Division of Epidemiology and Microbial Genomics

  1. 2014
  2. Published

    Exploring the immediate and long-term impact on bacterial communities in soil amended with animal and urban organic waste fertilizers using pyrosequencing and screening for horizontal transfer of antibiotic resistance. / Riber, Leise; Poulsen, Pernille H. B.; Al-Soud, Waleed A.; Hansen, Lea B. Skov; Bergmark, Lasse; Brejnrod, Asker; Norman, Anders; Hansen, Lars Henrik; Magid, Jakob; Sørensen, Søren J.

    In: F E M S Microbiology Ecology, Vol. 90, No. 1, 2014, p. 206-224.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  3. Published

    Extended-Spectrum-Beta-Lactamases, AmpC Beta-Lactamases and Plasmid Mediated Quinolone Resistance in Klebsiella spp. from Companion Animals in Italy. / Donati, Valentina; Feltrin, Fabiola; Hendriksen, Rene S.; Svendsen, Christina Aaby; Cordaro, Gessica; Garcia-Fernandez, Aurora; Lorenzetti, Serena; Lorenzetti, Raniero; Battisti, Antonio; Franco, Alessia.

    In: PLOS ONE, Vol. 9, No. 3, e90564, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  4. Published

    Finding the Optimum Scenario in Risk-benefit Assessment: An Example on Vitamin D. / Berjia, Firew Lemma; Hoekstra, J.; Verhagen, H.; Poulsen, Morten; Andersen, Rikke; Nauta, Maarten.

    In: European journal of nutrition & food safety, Vol. 4, No. 4, 2014, p. 558-576.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  5. Published

    Genome Sequences of Three Highly Copper-Resistant Salmonella enterica subsp. I Serovar Typhimurium Strains Isolated from Pigs in Denmark.. / Qin, Yanan; Hasman, Henrik; Aarestrup, Frank Møller; Alwathnani, Hend A.; Rensing, Christopher.

    In: Genome Announcements, Vol. 2, No. 6, e01334-14 , 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  6. Published

    Genome Sequences of Two Copper-Resistant Escherichia coli Strains Isolated from Copper-Fed Pigs.. / Lüthje, Freja L.; Hasman, Henrik; Aarestrup, Frank Møller; Alwathnani, Hend A.; Rensing, Christopher.

    In: Genome Announcements, Vol. 2, No. 6, e01341-14 , 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  7. Published
  8. Published

    Genomic Epidemiology of Salmonella enterica Serotype Enteritidis based on Population Structure of Prevalent Lineages. / Deng, Xiangyu; Desai, Prerak T.; den Bakker, Henk C.; Mikoleit, Matthew; Tolar, Beth; Trees, Eija; Hendriksen, Rene S.; Frye, Jonathan G.; Porwollik, Steffen; Weimer, Bart C.; Wiedmann, Martin; Weinstock, George M.; Fields, Patricia I.; McClelland, Michael.

    In: EMERGING INFECTIOUS DISEASES, Vol. 20, No. 9, 2014, p. 1481-1489.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  9. Published

    Genomic epidemiology of the haitian cholera outbreak: a single introduction followed by rapid, extensive, and continued spread characterized the onset of the epidemic.. / Eppinger, Mark; Pearson, Talima; Koenig, Sara S. K.; Pearson, Ofori; Hicks, Nathan; Agrawal, Sonia; Sanjar, Fatemeh; Galens, Kevin; Daugherty, Sean; Crabtree, Jonathan; Hendriksen, Rene S.; Price, Lance B.; Upadhyay, Bishnu P.; Shakya, Geeta; Fraser, Claire M.; Ravel, Jacques; Keim, Paul S.

    In: mBio (Print), Vol. 5, No. 6, 2014.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  10. Published

    Identification and assembly of genomes and genetic elements in complex metagenomic samples without using reference genomes. / Nielsen, Henrik Bjørn; Almeida, Mathieu; Juncker, Agnieszka; Rasmussen, Simon; Li, Junhua; Sunagawa, Shinichi; Plichta, Damian Rafal; Gautier, Laurent; Pedersen, Anders Gorm; Emmanuelle, Le Chatelier; Pelletier, Eric; Bonde, Ida; Nielsen, Trine; Manichanh, Chaysavanh; Arumugam, Manimozhiyan; Batto, Jean-Michel; dos Santos, Marcelo Bertalan Quintanilha; Blom, Nikolaj; Borruel, Natalia; Burgdorf, Kristoffer S.; Boumezbeur, Fouad; Casellas, Francesc; Doré, Joël; Dworzynski, Piotr; Guarner, Francisco; Hansen, Torben; Hildebrand, Falk; Kaas, Rolf Sommer; Kennedy, Sean; Kristiansen, Karsten; Kultima, Jens Roat; Léonard, Pierre; Levenez, Florence; Lund, Ole; Moumen, Bouziane; Denis, Le Paslier; Pons, Nicolas; Pedersen, Oluf; Prifti, Edi; Qin, Junjie; Raes, Jeroen; Sørensen, Søren; Tap, Julien; Tims, Sebastian; Ussery, David; Yamada, Takuji; Renault, Pierre; Sicheritz-Pontén, Thomas; Bork, Peer; Wang, Jun; Brunak, Søren; Ehrlich, S. Dusko.

    In: Nature Biotechnology, Vol. 32, No. 8, 2014, p. 822-828.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

  11. Published

    In Silico Detection and Typing of Plasmids using PlasmidFinder and Plasmid Multilocus Sequence Typing. / Carattoli, Alessandra; Zankari, Ea; García-Fernández, Aurora; Larsen, Mette Voldby; Lund, Ole; Villa, Laura; Aarestrup, Frank Møller; Hasman, Henrik.

    In: Antimicrobial Agents and Chemotherapy, Vol. 58, No. 7, 2014, p. 3895-3903.

    Publication: Research - peer-reviewJournal article – Annual report year: 2014

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