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{userid:"Patric.Jern", "refid":"63","repocollections":"","attachment":"","_thumb":"","articletype":"article","sectionheading":"","title":"ZBED Evolution : Repeated Utilization of DNA Transposons as Regulators of Diverse Host Functions","year":"2013","author":"A Hayward, A Ghazal, G Andersson, L Andersson, P Jern","journal":"PLoS One","volume":"8","number":"3","pages":"","month":"","doi":"","pubmed":"","pdflink":"","urllink":"http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/23533661","abstract":"ZBED genes originate from domesticated hAT DNA transposons and encode regulatory proteins of diverse function in vertebrates. Here we reveal the evolutionary relationship between ZBED genes and demonstrate that they are derived from at least two independent domestication events in jawed vertebrate ancestors. We show that ZBEDs form two monophyletic clades, one of which has expanded through several independent duplications in host lineages. Subsequent diversification of ZBED genes has facilitated regulation of multiple diverse fundamental functions. In contrast to known examples of transposable element exaptation, our results demonstrate a novel unprecedented capacity for the repeated utilization of a family of transposable element-derived protein domains sequestered as regulators during the evolution of diverse host gene functions in vertebrates. Specifically, ZBEDs have contributed to vertebrate regulatory innovation through the donation of modular DNA and protein interacting domains. We identify that C7ORF29, ZBED2, 3, 4, and ZBEDX form a monophyletic group together with ZBED6, that is distinct from ZBED1 genes. Furthermore, we show that ZBED5 is related to Buster DNA transposons and is phylogenetically separate from other ZBEDs. Our results offer new insights into the evolution of regulatory pathways, and suggest that DNA transposons have contributed to regulatory complexity during genome evolution in vertebrates.","note":"Hayward, Alexander xD;Ghazal, Awaisa xD;Andersson, Goran xD;Andersson, Leif xD;Jern, Patric xD;eng xD;2013\/03\/28 06:00 xD;PLoS One. 2013;8(3):e59940. doi: 10.1371\/journal.pone.0059940. Epub 2013 Mar 22.","tags":"","publisher":"","booktitle":"","editor":"","address":"","school":"","issn":"","isi":"","key":"Hayward2013","howpublished":"http:\/\/www.ncbi.nlm.nih.gov\/pubmed\/23533661"}
,

{userid:"mathias", "articletype":"article","pages":"","author":"A Ahmadian, A Russom, H Andersson, M Uhl\u00e9n, G Stemme, P Nilsson","year":"2002","title":"SNP analysis by allele-specific extension in a micromachined filter chamber.","month":"Apr","journal":"Biotechniques","publisher":"","volume":"32","number":"4","note":"","tags":"Alleles,Codon,Filtration,Genes, p53,Polymorphism, Single Nucleotide","booktitle":"","editor":"","abstract":"","address":"","school":"","issn":"0736-6205","doi":"","isi":"","pubmed":"11962595","key":"Ahmadian2002","howpublished":"","urllink":"","refid":53}
,

{userid:"nipe", "refid":"56","attachment":"","articletype":"article","sectionheading":"","title":"SNP analysis by allele-specific extension in a micromachined filter chamber.","year":"2002","author":"A Ahmadian, A Russom, H Andersson, M Uhl\u00e9n, G Stemme, P Nilsson","journal":"Biotechniques","volume":"32","number":"4","pages":"","month":"Apr","doi":"","pubmed":"11962595","pdflink":"","urllink":"","abstract":"","note":"","tags":"Alleles,Codon,Filtration,Genes, p53,Polymorphism, Single Nucleotide"}
,

{userid:"gb", "refid":"60","repocollections":"","attachment":"","_thumb":"","articletype":"inproceedings","sectionheading":"","title":"Is the Snow Leopard Endangered? A Study of Popular Viability and Distribution using Vulnerability and GIS Analysis Methods ","year":"2004","author":"J-O ANDERSSON, S. HASSELLIND, P. WIDEN, G. BAX \t","booktitle":"Proceedings of the 7th International Symposium on High Mountain Remote Sensing Cartography","editor":"Manfred F. BUCHROITHNER","pages":"11-26","organization":"Institute for Cartography, Dresden University of Technology, Germany","address":"","publisher":"","doi":"","pubmed":"","pdflink":"www.rockspace.se\/publ\/snowleoHMRSC7.pdf","urllink":"","abstract":"","note":"","tags":"","weight":60}
,

{userid:"lofblom", "articletype":"article","pages":"","author":"Filippa Fleetwood, Ken G Andersson, Stefan St\u00e5hl, John L\u00f6fblom","year":"2014","title":"An engineered autotransporter-based surface expression vector enables efficient display of Affibody molecules on OmpT-negative E. coli as well as protease-mediated secretion in OmpT-positive strains.","month":"Dec","journal":"Microbial cell factories","publisher":"","volume":"13","number":"1","note":"","tags":"","booktitle":"","editor":"","abstract":"BackgroundCell display technologies (e.g. bacterial display) are attractive in directed evolution as they provide the option to use flow-cytometric cell sorting for selection from combinatorial libraries. The aim of this study was to engineer and investigate an expression vector system with dual functionalities: i) recombinant display of Affibody libraries on Escherichia coli for directed evolution and ii) small scale secreted production of candidate affinity proteins, allowing initial downstream characterizations prior to subcloning. Autotransporters form a class of surface proteins in Gram-negative bacteria that have potential for efficient translocation and tethering of recombinant passenger proteins to the outer membrane. We engineered a bacterial display vector based on the E. coli AIDA-I autotransporter for anchoring to the bacterial surface. Potential advantages of employing autotransporters combined with E. coli as host include: high surface expression level, high transformation frequency, alternative promoter systems available, efficient translocation to the outer membrane and tolerance for large multi-domain passenger proteins.ResultsThe new vector was designed to comprise an expression cassette encoding for an Affibody molecule, three albumin binding domains for monitoring of surface expression levels, an Outer membrane Protease T (OmpT) recognition site for potential protease-mediated secretion of displayed affinity proteins and a histidine-tag for purification. A panel of vectors with different promoters were generated and evaluated, and suitable cultivation conditions were investigated. The results demonstrated a high surface expression level of the different evaluated Affibody molecules, high correlation between target binding and surface expression level, high signal-to-background ratio, efficient secretion and purification of binders in OmpT-positive hosts as well as tight regulation of surface expression for the titratable promoters. Importantly, a mock selection using FACS from a 1:100,000 background yielded around 20,000-fold enrichment in a single round and high viability of the isolated bacteria after sorting.ConclusionsThe new expression vectors are promising for combinatorial engineering of Affibody molecules and the strategy for small-scale production of soluble recombinant proteins has the potential to increase throughput of the entire discovery process.","address":"","school":"","issn":"1475-2859","doi":"10.1186\/PREACCEPT-1166681789143924","isi":"","pubmed":"25547008","key":"Fleetwood2014","howpublished":"","urllink":"","refid":26,"weight":26}
,

{userid:"mathias", "articletype":"article","pages":"24701-24707","author":"M Jansson, G Andersson, M Uhl\u00e9n, B Nilsson, J K\u00f6rdel","year":"1998","title":"The insulin-like growth factor (IGF)binding protein 1 binding epitope on IGF-I probed by heteronuclear NMR spectroscopy and mutational analysis.","month":"Sep","journal":"J Biol Chem","publisher":"","volume":"273","number":"38","note":"","tags":"Amino Acid Sequence,Binding Sites,Biosensing Techniques,Cloning, Molecular,DNA Mutational Analysis,DNA Primers,Epitopes,Escherichia coli,Humans,Insulin-Like Growth Factor Binding Protein 1,Insulin-Like Growth Factor I,Kinetics,Models, Molecular,Mutagenesis, Site-Directed,Nuclear Magnetic Resonance, Biomolecular,Point Mutation,Polymerase Chain Reaction,Protein Conformation,Protein Structure, Secondary,Recombinant Proteins,Variation (Genetics),Genetic Variation","booktitle":"","editor":"","abstract":"NMR spectroscopy studies and biosensor interaction analysis of native and site-directed mutants of insulin-like growth factor I (IGF-I) was applied to identify the involvement of individual residues in IGF-I binding to IGF-binding protein 1 (IGFBP-1). Backbone NMR chemical shifts were found to be affected by IGFBP-1 binding in the following residues: Pro2, Glu3, Cys6, Gly7, Gly19, Pro28-Gly30, Gly32, Arg36, Arg37, Gln40-Gly42, Pro63, Lys65, Pro66, and Lys68-Ala70. Three IGF-I arginine side chains were identified by NMR to participate in IGFBP-1 binding. All IGF-I arginine residues were replaced by alanines, using site-directed mutagenesis, in four single substituted variants, IGF-I(R21A), IGF-I(R50A), IGF-I(R55A), and IGF-I(R56A), and one double replacement mutant, IGF-I(R36A\/R37A). Biosensor interaction analysis binding studies demonstrate the involvement of Arg36-Arg37 and Arg50 in IGFBP-1 binding, while experiments with the IGF-I receptor implicate Arg21, Arg36-Arg37, and Arg56 as part of the receptor binding epitope. These overlapping binding surfaces explain why IGF-I receptor and IGFBP-1 binding to IGF-I is competitive. The C terminus of free, but not IGFBP-1-bound, IGF-I is found to exist in two distinct, NMR-detectable conformations at 30 degreesC. One possible explanation for this structural heterogeneity could be cis-trans isomerization of the Cys6-Cys48 disulfide bond.","address":"","school":"","issn":"0021-9258","doi":"","isi":"","pubmed":"9733769","key":"Jansson1998","howpublished":"","urllink":"","refid":97}
,

{userid:"wolfgang.lohmann", "refid":"7","repocollections":"","attachment":"","_thumb":"","articletype":"book","sectionheading":"","title":"ICT for Sustainability : Proceedings of the First International Conference on Information and Communication Technologies for Sustainability","year":"2013","author":"L M Hilty, B Aebischer, G Andersson, W Lohmann","editor":"","address":"","publisher":"E-Collection ETH Institutional Repository, ISBN: 978-3-906031-24-8","volume":"","series":"","edition":"","isbn":"","doi":"10.3929\/ethz-a-007337628","pubmed":"","pdflink":"","urllink":"","abstract":"Our world is getting smarter: smart homes, smart cities, smart grids, smart vehicles and logistics, cloud computing, crowdsourcing. Many smart solutions are today designed in a \u201cGreen IT\u201d context and proposed with the intention to contribute to environmental or social sustainability. Such claims include, for example, reducing greenhouse gas emissions, saving energy, finding the most sustainable alternative in a decision situation, optimising a process with regard to sustainability criteria, or enabling participation and reducing poverty. However, it is difficult to determine whether the potential net benefit of the smart solution will materialize under real-world conditions, in particular when considering the dynamics of markets, possible rebound effects and other systemic effects. \"Smarter\" does not necessarily imply \"more sustainable\". The First International Conference of Information and Communication Technologies for Sustainability (ICT4S), held in Zurich on February 14-16, 2013, gathered more than 200 researchers and decision makers from 50 countries to exchange their insights about an effective contribution of ICT to sustainable development. The papers presented at the conference are contained in this volume. These contributions show the multi-facetted relationship between Information and Communication Technologies (ICTs) and issues of sustainability. First, although creating vir\u00act\u00acual worlds, these technologies are physically dependent on the supply of ener\u00acgy and scarce materials. How can we reduce the ecological footprint of ICT? (Sustainability in ICT) Second, ICTs are enabling technologies with the potential to increase the energy and material efficiency of production and consumption patterns and processes. Essentially depending on the socio-economic framework, they can support the decoupling of value crea\u00action from resource use instead of accelerating resource-intensive processes (Sustainability by ICT). Third, the computational models we can design and imple\u00acment with the aid of ICT contribute to our understanding of complex systems. These models and the applications based on them support the creation and ass\u00acess\u00acment of potential solutions to ur\u00acgent problems, among them climate change (Sustainability Research by ICT). The following cross-cutting issues have been repeatedly addressed in the contributions to the ICT4S 2013 conference, thus defining the outline of a research agenda in the emerging field of ICT for Sustainability: 1. The power of software: How can we use the power of software to reduce hardware energy consumption? 2. Scarce materials used in ICT hardware: How can we reduce hardware obsolescence and close material cycles? 3. Smart energy use in buildings: How can we manage the energy used in buildings smarter and thereby reduce this largest fraction of our total energy consumption? 4. Sustainable behaviours and lifestyles: How can ICT be used to support users in making choices that contribute to sustainable development? The presentations and discussions of the conference are also available as podcasts and visual protocols via the website http:\/\/2013.ict4s.org.","note":"","tags":"EMPA,ICT,LCAE,EW,SEL,GIT","pages":"","month":"","journal":"","number":"","booktitle":"","school":"","issn":"","isi":"","key":"ref191","howpublished":""}
,

{userid:"lorenz.hilty", "refid":"191","repocollections":"","attachment":"","_thumb":"","articletype":"book","sectionheading":"","title":"ICT for Sustainability: Proceedings of the First International Conference on Information and Communication Technologies for Sustainability","year":"2013","author":"LM Hilty, B Aebischer, G Andersson, W Lohmann","editor":"","address":"","publisher":"E-Collection ETH Institutional Repository, ISBN: 978-3-906031-24-8","volume":"","series":"","edition":"","isbn":"","doi":"10.3929\/ethz-a-007337628","pubmed":"","pdflink":"http:\/\/e-collection.library.ethz.ch\/view\/eth:6558","urllink":"http:\/\/www.ict4s.org","abstract":"Our world is getting smarter: smart homes, smart cities, smart grids, smart vehicles and logistics, cloud computing, crowdsourcing. Many smart solutions are today designed in a \u201cGreen IT\u201d context and proposed with the intention to contribute to environmental or social sustainability. Such claims include, for example, reducing greenhouse gas emissions, saving energy, finding the most sustainable alternative in a decision situation, optimising a process with regard to sustainability criteria, or enabling participation and reducing poverty. However, it is difficult to determine whether the potential net benefit of the smart solution will materialize under real-world conditions, in particular when considering the dynamics of markets, possible rebound effects and other systemic effects. \"Smarter\" does not necessarily imply \"more sustainable\".\r\nThe First International Conference of Information and Communication Technologies for Sustainability (ICT4S), held in Zurich on February 14-16, 2013, gathered more than 200 researchers and decision makers from 50 countries to exchange their insights about an effective contribution of ICT to sustainable development.\r\nThe papers presented at the conference are contained in this volume. These contributions show the multi-facetted relationship between Information and Communication Technologies (ICTs) and issues of sustainability.\r\nFirst, although creating vir\u00act\u00acual worlds, these technologies are physically dependent on the supply of ener\u00acgy and scarce materials. How can we reduce the ecological footprint of ICT? (Sustainability in ICT) Second, ICTs are enabling technologies with the potential to increase the energy and material efficiency of production and consumption patterns and processes. Essentially depending on the socio-economic framework, they can support the decoupling of value crea\u00action from resource use instead of accelerating resource-intensive processes (Sustainability by ICT). Third, the computational models we can design and imple\u00acment with the aid of ICT contribute to our understanding of complex systems. These models and the applications based on them support the creation and ass\u00acess\u00acment of potential solutions to ur\u00acgent problems, among them climate change (Sustainability Research by ICT).\r\nThe following cross-cutting issues have been repeatedly addressed in the contributions to the ICT4S 2013 conference, thus defining the outline of a research agenda in the emerging field of ICT for Sustainability:\r\n1.\tThe power of software: How can we use the power of software to reduce hardware energy consumption?\r\n2.\tScarce materials used in ICT hardware: How can we reduce hardware obsolescence and close material cycles?\r\n3.\tSmart energy use in buildings: How can we manage the energy used in buildings smarter and thereby reduce this largest fraction of our total energy consumption?\r\n4.\tSustainable behaviours and lifestyles: How can ICT be used to support users in making choices that contribute to sustainable development?\r\nThe presentations and discussions of the conference are also available as podcasts and visual protocols via the website http:\/\/www.ict4s.org.\r\n","note":"","tags":"EMPA,ISR,ICT,LCAE,EW,SEL,GIT","weight":"191"}
,

{userid:"j-marie.nedelec", "articletype":"article","pages":"9850-9860","author":"Robert Pazik, Rolf Andersson, Leszek Kepinski, Jean-Marie Nedelec, Vadim G Kessler, Gulaim A Seisenbaeva","year":"2011","title":"Surface Functionalization of the Metal Oxide Nanoparticles with Biologically Active Molecules Containing Phosphonate Moieties. Case Study of BaTiO3","month":"MAY 26 2011","journal":"JOURNAL OF PHYSICAL CHEMISTRY C","publisher":"","volume":"115","number":"20","note":"Times Cited: 3","tags":"","booktitle":"","editor":"","abstract":"","address":"","school":"","issn":"1932-7447","doi":"10.1021\/jp2000656","isi":"WOS:000290652200004","pubmed":"","key":"Pazik2011","howpublished":"","urllink":"","refid":47}
,

{userid:"ranstam", "articletype":"article","pages":"541-547","author":"H Ekberg, K G Tranberg, R Andersson, C Lundstedt, I H\u00e4gerstrand, J Ranstam, S Bengmark","year":"1987","title":"Pattern of recurrence in liver resection for colorectal secondaries.","month":"Aug","journal":"World J Surg","publisher":"","volume":"11","number":"4","note":"","tags":"Adult,Aged,Colonic Neoplasms,Female,Hepatectomy,Humans,Liver,Liver Neoplasms,Male,Middle Aged,Neoplasm Recurrence, Local,Rectal Neoplasms","booktitle":"","editor":"","abstract":"","address":"","school":"","issn":"0364-2313","doi":"","pubmed":"3630198","key":"Ekberg1987","howpublished":"","urllink":"","refid":133}
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