Table of Contents

Table of Contents

Preface

Codon Usage and Gene Expression In Bacteria
(Boris I. Bachvarov, Ivan G. Ivanov, Institute of Molecular Biology, Bulgarian Academy of Sciences, Sofia, Bulgaria)pp.1-50

Maillard Reaction and Spontaneous Mutagenesis in Escherichia Coli
(Roumyana Mironova, Yordan Handzhiyski, Toshimitsu Niwa, Alfredo Berzal, Kirill A. Datsenko, Barry L. Wanner, Ivan Ivanov, Department of Gene Regulations, Institute of Molecular Biology, Bulgarian Academy of Sciences, Sofia, Bulgaria, and others)pp.51-88

Nucleoid Architecture and Dynamics in Bacteria
(Ryosuke L. Ohniwa, Kazuya Morikawa, Toshiko Ohta, Chieko Wada and Kunio Takeyasu, Laboratory of Plasma Membrane and Nuclear Signaling, Kyoto University Graduate School of Biostudies, Kyoto, Japan, and others)pp.89-116

Genome Reduction in Bacillus Subtilis and Enhanced Productivities of Recombinant Proteins
(Yasushi Kageyama, Takuya Morimoto, Katsutoshi Ara, Katsuya Ozaki, Naotake Ogasawara, Biological Science Laboratories, Kao Corporation, Tochigi, Japan, and others)pp.117-134

Molecular Detection and Characterization of Food and Waterborne Viruses
(Alain Houde, Kirsten Mattison, Pierre Ward, Daniel Plante, Agriculture and Agri-Food Canada, Food Research and Development Centre, Quebec, Canada, and others)pp.135-182

hTERT in Cancer Chemotherapy: A Novel Target of Histone Deacetylase Inhibitors
(Jun Murakami, Jun-ichi Asaumi, Hidetsugu Tsujigiwa, Masao Yamada, Susumu Kokeguchi, Hitoshi Nagatsuka, Tatsuo Yamamoto, You-Jin Lee, Department of Oral and Maxillofacial Radiology, Graduate Schools of Medicine, Dentistry and Pharmaceutical Sciences, Okayama University, Okayama, Japan, and others)pp.183-218

Dynamics of DNA Polymerase
(Ping Xie, Laboratory of Soft Matter Physics, Beijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing)pp.219-254

Inhibiting viral DNA polymerase for HBV therapy
(Min Jiang, Yuanhao Li, Vertex Pharmaceutical Inc.)pp.255-274

Modeling DNA translocation and unwinding by helicase RecG
(Ping Xie, Laboratory of Soft Matter Physics, Beijing National Laboratory for Condensed Matter Physics, Institute of Physics, Chinese Academy of Sciences, Beijing)pp.275-290

De Novo DNA Synthesis by DNA Polymerase
(Xingguo Liang, Tomohiro Kato, Hiroyuki Asanuma, Department of Molecular Design and Engineering, Graduate School of Engineering, Nagoya University, Japan)pp.291-318

Bacteriophage Phi 29 DNA Polymerase: An Outstanding Replicase
(Miguel de Vega, Margarita Salas, Instituto de Biología Molecular “Eladio Viñuela” (CSIC), Centro de Biología Molecular “Severo Ochoa” (CSIC-UAM), Campus Universidad Autónoma, Madrid, Spain)pp.319-340

Bacterial Replicative DNA Helicases
(Subhasis B. Biswas, Jessica J. Clark, Deepa S. Kurpad, Esther E. Biswas, Department of Molecular Biology, Graduate school of Biomedical Sciences, University of Medicine and Dentistry of New Jersey, Stratford, NJ, and others)pp.341-376

Effect of Substrate Traps on Hhepatitis C Virus NS3 Helicase Catalyzed DNA Unwinding: Evidence for Enzyme Catalyzed Strand Exchange
(Ryan S. Rypma, Angela M. I. Lam, Department of Biochemistry and Molecular Biology, New York Medical College, Valhalla, NY)pp.377-394

Short Communication pp.395-395

DNA Instability in Premature Aging
(Lynne S. Cox, Ivan Boubriak, Department of Biochemistry, University of Oxford, South Parks Road, Oxford, United Kingdom)pp.419-452
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Recent Advances on DNA Damage, its Repair and Genomic Stability of Green Algae Chlamydomonas Reinhardtii and other Photoautotrophic Eukaryotes
(Andrea Sevcovicova, Alena Hercegova, Dept of Genetics, Faculty of Natural Sciences, Comenius University Bratislava, Slovak Republic)pp.453-488

Intra S-Phase Checkpoint
(Deborah Ruth Tasat, J. Sebastian Yakisich, Universidad Nacional de San Martín Buenos Aires, Argentina, and others)pp.489-514

Multiplex Cell Free Assays to Apprehend DNA Repair Responses: Application to Aging Study
(Sylvie Sauvaigo, Anne-Laure Raffin, Jean-François Millau, Alex Nkengne, Thierry Oddos, Laboratoire Lésions des Acides Nucléiques, LCIB (UMR-E3 CEA-UJF), CEA Grenoble, INAC SCIB LAN, Grenoble, France, and others)pp.515-540

Involvement of the cell cycle inhibitor p21CDKN1A in DNA Repair
(Micol Tillhon, Ornella Cazzalini, Lucia A. Stivala, A. Ivana Scovassi, Ennio Prosperi, Istituto di Genetica Molecolare del CNR (IGM-CNR), Pavia, Italy. 2Dipartimento di Medicina Sperimentale, Università di Pavia, Pavia, Italy)pp.541-558

7, 8-Dihydro-8-oxoguanine, A Major Form of Oxidative DNA Damage, and its Repair System
(Takeshi Hirano, Department of Life and Environment Engineering, Faculty of Environmental Engineering, The University of Kitakyushu, Kitakyushu, Fukuoka, Japan)pp.559-582

Participation of Heat Shock Proteins in DNA Repair Mechanisms in Cancer
(Silvina Nadin, Daniel R. Ciocca, Laboratory of Tumor Biology (SN) and Laboratory of Oncology (DRC), Institute of Medicine and Experimental Biology of Cuyo, Scientific and Technological Center of Mendoza, National Research Council (CONICET) and Argentine Foundation for Cancer Research, Mendoza, Argentina)pp.583-604

DNA Damage Repair in Testicular Germ Cells of Aging Men
(Moetaz El – Domyati, Hasan El- Fakahany, Denny Sakkas, Department of Dermatology, STD’s and Andrology, Al-Minya University, Al-Minya, Egypt, and others)pp.605-622

Nucleotide-Excision Repair Deficiency: A Causative Factor for Accelerated Aging Diseases in Humans?
(Ming Yin, Qingyi Wei, Departments of Epidemiology, The University of Texas, M. D. Anderson Cancer Center, Houston, Texas)

Historical Development of Uncaria Preparations and their Related Bioactive Components
(Ronald W. Pero, Institute of Clinical Medical Sciences, Section of Immunology, Lund University, Lund, Sweden)

DNA Damage Response and Repair: Mechanisms in Aging and Cancer
(Panagiotis J. Vlachostergios, Ioannis A. Voutsadakis, Department of Medical Oncology, University Hospital of Larissa, University of Thessaly School of Medicine, Larissa, Greece)

DNA Repair Gene XPC Codon 939 Polymorphism and AFB1-Related Hepatocellular Carcinoma Risk in Guangxi Population, China
(Xi Dai Long, Yuan-Feng Zhou, Jin-Guang Yao, Pinhu Liao, Yu-Jin Tang, Zan-Song Huang, Bing-Pu Chen, Xiao-Ying Huang, Chao Wang, Ai-Ming Ma, Yun Yi, Qiu-Xiang Liang, Yun-Long Lu, Department of Pathology, Affiliated Hospital of Youjiang Medical College for Nationalities, Baise, Guangxi Zhuang Autonomous Region, China, and others)

Influence of Age on Expresión of DNA Repair Genes in Arabidopsis
(Megan J. Osmond, Bernard A. Kunz, School of Life and Environmental Sciences, Deakin University, Geelong, Victoria, Australia, and others)

Acquired Antibiotic Resistance in Starters and Probiotics Strains of Lactic Acid Bacteria and Bifidobacteria Species
(Baltasar Mayo, Ana B. Flórez, Mohammed S. Ammor, and Susana Delgado, Department of Microbiology and Biochemistry, Instituto de Productos Lácteos de Asturias (CSIC), Asturias, Spain)

Antibody variable-region sequencing for hybridoma authentication
(Miha Kosmaè, Simon Koren, Nives Škrlj, Marko Dolinar, Vladka Èurin Šerbec
(Department for Production of Diagnostic Reagents and Research, Blood Transfusion Centre of Slovenia, Ljubljana, Slovenia, and others)

DNA Sequencing: Methods, Strategies and Protocols
(Naum, M., Bell, R., Mammel, M., Zheng, J., and Brown E.W., Food and Drug Administration, Division of Microbiology, College Park, Maryland US, and others)

DNA Sequencing: Methods, Strategies and Protocols in Molecular Biology Research Horizons
(Cimaglia Fabio, Assab Emanuela, D’Urso Oscar Fernando, Poltronieri Palmiro, Department of Environment and Biology Sciences, Lecce, Italy, and others)

RetroArray – a comprehensive diagnostic DNA chip for rapid detection and identification of retroviruses, retroviral, contaminants, and mistaken identity of cell lines
(Wolfgang Seifarth, Oliver Frank, Julia Schreml, and Christine Leib-Mösch, Medizinische Klinik, UMM – Universitätsmedizin Mannheim, University of Heidelberg, Germany et al.)

Biogenomic pathways in breast and ovarian malignancies: clinical and surgical workflow focused on tailoring procedures
(Tinelli A, Vergara D, Martignago R, Malvasi A, Vergari U, Hudelist G, Leo G, Marsigliante S, Department of Obstetrics and Gynaecology, Vito Fazzi Hospital, Lecce, Italy, and others)

Microarray analysis of altered gene expression in the kidney of mice exposed to radiation
(Mitsuru Nenoi, Radiation Effect Mechanisms Research Group, National Institute of Radiological Sciences, Inage-ku, Chiba, Japan)

Methods of data analysis applied to sequentially accumulated gene signatures
(Shun Ikeda, Rui Ose1, Hisashi Koga, Laboratory of Medical Genomics, Department of Human Genome Research, Kazusa DNA Research Institute, Japan, and others)

Application of Genomic Fingerprinting Methods for Molecular Characterization of Bioleaching Microorganisms
(Bidyut R. Mohapatra, W. Douglas Gould, Orlando Dinardo and David W. Koren CANMET Mining and Mineral Sciences Laboratory, Natural Resources Canada, Ottawa, Ontario, Canada)

DNA Fingerprinting: Applications, Methods and Processes
(L.A. Maldonado & E.T. Quintana, Instituto de Ciencias del Mar y Limnologia (ICMyL),
Universidad Nacional Autónoma de México (UNAM), Ciudad Universitaria, México DF México)

SNPs, mini-STRs and Molecular Photofitting: Novel Directions for Forensic DNA Typing
(Gerhard Mertens, Forensic DNA Laboratory, University of Antwerp, Antwerp, Belgium)

Application of PCR-DGGE fingerprinting in molecular ecology of marine microbial symbionts
(Zhiyong Li, Laboratory of Marine Biotechnology, School of Life Sciences and Biotechnology and Key Laboratory of Microbial Metabolism, Ministry of Education, Shanghai Jiao Tong University, Shanghai, P.R. China)

Short Communication: Discovery of Orphan Helicases and Deorphanization by Genome-Wide Analyses in Two Model Organisms, S. Cerevisiae and C. Elegans
(Toshihiko Eki, Fumio Hanaoka, Division of Life Science and Biotechnology, Department of Ecological Engineering, Toyohashi University of Technology, Toyohashi, Japan, and others)

Index