-Shu Wang, Dekang Zhu,Renyong Jia, Qihui Luo, Hengmin Cui, YiZhou, Yin Wang, Zhiwen Xu, Zhengli Chen, Xiaoyue Chen, Xiaoyu Wang132Numerical Simulation of Thermal Response of the Skin TissuesIulia Maria Carstea, Ion Carstea143Authors Index149ISSN: 1790-512510ISBN: 978-960-474-141-0
RECENT ADVANCES in BIOLOGY, BIOPHYSICS, BIOENGINEERING and COMPUTATIONAL CHEMISTRYPlenary Lecture 1Nanoparticles for the Transport of Antiretroviral Drugs across the Blood-Brain Barrier: APotential Therapy for the Acquired Immunodeficiency SyndromeProfessor Yung-Chih KuoDepartment of Chemical EngineeringNational Chung Cheng UniversityChia-Yi, Taiwan 62102, Republic of ChinaE-mail: chmyck@ccu.edu.twAbstract: Transport of antiretroviral agents into the central nervous system is an important issue because humanimmunodeficiency viruses (HIV) have been found to reside and replicate themselves in the brain parenchyma. Thisyields a complicated treatment for the acquired immunodeficiency syndrome. Recently, novel nanoparticles (NPs)have been developed for carrying anti-HIV drugs across the blood-brain barrier (BBB). In this presentation, the antiHIV drugs incorporated with NPs to circumvent the BBB included zidovudine, lamivudine, stavudine, didanosine,delavirdine, and saquinavir. These pharmaceuticals were loaded on the surfaces of polymeric NPs or entrapped thacrylate, and poly(lactide-co-glycolide) were among the typical polymeric NPs, and various kinds ofSLNs with lipid core of tripalmitin, cacao butter, docosanoic acid, stearic acid, and Compritol ATO 888 were alsodiscussed. On the surfaces of the drug carriers, bioactive molecules including polysorbate 80, sorbitan monolaurate,phospatidylcholine, cholesteryl hemisuccinate, taurocholate, stearylamine, dioctadecyldimethyl ammonium bromide,heparin, L-arginine, and transferrin were applied to stabilization or modification. Effects of cold storage, pH value,synthesis duration, stirring speed, lyophilization, and composition on the drug delivery system, and physicochemicalcharacteristics including particle size and shape, molecular weight, zeta potential, mobility, drug distribution, loadingand entrapment efficiency, and release kinetics were shown. In addition, confluent monolayer of brain-microvascularendothelial cells (BMECs) from both bovine and human and an in vivo rat model were employed to the evaluation ofpermeability across the BBB. Presence of the medium chemicals including alcohol and glutamic acid was alsoconsidered. It was generally observed that cytotoxicity and transendothelial electrical resistance of BMECs coculturedwith NPs were in reasonable range, and dramatic increase in the permeability of NPs-mediated system could beobtained. Moreover, impacts of the exposure to electromagnetic field (EMF) including power, wave type, frequency,modulation or depth of amplitude modulation, and modulation or deviation of frequency modulations weredemonstrated. Finally, the evidence of vesicular endocytosis of drug-containing NPs by clathrin-coated endosomeand the expression of tight junction and P-glycoprotein on the plasma membranes of BMECs were presented.Brief Biography of the Speaker:Dr. Yung-Chih Kuo is a professor at the Department of Chemical Engineering, National Chung Cheng University. Hisresearch interests are related to biomaterials, drug delivery system, tissue engineering, blood-brain barrier, nervousregeneration, cancer therapy, biophysics, and colloid and interface science. In these fields, he has authored orcoauthored over 100 reviewed journal papers, abstracts, book chapters, and technical reports. He is an honormember of Phi Tau Phi Society and an active life member of Biochemical Engineering Society of Taiwan and TaiwanInstitute of Chemical Engineers. He was often invited as a manuscript reviewer for over 20 journals and an externalreviewer for academic awards, research grants, faculty recruitments and promotions, and hosting internationalsymposium subsidy.ISSN: 1790-512511ISBN: 978-960-474-141-0
RECENT ADVANCES in BIOLOGY, BIOPHYSICS, BIOENGINEERING and COMPUTATIONAL CHEMISTRYPlenary Lecture 2Creation of Electromagnetic Structure-Creating Spaces to Improve the Growth of SomeTypes of Cells and AlbuminsDr. Vladyslav VlastopuloResearch Laboratories VVLChief of biophysical departmentStr. Gen. Petrova 9\2, app. 44Odessa, 65065, UkraineE-mail: vlastopulo@te.net.uaAbstract: There are given some constructions of bio-field simulators for creating the electromagnetic structurecreating spaces and improving the growth of some types of cells and albumins.There are given investigations of such illnesses: outer covering wounds, anaemia, ligamentous disruption, neurologyand diabetes mellitus, - with the help of different types of bio-field simulators.Brief Biography of the Speaker:Dr. Vladyslav Vlastopulo is a scientifically-commercial director of biophysical department on creating of newbiomedical methods and devices, bio-field simulators in "Research Laboratories VVL", Odessa, Ukraine, andprofessor of cathedra of ways and methods of struggling with marine corrosion and biological fouling in OdessaMarine University. His research interests are related to biomedical, tribologycal, biotribologycal and mechanicalengineering and also biophysics, bio-field simulators, computer fragmentary treatment of diseases demanding theoperations, drug abuse patients, obesity patients, the using in video, audio products for creating attractedbioenergetic advertisement, creation of joints on basis of hydrodynamical lubricant theory. He has more than 120papers, abstracts, book chapters and technical reports in biomedical, tribologycal, biotribologycal and mechanicalengineering, and 50 of them are inventions of Soviet Union, Russian Federation and Ukraine. He is a member ofmore than 20 international conferences on mechanical, biomedical, tribologycal engineering.ISSN: 1790-512512ISBN: 978-960-474-141-0
RECENT ADVANCES in BIOLOGY, BIOPHYSICS, BIOENGINEERING and COMPUTATIONAL CHEMISTRYPlenary Lecture 3A New Way of Natural Oligopeptide Primary Structure ElucidationProfessor Alexander A. ZamyatninDepartamento de InformaticaUniversidad Tecnica Federico Santa Maria1680 av. Espana, Valparaiso V-110CHILEalso withComputer Biochemistry GroupA. N. Bach Institute of BiochemistryRussian Academy of Sciences33 Leninsky prosp., Moscow 119071RUSSIAN FEDERATIONE mail: aaz@inbi.ras.ruAbstract: For more than a century, natural oligopeptides have attracted scientific attention as important biochemicalregulators. Since that time, thousands natural oligopeptide regulators have been described, and now 600 newnatural oligopeptides emerge annually, out of a literature of 70 000 publications each year on oligopeptide chemistryand biology according to PubMed database. Their primary structure is determined either directly or by translationfrom nucleotide sequences. Both these ways are experimental and laborous. But there are a lot of unrecognizedprotein sequences in different public databases which can contain unknown oligopeptide structures. Thereupon wehave carried out a theoretical structure–function analysis of known uncharacterized protein amino acid residuesequences in order to identify new oligopeptide primary structures. As an example, grape (Vitis vinifera) proteinswere chosen. A special computer analysis was developed for such analysis. The data of GenBank and SwissProtdatabases containing primary structures of unrecognized grape proteins, EROP-Moscow database containinginformation on structure and functions of plant regulatory oligopeptides and specially created computer programs forthe comparison of GenBank or SwissProt information with EROP-Moscow data were used. This method permitted toreveal new potentially active regulatory oligopeptide sequences after alignment procedure. It was been found 21grape protein structure sites homologues to known regulatory oligopeptides elucidated from other plant species. Theirsimilarity with other plant oligopeptide primary structures was from 54.4 to 95.7%. They can be characterized asputative antimicrobial oligopeptides and rapid alkalinization factors. The problem of existence of these oligopeptidestructures in grape is discussed. It has been proposed that rapid alkalinization factors can also possess antimicrobialactivity. This way of oligopeptide structure elucidation can be extended to oligopeptide structures of any functionalclass.Brief Biography of the Speaker:Alexander A.Zamyatnin is scientist general of A.N.Bach Institute of Biochemistry, Russian Academy of Sciences,Moscow, Russian Federation and associated investigator of Santa Maria Technical University, Valparaiso, Chile. Hisarea of expertise is endogenous oligopeptides (neuropeptides, hormones, toxins, antimicrobial), proteinthermodynamics, structure-function relationship, ligand-receptor interaction, biosensors, computer biochemistry andbiophysics, biological data bases, and drug design. He authored or co-authored over 200 scientific papers publishedin reviewed journals or presented at international conferences. He is the author of unique EROP-Moscowoligopeptide database (http://erop.inbi.ras.ru/; A.A.Zamyatnin et al. Nucleic Acids Research, 34, Database Issue, pp.D261-D266, 2006). He is a member of the European Peptide Society (from 1995).ISSN: 1790-512513ISBN: 978-960-474-141-0
RECENT ADVANCES in BIOLOGY, BIOPHYSICS, BIOENGINEERING and COMPUTATIONAL CHEMISTRYAuthors IndexAluigi, M. G.Angelini, C.Aragno, M.Babic, A.-M.Cabral-Camacho, A.Carstea, I.Cassano, P.Castro, M. E.Chahkandi, B.Chelossi, E.Chen, X.Chen, Z.Cheng, A.-C.Cui, H.De La Higuera-Gonzalez, J. M.Derlinchan-Gonzalez, D.Faimali, M.Falugi, C.Fassihi, A.Feizabadi, M. S.Ferrando, S.Foglar, L.Frigerio, F.Gacto-Sanchez, P.ISSN: 1790-512515156439126143644568, 7415132132132132126126151511930153951126Gadaleta, M. N.64Gallus, L.15Garaventa, F.15Gomez-Cia, T.126Guo, J.105, 110, 115Hasani, S.68Hosseini, B. S.74Huang, S.80Jia, R.132Kabanda, M. M.58Lezza, A. M.64Luo, Q.132Mammino, L.58Maria Carstea, I. M. 143Mastorakis, N. E.94Mastrocola, R.64Munoz-Caro, C.45Nino, A.45Paleari, L.15Parra-Calderon, C.126Peng, B.80Perez-Lorente, M.126Russo, P.15Sabet, R.119149Savkovic-Stevanovic, J24Sepcic, K.15Shahlaei, M.119Siljeg, M.39Suarez-Mejias, C.126Tao, C.110, 115Tianzhen, Z.110, 115Trombino, S.15Turk, T.15Vito, P.64Wang, M.-S.132Wang, X.132Wang, Y.132Xu, Z.132Yue, Z.80Zamyatnin, A. A.33Zhang, T.105Zhao, G.80Zhou, T.132Zhou, Y.132Zhu, D.132Zovko, A.15ISBN: 978-960-474-141-0
Pavel Hobza (Czech Republic) Rebecca Wade (EML Research) . Cia, Purificacion Gacto-Sanchez, Manuel Perez-Lorente, Carlos Parra-Calderon, Jose Maria De La . Dr. Yung-Chih Kuo is a professor at the Department of C
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