Division of Epidemiology and Microbial Genomics

  1. 2015
  2. Published

    Antibiotika til mink fra 2007-2012. / Jensen, Vibeke Frøkjær; Sommer, Helle Mølgaard; Stuve, Tina; Clausen, Jesper ; Chriél, Mariann.

    In: Dansk Pelsdyravl, No. 2, 2015, p. 34-37.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  3. Published
  4. Published

    Draft Genome Sequences of Sanguibacteroides justesenii, gen. nov., sp. nov., Strains OUH 308042T (= ATCC BAA-2681T) and OUH 334697 (= ATCC BAA-2682), Isolated from Blood Cultures from Two Different Patients. / Sydenham, Thomas Vognbjerg; Hasman, Henrik; Justesen, Ulrik Stenz.

    In: Genome Announcements, Vol. 3, No. 2, 2015, p. e00005-15 .

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  5. Published

    EFFORT: Ecology from farm to fork of microbial drug resistance and transmission. / Ribeiro Duarte, Ana Sofia (Author).

    2015. 5th Nordic One Health Conference, Friibergh, Sweden, 19/03/14.

    Publication: ResearchSound/Visual production (digital) – Annual report year: 2015

  6. Published

    Fitting a distribution to microbial counts: Making sense of zeroes. / Ribeiro Duarte, Ana Sofia; Stockmarr, Anders; Nauta, Maarten.

    In: International Journal of Food Microbiology, Vol. 196, 2015, p. 40-50.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  7. Published

    Genomic Dissection of Travel-Associated Extended-Spectrum-Beta-Lactamase-Producing Salmonella enterica Serovar Typhi Isolates Originating from the Philippines: a One-Off Occurrence or a Threat to Effective Treatment of Typhoid Fever?. / Hendriksen, Rene S.; Leekitcharoenphon, Pimlapas; Mikoleit, Matthew; Jensen, Jacob Dyring; Kaas, Rolf Sommer; Roer, Louise; Joshi, Heena B.; Pornruangmong, Srirat; Pulsrikarn, Chaiwat; Gonzalez-Aviles, Gladys D.; Reuland, E. Ascelijn; Al Naiemi, Nashwan; Wester, Astrid Louise; Aarestrup, Frank Møller; Hasman, Henrik.

    In: Journal of Clinical Microbiology, Vol. 53, No. 2, 2015, p. 677-680.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  8. Published

    Genomic Signature of Multidrug-Resistant Salmonella enterica Serovar Typhi Isolates Related to a Massive Outbreak in Zambia between 2010 and 2012.. / Hendriksen, Rene S.; Leekitcharoenphon, Pimlapas; Lukjancenko, Oksana; Lukwesa-Musyani, Chileshe; Tambatamba, Bushimbwa; Mwaba, John; Kalonda, Annie; Nakazwe, Ruth; Kwenda, Geoffrey; Jensen, Jacob Dyring; Svendsen, Christina Aaby; Dittmann, Karen K.; Kaas, Rolf Sommer; Cavaco, Lina; Aarestrup, Frank Møller; Hasman, Henrik; Mwansa, James C. L.

    In: Journal of Clinical Microbiology, Vol. 53, No. 1, 2015, p. 262-272.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  9. Published

    Impact of microbial count distributions on human health risk estimates. / Ribeiro Duarte, Ana Sofia; Nauta, Maarten.

    In: International Journal of Food Microbiology, Vol. 195, 2015, p. 48-57.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  10. Published
  11. Published

    Overvågning og kontrol af Salmonella i svinebesætninger og svinekødsproduktion : Status 2012 og 2013. Rapport nr. 15. / Teknikergruppen for Salmonellahandlingsplan IV i svin.

    DTU Fødevareinstituttet, Fødevarestyrelsen, Landbrug og Fødevarer, Teknologisk Institut, Danske Slagtermestres Landsforening og Eurofins| Steins Laboratorium, 2015. 39 p.

    Publication: Commissioned - peer-reviewReport – Annual report year: 2015

  12. Published

    Proficiency testing for bacterial whole genome sequencing: an end-user survey of current capabilities, requirements and priorities. / Moran-Gilad, Jacob; Sintchenko, Vitali; Karlsmose Pedersen, Susanne; Wolfgang, William J.; Pettengill, James; Strain, Errol; Hendriksen, Rene S.

    In: B M C Infectious Diseases, Vol. 15, 174, 2015.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  13. Published
  14. Published

    Ringtest for identifikation og resistensbestemmelse af mastitispatogener 2014. / Cavaco, Lina; Lorenzen, Bjørn; Jensen, Jacob Dyring; Nielsen, Hanne Nørgaard; Butters, Jytte; Dahl Larsen, Heidi Kristina; Aarestrup, Frank Møller; Hendriksen, Rene S.

    Kgs. Lyngby : DTU Fødevareinstituttet, 2015. 14 p.

    Publication: ResearchReport – Annual report year: 2015

  15. Published
  16. Published

    Risk-based microbiological criteria for Campylobacter in broiler meat: A comparison of two approaches. / Nauta, Maarten; Andersen, Jens Kirk; Tuominen, Pirkko; Ranta, Jukka; Lindqvist, Roland.

    In: Food Control, Vol. 53, 2015, p. 177-184.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  17. Published

    Risk ranking of pathogens in ready-to-eat unprocessed foods of non-animal origin (FoNAO) in the EU: Initial evaluation using outbreak data (2007-2011).. / Da Silva Felício, M. T.; Hald, Tine; Liebana, E.; Allende, A.; Hugas, M.; Nguyen-The, C.; Johannessen, G. Skoien; Niskanen, T.; Uyttendaele, M.; McLauchlin, J.

    In: International Journal of Food Microbiology, Vol. 195, 2015, p. 9-19.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  18. E-pub ahead of print

    Separate norovirus outbreaks linked to one source of imported frozen raspberries by molecular analysis, Denmark, 2010–2011. / Müller, L.; Schultz, Anna Charlotte; Fonager, J.; Jensen, T.; Lisby, M; Hindsdal, K.; Krusell, L.; Eshøj, A.; T. Møller, L.; Porsbo, Lone Jannok; E. Böttiger, B.; Kuhn, K. ; Engberg, J.; Ethelberg, S.

    In: Epidemiology and Infection, 2015.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  19. Published

    The 16th EURL-AR Proficiency Test - Enterococci, Staphylococci and E. coli 2014. / Cavaco, Lina; Karlsmose Pedersen, Susanne; Hendriksen, Rene S.; Aarestrup, Frank Møller.

    Lyngby : National Food Institute, Technical University of Denmark, 2015. 24 p.

    Publication: Research - peer-reviewReport – Annual report year: 2015

  20. Published

    The 17th EURL-AR Proficiency Test Salmonella, Campylobacter and genotypic characterisation 2014. / Karlsmose Pedersen, Susanne; Cavaco, Lina; Hendriksen, Rene S.; Aarestrup, Frank Møller.

    Lyngby : National Food Institute, Technical University of Denmark, 2015. 18 p.

    Publication: Research - peer-reviewReport – Annual report year: 2015

  21. Published
  22. Published

    The impact of screening-test negative samples not enumerated by MPN. / Corbellini, Luis Gustavo; Ribeiro Duarte, Ana Sofia; de Knegt, Leonardo; Silva, Luis Eduardo da; Cardoso, Marisa; Nauta, Maarten.

    In: International Journal of Food Microbiology, Vol. 205, 2015, p. 1-6.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  23. Published
  24. Published
  25. Published
  26. Published

    Typhoid fever. / Wain, John; Hendriksen, Rene S.; Mikoleit, Matthew L.; Keddy, Karen H.; Ochiai, R. Leon.

    In: Lancet, Vol. 385, No. 9973, 2015, p. 1136-1145.

    Publication: Research - peer-reviewJournal article – Annual report year: 2015

  27. Published
  28. 2014
  29. Published

    Activation and polar sequestration of PopA, a c-di-GMP effector protein involved in Caulobacter crescentus cell cycle control. / Ozaki, Shogo; Schalch-Moser, Annina; Zumthor, Ludwig; Manfredi, Pablo; Ebbensgaard, Anna Elisabeth; Schirmer, Tilman; Jenal, Urs.

    In: Molecular Microbiology, Vol. 94, No. 3, 2014, p. 580-594.

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

  30. Published
  31. Published

    Annual Report on Zoonoses in Denmark 2013. / Sørensen, Anna Irene Vedel (Editor); Helwigh, Birgitte (Editor); Müller, Luise.

    Søborg : DTU Food, 2014. 69 p. (Annual Report on Zoonoses in Denmark).

    Publication: ResearchReport – Annual report year: 2014

  32. Published

    Antibiotic resistance and resistance genes in Escherichia coli from poultry farms, southwest Nigeria. / Adelowo, Olawale O.; Fagade, Obasola E.; Agersø, Yvonne.

    In: Journal of Infection in Developing Countries, Vol. 8, No. 9, 2014, p. 1103-1112.

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

  33. Published

    Antimicrobial resistance of zoonotic and commensal bacteria in Europe: The missing link between consumption and resistance in veterinary medicine. / Garcia-Migura, Lourdes; Hendriksen, Rene S.; Fraile, Lorenzo; Aarestrup, Frank Møller.

    In: Veterinary Microbiology, Vol. 170, No. 1-2, 2014, p. 1-9.

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

  34. Published
  35. Published

    Burden of diseases estimates associated to different red meat cooking practices. / Berjia, Firew Lemma; Poulsen, Morten; Nauta, Maarten.

    In: Food and Chemical Toxicology, Vol. 66, 2014, p. 237-244.

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

  36. Published

    Characterization of Extended spectrum beta-lactamases (ESBL)-producing Escherichia coli obtained from Danish pigs, pig farmers and their families from farms with high or no consumption of 3rd or 4th generation cephalosporins. / Hammerum, Anette M.; Larsen, Jesper; Dalhoff Andersen, Vibe; Lester, Camilla H; Skytte, Timmy S. Skovgaard; Hansen, Frank ; Olsen, Stefan S.; Mordhorst, Hanne; Skov, Robert L.; Aarestrup, Frank Møller; Agersø, Yvonne.

    In: Journal of Antimicrobial Chemotherapy, 2014.

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

  37. Published

    Characterization of methicillin-resistant Staphylococcus aureus Sequence Type 398. / Christiansen, Mette Theilgaard; Aarestrup, Frank Møller (Main supervisor); Hasman, Henrik (Supervisor); Agersø, Yvonne (Supervisor).

    Søborg : National Food Institute, Technical University of Denmark, 2014. 204 p.

    Publication: ResearchPh.D. thesis – Annual report year: 2014

  38. Published
  39. Published

    DANMAP 2013 : Use of antimicrobial agents and occurrence of antimicrobial resistance in bacteria from food animals, food and humans in Denmark. / Agersø, Yvonne; Bager, Flemming; Boel, Jeppe; Helwigh, Birgitte; Borck Høg, Birgitte; Jensen, Lars Bogø; de Knegt, Leonardo; Korsgaard, Helle; Larsen, Lars Stehr; Sørensen, Anna Irene Vedel; Dalby, Tine; Hammerum, Anette M.; Hoffmann, Steen; Gaardbo Kuhn, Katrin; Rhod Larsen, Anders; Laursen, Maja; Nielsen, Eva Møller; Olsen, Stefan S.; Petersen, Andreas; Bagger-Skjøt, Line; Skov, Robert L.; Slotved, Hans-Christian; Torpdahl, Mia.

    Statens Serum Institut, 2014. 106 p.

    Publication: Commissioned - peer-reviewReport – Annual report year: 2014

  40. Published

    Detection and linkage to mobile genetic elements of tetracycline resistance gene tet(M) in Escherichia coli isolates from pigs. / Jurado-Rabadan, Sonia; de la Fuente, Ricardo; Ruiz-Santa-Quiteria, Jose A.; Orden, Jose A.; de Vries, Lisbeth Elvira; Agersø, Yvonne.

    In: B M C Veterinary Research, Vol. 10, No. 1, 2014.

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

  41. Published

    Diversity and antimicrobial susceptibility of Salmonella enterica serovars isolated from pig farms in Ibadan, Nigeria. / Fashae, Kayode; Hendriksen, Rene S.

    In: Folia Microbiologica, Vol. 59, No. 1, 2014, p. 69-77.

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

  42. Published

    Effect of subinhibitory concentrations of four commonly used biocides on the conjugative transfer of Tn916 in Bacillus subtilis. / Seier-Petersen, Maria Amalie; Jasni, A.; Aarestrup, Frank Møller; Vigre, Håkan; Mullany, P.; Roberts, A. P.; Agersø, Yvonne.

    In: Journal of Antimicrobial Chemotherapy, Vol. 69, No. 2, 2014, p. 343-348.

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

  43. Published

    EFSA BIOHAZ Panel (EFSA Panel on Biological Hazards), 2013. Scientific Opinion on Bioreduction application. / EFSA Publication.

    Parma, Italy : Europen Food Safety Authority, 2014. 13 p. (The EFSA Journal; No. 3503, Vol. 11(12)).

    Publication: Commissioned - peer-reviewReport – Annual report year: 2014

  44. Published

    EFSA BIOHAZ Panel (EFSA Panel on Biological Hazards), 2013. Scientific Opinion on Carbapenem resistance in food animal ecosystems. / EFSA Publication.

    Parma, Italy : Europen Food Safety Authority, 2014. 70 p. (The EFSA Journal; No. 3501, Vol. 11(12)).

    Publication: Commissioned - peer-reviewReport – Annual report year: 2014

  45. Published
  46. Published

    EFSA BIOHAZ Panel (EFSA Panel on Biological Hazards), 2014. Scientific Opinion on BSE risk in bovine intestines and mesentery. / EFSA Publication.

    Parma, Italy : Europen Food Safety Authority, 2014. 98 p. (The EFSA Journal; No. 3554, Vol. 12(2)).

    Publication: Commissioned - peer-reviewReport – Annual report year: 2014

  47. Published
  48. Published

    EFSA BIOHAZ Panel (EFSA Panel on Biological Hazards), 2014. Scientific Opinion on the evaluation of the safety and efficacy of peroxyacetic acid solutions for reduction of pathogens on poultry carcasses and meat. / EFSA Publication.

    Parma, Italy : Europen Food Safety Authority, 2014. 60 p. (The EFSA Journal; No. 3599, Vol. 12(3)).

    Publication: Commissioned - peer-reviewReport – Annual report year: 2014

  49. Published

    EFSA BIOHAZ Panel (EFSA Panel on Biological Hazards), 2014. Scientific Opinion on the public health risks of table eggs due to deterioration and development of pathogens. / EFSA Publication.

    Parma, Italy : Europen Food Safety Authority, 2014. 147 p. (The EFSA Journal; No. 3782, Vol. 12(7)).

    Publication: Commissioned - peer-reviewReport – Annual report year: 2014

  50. Published

    EFSA BIOHAZ Panel (EFSA Panel on Biological Hazards), 2014. Scientific Opinion on the public health risks related to the maintenance of the cold chain during storage and transport of meat. Part 1 (meat of domestic ungulates).. / EFSA Publication.

    Parma, Italy : Europen Food Safety Authority, 2014. 81 p. (The EFSA Journal; No. 3601, Vol. 12(3)).

    Publication: Commissioned - peer-reviewReport – Annual report year: 2014

  51. Published

    EFSA BIOHAZ Panel (EFSA Panel on Biological Hazards, 2014. Scientific Opinion on the public health risks related to the maintenance of the cold chain during storage and transport of meat. Part 2 (minced meat from all species). / EFSA Publication.

    Parma, Italy : Europen Food Safety Authority, 2014. 30 p. (The EFSA Journal; No. 3783, Vol. 12(7)).

    Publication: Commissioned - peer-reviewReport – Annual report year: 2014

  52. Published

    EFSA BIOHAZ Panel (EFSA Panel on Biological Hazards), 2014. Scientific Opinion on the risk posed by pathogens in food of non-animal origin. Part 2 (Salmonella and Norovirus in berries). / EFSA Publication.

    Parma, Italy : Europen Food Safety Authority, 2014. 95 p. (The EFSA Journal; No. 3706, Vol. 12(6)).

    Publication: Commissioned - peer-reviewReport – Annual report year: 2014

  53. Published

    EFSA BIOHAZ Panel (EFSA Panel on Biological Hazards), 2014. Scientific Opinion on the risk posed by pathogens in food of non-animal origin. Part 2 (Salmonella and Norovirus in leafy greens eaten raw as salads). / EFSA Publication.

    Parma, Italy : Europen Food Safety Authority, 2014. 118 p. (The EFSA Journal; No. 3600, Vol. 12(3)).

    Publication: Commissioned - peer-reviewReport – Annual report year: 2014

  54. Published

    EFSA BIOHAZ Panel (EFSA Panel on Biological Hazards), 2014. Scientific Opinion on the risk posed by pathogens in food of non-animal origin. Part 2 (Salmonella and Norovirus in tomatoes). / EFSA Publication.

    Parma, Italy : Europen Food Safety Authority, 2014. 75 p. (The EFSA Journal; No. 3832, Vol. 12(10)).

    Publication: Commissioned - peer-reviewReport – Annual report year: 2014

  55. Published

    EFSA BIOHAZ Panel (EFSA Panel on Biological Hazards), 2014. Scientific Opinion on the risk posed by pathogens in food of non-animal origin. Part 2 (Salmonella in melons). / EFSA Publication.

    Parma, Italy : Europen Food Safety Authority, 2014. 77 p. (The EFSA Journal; No. 3831, Vol. 12(10)).

    Publication: Commissioned - peer-reviewReport – Annual report year: 2014

  56. Published

    EFSA BIOHAZ Panel (EFSA Panel on Biological Hazards), 2014. Scientific Opinion on the risk posed by pathogens in food of non-animal origin. Part 2 (Salmonella Yersinia, Shigella and Norovirus in bulb and stem vegetables, and carrots). / EFSA Publication.

    Parma, Italy : Europen Food Safety Authority, 2014. 91 p. (The EFSA Journal; No. 3937, Vol. 12(12)).

    Publication: Commissioned - peer-reviewReport – Annual report year: 2014

  57. Published

    EFSA BIOHAZ Panel (EFSA Panel on Biological Hazards), 2014. Scientific Opinion on the scrapie situation in the EU after 10 years of monitoring and control in sheep and goats. / EFSA Publication.

    Parma, Italy : Europen Food Safety Authority, 2014. 155 p. (The EFSA Journal; No. 3781, Vol. 12(7)).

    Publication: Commissioned - peer-reviewReport – Annual report year: 2014

  58. Published

    EFSA BIOHAZ Panel (EFSA Panel on Biological Hazards), 2014. Statement on the update of the list of QPS-recommended biological agents intentionally added to food or feed as notified to EFSA 1: Suitability of taxonomic units notified to EFSA until October 2014. / EFSA Publication.

    Parma, Italy : Europen Food Safety Authority, 2014. 41 p. (The EFSA Journal; No. 3938, Vol. 12(12)).

    Publication: Commissioned - peer-reviewReport – Annual report year: 2014

  59. Published

    EIP-AGRI Focus Group - Reducing antibiotic use in pig farming : Final Report. / EU report.

    European Commission, 2014. 36 p.

    Publication: Commissioned - peer-reviewReport – Annual report year: 2014

  60. Published

    Emergence and clonal dissemination of Salmonella enterica serovar Enteritidis causing salmonellosis in Mauritius. / Issack, Mohammad I.; Hendriksen, Rene S.; Hyytiae-Trees, Eija; Svendsen, Christina Aaby; Mikoleit, Matthew.

    In: Journal of Infection in Developing Countries, Vol. 8, No. 4, 2014, p. 454-460.

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

  61. Published

    Evaluation of pre-PCR processing approaches for enumeration of Salmonella enterica in naturally contaminated animal feed. / Schelin, Jenny; Andersson, Gunnar; Vigre, Håkan; Norling, Börje; Häggblom, Per; Hoorfar, Jeffrey; Rådström, Peter; Löfström, Charlotta.

    In: Journal of Applied Microbiology, Vol. 116, No. 1, 2014, p. 167-178.

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

  62. Published

    Evaluation of whole genome sequencing for outbreak detection of Salmonella enterica. / Leekitcharoenphon, Pimlapas; Nielsen, Eva M.; Kaas, Rolf Sommer; Lund, Ole; Aarestrup, Frank Møller.

    In: P L o S One, Vol. 9, No. 2, e87991, 2014.

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

  63. Published
  64. 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

  65. 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

  66. 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

  67. 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

  68. 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

  69. Published
  70. 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

  71. 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 (Online), Vol. 5, No. 6, 2014.

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

  72. 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

  73. 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

  74. E-pub ahead of print
  75. Published

    Large-scale bioreactor production of the herbicide-degrading Aminobacter sp. strain MSH1. / Schultz-Jensen, Nadja; Knudsen, Berith Elkær; Frkova, Zuzana; Aamand, Jens; Johansen, Tina; Thykær, Jette; Sørensen, Sebastian R.

    In: Applied Microbiology and Biotechnology, Vol. 98, No. 5, 2014, p. 2335-2344.

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

  76. Published

    Microbiological Safety of Meat: Salmonella spp.. / Wingstrand, Anne; Aabo, Søren.

    Encyclopedia of Meat Sciences 2e. ed. / Carrick Devine; Michael Dikemann. Vol. 2 Elsevier Science, 2014. p. 367-375.

    Publication: Research - peer-reviewBook chapter – Annual report year: 2014

  77. Published

    Persistence of fluoroquinolone-resistant Salmonella enterica serovar Kentucky from poultry and poultry sources in Nigeria. / Raufu, Ibrahim A.; Fashae, Kayode; Ameh, James A.; Ambali, AbdulGaniyu; Ogunsola, Folashade T.; Coker, Akitoye O.; Hendriksen, Rene S.

    In: Journal of Infection in Developing Countries, Vol. 8, No. 3, 2014, p. 384-388.

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

  78. Published

    Phylogenetic Analysis of Staphylococcus aureus CC398 Reveals a Sub-Lineage Epidemiologically Associated with Infections in Horses. / Abdelbary, Mohamed M. H.; Wittenberg, Anne; Cuny, Christiane; Layer, Franziska; Kurt, Kevin; Wieler, Lothar H.; Walther, Birgit; Skov, Robert; Larsen, Jesper; Hasman, Henrik; Fitzgerald, J. Ross; Smith, Tara C.; Wagenaar, J. A.; Pantosti, Annalisa; Hallin, Marie; Struelens, Marc J.; Edwards, Giles; Boese, R.; Nuebel, Ulrich; Witte, Wolfgang.

    In: PLOS ONE, Vol. 9, No. 2, e88083, 2014.

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

  79. Published

    Projekt 15: Tilpasning af den offentlige kontrol - risikobaseret kødkontrol. / Bollerslev, Anne Mette; Hansen, Tina Beck; Hald, Tine; Nauta, Maarten; Aabo, Søren.

    Søborg : DTU Fødevareinstituttet, 2014. 33 p.

    Publication: CommissionedReport – Annual report year: 2014

  80. Published

    Projekt 5 - Udvikling af proceshygiejnekriterier. / Bollerslev, Anne Mette; Hansen, Tina Beck; Nauta, Maarten; Aabo, Søren.

    Søborg : DTU Fødevareinstituttet, 2014. 15 p.

    Publication: CommissionedReport – Annual report year: 2014

  81. Published
  82. Published
  83. Published
  84. Published

    Report of the 5th External Quality Assurance System on Identification and Typing of Methicillin resistant Staphylococcus aureus (MRSA), 2013. / Cavaco, Lina; Karlsmose, Susanne; Hendriksen, Rene S.; Aarestrup, Frank Møller.

    Kgs. Lyngby : National Food Institute, Technical University of Denmark, 2014. 29 p.

    Publication: Research - peer-reviewReport – Annual report year: 2014

  85. Published

    Solving the Problem of Comparing Whole Bacterial Genomes across Different Sequencing Platforms. / Kaas, Rolf Sommer; Leekitcharoenphon, Pimlapas; Aarestrup, Frank Møller; Lund, Ole.

    In: PLOS ONE, Vol. 9, No. 8, e104984, 2014.

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

  86. Published

    Source attribution of human campylobacteriosis in Denmark. / Boysen, Louise; Rosenquist, Hanne; Rosenquist, J. T.; Nielsen, E. M.; Sørensen, Gitte; Nordentoft, Steen; Hald, Tine.

    In: Epidemiology and Infection, Vol. 142, No. 8, 2014, p. 1599-1608.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  87. Published

    Source Attribution of Human Salmonellosis: An Overview of Methods and Estimates. / Pires, Sara Monteiro; Vieira, Antonio R.; Hald, Tine; Cole, Dana.

    In: Foodborne Pathogens and Disease, Vol. 11, No. 9, 2014, p. 667-676.

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

  88. Published

    Spatio-temporal analysis of Salmonella surveillance data in Thailand. / Coutinho Calado Domingues, Ana Rita; Vieira, Antonio; Hendriksen, Rene S.; Pulsrikarn, C.; Aarestrup, Frank Møller.

    In: Epidemiology and Infection, Vol. 142, No. 8, 2014, p. 1614-1624.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  89. Published
  90. Published
  91. Published

    The 14th EURL-AR Proficiency Test - enterococci, staphylococci and E. coli 2013. / Cavaco, Lina; Karlsmose, Susanne; Hendriksen, Rene S.; Aarestrup, Frank Møller.

    1 ed. Kgs. Lyngby : National Food Institute, Technical University of Denmark, 2014. 95 p.

    Publication: Research - peer-reviewReport – Annual report year: 2014

  92. Published

    The 15th EURL-AR Proficiency Test Salmonella, Campylobacter and genotypic characterisation 2013. / Karlsmose, Susanne; Cavaco, Lina; Hendriksen, Rene S.; Aarestrup, Frank Møller.

    1 ed. Kgs. Lyngby : National Food Institute, Technical University of Denmark, 2014. 69 p.

    Publication: Research - peer-reviewReport – Annual report year: 2014

  93. Published
  94. Published

    The External Quality Assurance System of the WHO Global Foodborne Infections Network: Year 2012. / Hendriksen, Rene S.; Karlsmose, Susanne; Jensen, Arne Bent; Aarestrup, Frank Møller.

    Lyngby : National Food Institute, Technical University of Denmark, 2014. 27 p.

    Publication: Research - peer-reviewReport – Annual report year: 2014

  95. Published

    The Role of the st313-td Gene in Virulence of Salmonella Typhimurium ST313. / Herrero-Fresno, Ana; Wallrodt, Inke; Leekitcharoenphon, Pimlapas; Olsen, John Elmerdahl; Aarestrup, Frank Møller; Hendriksen, Rene S.

    In: PLOS ONE, Vol. 9, No. 1, e84566, 2014.

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

  96. Published

    Trends and sources in human salmonellosis. / de Knegt, Leonardo; Hald, Tine.

    Annual Report on Zoonoses in Denmark 2013. Søborg : DTU Food, 2014. p. 6-11 (Annual Report on Zoonoses in Denmark).

    Publication: ResearchReport chapter – Annual report year: 2015

  97. Published

    TRiMiCri Tutorial - Tool for evaluation of Rissk based Microbiological Criteria : TRiMiCri. / Nauta, Maarten; Lund, Jan.

    Søborg : National Food Institute, Technical University of Denmark, 2014. 33 p.

    Publication: Research - peer-reviewReport – Annual report year: 2014

  98. 2013
  99. Published

    A brief multi-disciplinary review on antimicrobial resistance in medicine and its linkage to the global environmental microbiota.. / Cantas, L.; Shah, Syed Q A; Cavaco, Lina; Manaia, C. M.; Walsh, F.; Popowska, M.; Garelick, H.; Bürgmann, H.; Sørum, H.

    In: Frontiers in Microbiology, Vol. 4, 2013, p. 96.

    Publication: Research - peer-reviewJournal article – Annual report year: 2013

  100. Published

    Active Ulcerative Colitis is associated with low prevalence of Blastocystis and Dientamoeba fragilis infection. / Munk Petersen, Andreas; Rune Stensvold, Christen; Mirsepasi, Hengameh; Engberg, Jørgen; Friis-Møller, Alice; Porsbo, Lone Jannok; Hammerum, Anette M.; Nordgaard-Lassen, Inge; Vedel Nielsen, Henrik; Angeliki Krogfelt, Karen.

    In: Scandinavian Journal of Gastroenterology, Vol. 48, No. 5, 2013, p. 638-639.

    Publication: Research - peer-reviewLetter – Annual report year: 2013

  101. Published

    A Danish Salmonella Bareilly outbreak investigated by the use of whole genome sequencing. / Torpdahl, M.; Kiil, K.; Litrup, E.; Sørensen, Gitte; Aarestrup, Frank Møller.

    10th International Meeting on Microbial Epidemiological Markers (IMMEM-10) - Abstract Book. Paris, France, 2013. p. 215.

    Publication: Research - peer-reviewConference abstract in proceedings – Annual report year: 2013

  102. Published

    A long-lasting outbreak of Salmonella Typhimurium U323 associated with several pork products, Denmark, 2010. / Kuhn, K. G. ; Sørensen, Gitte; Torpdahl, M.; Jensen, T.; Gubbels, S.; Bjergager, G. O.; Wingstrand, Anne; Porsbo, Lone Jannok; Ethelberg, S.

    In: Epidemiology and Infection, Vol. 141, No. 2, 2013, p. 260-268.

    Publication: Research - peer-reviewJournal article – Annual report year: 2012

  103. Published
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