Biotechnology annual review最新文献

{"title":"G protein-independent cell-based assays for drug discovery on seven-transmembrane receptors.","authors":"Folkert Verkaar,&nbsp;Jos W G van Rosmalen,&nbsp;Marion Blomenröhr,&nbsp;Chris J van Koppen,&nbsp;W Matthijs Blankesteijn,&nbsp;Jos F M Smits,&nbsp;Guido J R Zaman","doi":"10.1016/S1387-2656(08)00010-0","DOIUrl":"https://doi.org/10.1016/S1387-2656(08)00010-0","url":null,"abstract":"<p><p>Conventional cell-based assays for seven-transmembrane receptors, also known as G protein-coupled receptors, rely on the coupling of the ligand-bound receptor to heterotrimeric G proteins. New assay methods have become available that are not based on G protein activation, but that apply the molecular mechanism underlying the attenuation of G protein signaling mediated by beta-arrestin. beta-arrestin is a cytoplasmic protein that targets receptors to clathrin-coated endocytotic vesicles for degradation or recycling. This process has been visualized and quantified in high-content imaging assays using receptor- or beta-arrestin-chimeras with green fluorescent protein. Other assay methods use bioluminescence resonance energy transfer, enzyme fragment complementation, or a protease-activated transcriptional reporter gene, to measure receptor-beta-arrestin proximity. beta-arrestin recruitment assays have been applied successfully for receptors coupling to Galpha(q), Galpha(s) and Galpha(i) proteins, thus providing a generic assay platform for drug discovery on G protein-coupled receptors. The best understood signal transduction pathway elicited by the seven-transmembrane Frizzled receptors does not involve G proteins. The activation of Frizzleds by their cognate ligands of the Wnt family recruits the phosphoprotein dishevelled. Dishevelled regulates a protein complex involved in the destruction of beta-catenin. Activation of Frizzled blocks degradation of beta-catenin, which translocates to the nucleus to activate transcription of Wnt-responsive genes. The cytoplasm-to-nuclear translocation of beta-catenin forms the basis of several high-content assays to measure Wnt/Frizzled signal transduction. Interestingly, Frizzled receptors have recently been shown to internalize and to recruit beta-arrestin. This suggests that beta-arrestin recruitment assays may be applied for drug discovery on seven-transmembrane receptors beyond G protein-coupled receptors.</p>","PeriodicalId":79566,"journal":{"name":"Biotechnology annual review","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2008-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/S1387-2656(08)00010-0","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"37434224","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Gene expression microarray data analysis demystified.","authors":"Peter C Roberts","doi":"10.1016/S1387-2656(08)00002-1","DOIUrl":"https://doi.org/10.1016/S1387-2656(08)00002-1","url":null,"abstract":"<p><p>The increasing use of gene expression microarrays, and depositing of the resulting data into public repositories, means that more investigators are interested in using the technology either directly or through meta analysis of the publicly available data. The tools available for data analysis have generally been developed for use by experts in the field, making them difficult to use by the general research community. For those interested in entering the field, especially those without a background in statistics, it is difficult to understand why experimental results can be so variable. The purpose of this review is to go through the workflow of a typical microarray experiment, to show that decisions made at each step, from choice of platform through statistical analysis methods to biological interpretation, are all sources of this variability.</p>","PeriodicalId":79566,"journal":{"name":"Biotechnology annual review","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2008-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/S1387-2656(08)00002-1","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"37433790","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The application of low shear modeled microgravity to 3-D cell biology and tissue engineering.","authors":"Stephen Navran","doi":"10.1016/S1387-2656(08)00011-2","DOIUrl":"https://doi.org/10.1016/S1387-2656(08)00011-2","url":null,"abstract":"<p><p>The practice of cell culture has been virtually unchanged for 100 years. Until recently, life scientists have had to content themselves with two-dimensional cell culture technology. Clearly, living creatures are not constructed in two dimensions and thus it has become widely recognized that in vitro culture systems must become three dimensional to correctly model in vivo biology. Attempts to modify conventional 2-D culture technology to accommodate 3-D cell growth such as embedding cells in extracellular matrix have demonstrated the superiority of concept. Nevertheless, there are serious drawbacks to this approach including limited mass transport and lack of scalability. Recently, a new cell culture technology developed at NASA to study the effects of microgravity on cells has emerged to solve many of the problems of 3-D cell culture. The technology, the Rotating Wall Vessel (RWV) is a single axis clinostat consisting of a fluid-filled, cylindrical, horizontally rotating culture vessel. Cells placed in this environment are suspended by the resolution of the gravitational, centrifugal and Coriolis forces with extremely low mechanical shear. These conditions, which have been called \"low shear modeled microgravity\", enable cells to assemble into tissue-like aggregates with high mass transport of nutrients, oxygen and wastes. Examples of the use of the RWV for basic cell biology research and tissue engineering applications are discussed.</p>","PeriodicalId":79566,"journal":{"name":"Biotechnology annual review","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2008-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/S1387-2656(08)00011-2","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"37434153","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"UCSC genome browser: deep support for molecular biomedical research.","authors":"Mary E Mangan,&nbsp;Jennifer M Williams,&nbsp;Scott M Lathe,&nbsp;Donna Karolchik,&nbsp;Warren C Lathe","doi":"10.1016/S1387-2656(08)00003-3","DOIUrl":"https://doi.org/10.1016/S1387-2656(08)00003-3","url":null,"abstract":"<p><p>The volume and complexity of genomic sequence data, and the additional experimental data required for annotation of the genomic context, pose a major challenge for display and access for biomedical researchers. Genome browsers organize this data and make it available in various ways to extract useful information to advance research projects. The UCSC Genome Browser is one of these resources. The official sequence data for a given species forms the framework to display many other types of data such as expression, variation, cross-species comparisons, and more. Visual representations of the data are available for exploration. Data can be queried with sequences. Complex database queries are also easily achieved with the Table Browser interface. Associated tools permit additional query types or access to additional data sources such as images of in situ localizations. Support for solving researcher's issues is provided with active discussion mailing lists and by providing updated training materials. The UCSC Genome Browser provides a source of deep support for a wide range of biomedical molecular research (http://genome.ucsc.edu).</p>","PeriodicalId":79566,"journal":{"name":"Biotechnology annual review","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2008-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/S1387-2656(08)00003-3","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"37434217","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Network models in drug discovery and regenerative medicine.","authors":"David A Winkler","doi":"10.1016/S1387-2656(08)00005-7","DOIUrl":"https://doi.org/10.1016/S1387-2656(08)00005-7","url":null,"abstract":"<p><p>Network motifs and modelling paradigms are attracting increasing attention as modelling tools in drug design and development, and in regenerative medicine. There is a gradual but inexorable convergence between these hitherto disparate disciplines. This review summarizes some very recent work in these areas, leading to an understanding of the complementary roles networks play and factors driving this convergence: network paradigms can be excellent ways of modelling and understanding drug molecules and their action, an understanding of the robustness and vulnerabilities of biological targets may improve the efficacy of drug design and discovery, drug design has an increasingly large role to play in directing stem cell properties, stem cell regulatory networks can be modelled in useful ways using network models at a reasonable level of scale, and the network tools of drug design are also very useful for the design of biomaterials used in regenerative medicine.</p>","PeriodicalId":79566,"journal":{"name":"Biotechnology annual review","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2008-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/S1387-2656(08)00005-7","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"37434219","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Ethnomedicines and ethnomedicinal phytophores against herpesviruses.","authors":"Debprasad Chattopadhyay,&nbsp;Mahmud Tareq Hassan Khan","doi":"10.1016/S1387-2656(08)00012-4","DOIUrl":"https://doi.org/10.1016/S1387-2656(08)00012-4","url":null,"abstract":"<p><p>Herpesviruses are important human pathogens that can cause mild to severe lifelong infections with high morbidity in susceptible adults. Moreover, Herpes simplex virus (HSV) type 2, for example, has been reported to be responsible for increased transmission and disease progression of human immunodeficiency virus (HIV). Therefore, the discovery of novel anti-HSV drugs deserves great efforts. Herbal medicinal products have been used as source of putative candidate drugs in many diseases. However, in case of viral diseases the development of antivirals from natural source is less explored probably because within the virus there are few specific targets where the small molecules can interact to inhibit or kill the virus. The currently available antiherpes drugs are nucleoside analogs that did not cure the lifelong or recurrent infections and the use of these drugs often lead to the development of viral resistance coupled with the problem of side effects, recurrence and viral latency. However a wide array of herbal products, used by diverse medicinal systems throughout the world, showed high level of antiherpesvirus activities and many of them have complementary and overlapping mechanism of action, either by inhibiting viral replication, or viral genome synthesis. This chapter will summarize some of the promising herbal extracts and purified compounds isolated from the herbal sources by several laboratories. Cases with proven in vitro and documented in vivo activities, along with their structure-activity relationship against herpesviruses are discussed.</p>","PeriodicalId":79566,"journal":{"name":"Biotechnology annual review","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2008-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/S1387-2656(08)00012-4","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"37434154","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"The current status and future potential of personalized diagnostics: Streamlining a customized process.","authors":"Terri D Richmond","doi":"10.1016/S1387-2656(08)00015-X","DOIUrl":"https://doi.org/10.1016/S1387-2656(08)00015-X","url":null,"abstract":"<p><p>Recent genetic discoveries and related developments in genomic techniques have led to the commercialization of novel diagnostic platforms for studying disease or gauging therapeutic outcomes in individual patients. This newly emerging field is called \"personalized medicine,\" and uses the patient's genetic composition to tailor strategies for patient-specific disease detection, treatment, or prevention. Personalized diagnostic tests are used to detect patient-to-patient variations in gene or protein expression levels, which act as indicators for drug treatments or disease prognosis. In turn, medical professionals can better answer questions such as: \"Who should be treated with which drug?\" and \"How should the treatment be administered?\" The regulations governing personalized medicine can be complicated because they encompass in vitro diagnostic systems and laboratory tests as well as methods of disease treatment and patient care. Industry, academia, medicine, and the Food and Drug Administration (FDA) are all involved in the cultivation of the field: substantial collaborations between drug developers and regulatory authorities are required to consider and shape emerging regulations as personalized drug strategies mature. Some of the regulatory issues identified by industry and the FDA about personalized medicine and personalized diagnostics will be addressed. In addition, relevant collaborations, advances, and current and draft regulatory guidances will be discussed with respect to the future of personalized medicine.</p>","PeriodicalId":79566,"journal":{"name":"Biotechnology annual review","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2008-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/S1387-2656(08)00015-X","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"37434157","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Free radical processes in green tea polyphenols (GTP) investigated by electron paramagnetic resonance (EPR) spectroscopy.","authors":"K F Pirker,&nbsp;J Ferreira Severino,&nbsp;T G Reichenauer,&nbsp;B A Goodman","doi":"10.1016/S1387-2656(08)00013-6","DOIUrl":"https://doi.org/10.1016/S1387-2656(08)00013-6","url":null,"abstract":"<p><p>This chapter reviews the current status of research on investigations of the free radical chemistry of green tea and its constituent polyphenols (GTP). It is based on the use of electron paramagnetic resonance (EPR) spectroscopy, and also includes a section on practical aspects of the technique, which should be of value to readers who are unfamiliar with the detailed operation of EPR. The free radical chemistry of GTP is important, because many of their antioxidant functions involve reactions with O(2)-derived free radicals, and the products of such reactions are themselves generally free radicals. The stability of these products and their abilities to participate in subsequent reactions may have considerable bearing on their biological function. These are also discussed briefly along with the authors' views of future investigations which would appear to be valuable for this topic.</p>","PeriodicalId":79566,"journal":{"name":"Biotechnology annual review","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2008-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/S1387-2656(08)00013-6","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"37434155","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Critical review and appraisal of published clinical literature: useful skill in biotechnology product development.","authors":"Maryann Foote","doi":"10.1016/S1387-2656(08)00014-8","DOIUrl":"https://doi.org/10.1016/S1387-2656(08)00014-8","url":null,"abstract":"<p><p>Critical review of published literature may be necessary during several stages of biotechnology product development. The reviewer should develop a standardized method for reviewing and comparing published papers on a given topic and should be aware of common errors found in published papers.</p>","PeriodicalId":79566,"journal":{"name":"Biotechnology annual review","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2008-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/S1387-2656(08)00014-8","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"37434156","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Identification and characterization of a novel cytotoxic protein, parasporin-4, produced by Bacillus thuringiensis A1470 strain.","authors":"Shiro Okumura,&nbsp;Hiroyuki Saitoh,&nbsp;Tomoyuki Ishikawa,&nbsp;Eiichi Mizuki,&nbsp;Kuniyo Inouye","doi":"10.1016/S1387-2656(08)00009-4","DOIUrl":"https://doi.org/10.1016/S1387-2656(08)00009-4","url":null,"abstract":"<p><p>In 1901, a unique bacterium was isolated as a pathogen of the sotto disease of the silkmoth larvae, and later in 1915, the organism was described as Bacillus thuringiensis. Since the discovery, this bacterium has widely attracted attention of not only insect pathologists but many other scientists who are interested in strong and specific insecticidal activity associated with inclusion bodies of B. thuringiensis. This has led to the recent worldwide development of B. thuringiensis-based microbial insecticides and insect-resistant transgenic plants, as well as the epoch-making discovery of parasporin, a cancer cell-specific cytotoxin. In the review, we introduce a detection study of interaction between inclusion proteins of B. thuringiensis and brush border membrane of insects using surface plasmon resonance-based biosensor, and then identification and cloning of parasporin-4, a latest cancer cell-killing protein produced by B. thuringiensis A1470 strain. Inclusion bodies of the parasporin-4 produced by recombinant Escherichia coli were solubilized and activated with a new method and purified by an anion-exchange chromatography. At last the characterization of the recombinant parasporin-4 was shown.</p>","PeriodicalId":79566,"journal":{"name":"Biotechnology annual review","volume":null,"pages":null},"PeriodicalIF":0.0,"publicationDate":"2008-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1016/S1387-2656(08)00009-4","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"37434223","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}