Rolf Sommer Kaas

Rolf Sommer Kaas

Seniorforsker

DTU FØDEVAREINSTITUTTET
DTU Fødevareinstituttet

Forskningsgruppen for Genetisk Epidemiologi

Danmarks Tekniske Universitet

Kemitorvet

Bygning 204, rum 103

2800 Kgs. Lyngby

Hjemmeside

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Publikationer
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2019
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Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage

Hendriksen, Rene S. ; Munk, Patrick ; Njage, Patrick Murigu Kamau ; van Bunnik, Bram ; McNally, Luke ; Lukjancenko, Oksana ; Röder, Timo ; Nieuwenhuijse, David ; Karlsmose Pedersen, Susanne ; Kjeldgaard, Jette Sejer ; Kaas, Rolf Sommer ; Clausen, Philip Thomas Lanken Conradsen ; Vogt, Josef Korbinian ; Leekitcharoenphon, Pimlapas ; van de Schans, Milou G M ; Zuidema, Tina ; de Roda Husman, Ana Maria ; Rasmussen, Simon ; Petersen, Bent ; Global, Sewage Surveillance project consortium ; Amid, Clara ; Cochrane, Guy ; Sicheritz-Pontén, Thomas ; Schmitt, Heike ; Alvarez, Jorge Raul Matheu ; Aidara-Kane, Awa ; Pamp, Sünje Johanna ; Lund, Ole ; Hald, Tine ; Woolhouse, Mark ; Koopmans, Marion P ; Vigre, Håkan ; Petersen, Thomas Nordahl ; Aarestrup, Frank Møller
in: Nature Communications, vol: 10

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2019     |    DOI: https://doi.org/10.1038/s41467-019-08853-3

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The COMPARE Data Hubs

Amid, Clara ; Pakseresht, Nima ; Silvester, Nicole ; Jayathilaka, Suran ; Lund, Ole ; Dynovski, Lukasz D. ; Pataki, Bálint ; Visontai, Dávid ; Xavier, Basil Britto ; Alako, Blaise T.F. ; Belka, Ariane ; Cisneros, Jose L.B. ; Cotten, Matthew ; Haringhuizen, George B. ; Harrison, Peter W. ; Höper, Dirk ; Holt, Sam ; Hundahl, Camilla ; Hussein, Abdulrahman ; Kaas, Rolf Sommer ; Liu, Xin ; Leinonen, Rasko ; Malhotra-Kumar, Surbhi ; Nieuwenhuijse, David F. ; Rahman, Nadim ; Dos S Ribeiro, Carolina ; Skiby, Jeffrey Edward ; Schmitz, Dennis ; Stéger, József ; Szalai-Gindl, János M. ; Thomsen, Martin Christen Frølund ; Cacciò, Simone M. ; Csabai, István ; Kroneman, Annelies ; Koopmans, Marion ; Aarestrup, Frank Møller ; Cochrane, Guy
in: Database : the journal of biological databases and curation, vol: 2019, pages: 1-14

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2019     |    DOI: https://doi.org/10.1093/database/baz136

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Worldwide human mitochondrial haplogroup distribution from urban sewage

Pipek, Orsolya Anna ; Medgyes-Horváth, Anna ; Dobos, László ; Stéger, József ; Szalai-Gindl, János ; Visontai, Dávid ; Kaas, Rolf Sommer ; Koopmans, Marion ; Hendriksen, Rene S. ; Møller Aarestrup, Frank ; Csabai, István
in: Scientific Reports, vol: 9, issue: 1

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2019     |    DOI: https://doi.org/10.1038/s41598-019-48093-5

2017
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An Assessment of Different Genomic Approaches for Inferring Phylogeny of Listeria monocytogenes

Henri, Clementine ; Leekitcharoenphon, Pimlapas ; Carleton, Heather A. ; Radomski, Nicolas ; Kaas, Rolf Sommer ; Mariet, Jean-Francois ; Felten, Arnaud ; Aarestrup, Frank Møller ; Smidt, Peter Gerner ; Roussel, Sophie ; Guillier, Laurent ; Mistou, Michel-Yves ; Hendriksen, Rene S.
in: Frontiers in Microbiology, vol: 8

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2017     |    DOI: https://doi.org/10.3389/fmicb.2017.02351

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Characterization and genetic variation of vibrio cholerae isolated from clinical and environmental sources in Thailand

Siriphap, Achiraya ; Leekitcharoenphon, Pimlapas ; Kaas, Rolf Sommer ; Theethakaew, Chonchanok ; Aarestrup, Frank Møller ; Sutheinkul, Orasa ; Hendriksen, Rene S.
in: P L o S One, vol: 12, issue: 1

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2017     |    DOI: https://doi.org/10.1371/journal.pone.0169324

 

Erratum to: Evaluating next-generation sequencing for direct clinical diagnostics in diarrhoeal disease

Joensen, Katrine Grimstrup ; Engsbro, A. L. Ø. ; Lukjancenko, Oksana ; Kaas, Rolf Sommer ; Lund, Ole ; Westh, H. ; Aarestrup, Frank Møller
in: European Journal of Clinical Microbiology & Infectious Diseases, vol: 36, issue: 7, pages: 1339-1342

Type: Comment/debate (Peer reviewed)

Status: Published     |    År: 2017     |    DOI: https://doi.org/10.1007/s10096-017-2993-9

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Evaluating next-generation sequencing for direct clinical diagnostics in diarrhoeal disease

Joensen, Katrine Grimstrup ; Engsbro, A L Ø ; Lukjancenko, Oksana ; Kaas, Rolf Sommer ; Lund, Ole ; Westh, H. ; Aarestrup, Frank Møller
in: European Journal of Clinical Microbiology & Infectious Diseases, vol: 36, issue: 7, pages: 1325-1338

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2017     |    DOI: https://doi.org/10.1007/s10096-017-2947-2

 

First detection of linezolid resistance due to the optrA gene in enterococci isolated from food products in Denmark

Cavaco, Lina ; Korsgaard, Helle Bisgaard ; Kaas, Rolf Sommer ; Seyfarth, A. M. ; Leekitcharoenphon, Pimlapas ; Hendriksen, Rene S.
in: Journal of Global Antimicrobial Resistance, vol: 9, pages: 128-129

Type: Letter

Status: Published     |    År: 2017     |    DOI: https://doi.org/10.1016/j.jgar.2017.04.001

 

The CGE Tool Box

Larsen, Mette Voldby ; Joensen, Katrine Grimstrup ; Zankari, Ea ; Ahrenfeldt, Johanne ; Lukjancenko, Oksana ; Kaas, Rolf Sommer ; Roer, Louise ; Leekitcharoenphon, Pimlapas ; Saputra, Dhany ; Cosentino, S. ; Thomsen, Martin Christen Frølund ; Bellod Cisneros, Jose Luis ; Jurtz, Vanessa Isabell ; Rasmussen, Simon ; Petersen, Thomas Nordahl ; Hasman, Henrik ; Sicheritz-Pontén, Thomas ; Aarestrup, Frank Møller ; Lund, Ole
part of: Applied Genomics of Foodborne Pathogens, pages: 65-90, 2017, Springer, Switzerland

Type: Book chapter (Peer reviewed)

Status: Published     |    År: 2017     |    DOI: https://doi.org/10.1007/978-3-319-43751-4_5

2016
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Fatal septicemia linked to transmission of MRSA clonal complex 398 in hospital and nursing home, Denmark

Nielsen, Rikke Thoft ; Kemp, Michael ; Holm, Anette ; Skov, Marianne Nielsine ; Detlefsen, Mette ; Hasman, Henrik ; Aarestrup, Frank Møller ; Kaas, Rolf Sommer ; Nielsen, Jesper Boye ; Westh, Henrik ; Kolmos, Hans Jørn
in: EMERGING INFECTIOUS DISEASES, vol: 22, issue: 5, pages: 900-902

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2016     |    DOI: https://doi.org/10.3201/eid2205.151835

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The Lake Chad Basin, an Isolated and Persistent Reservoir of Vibrio cholerae O1: A Genomic Insight into the Outbreak in Cameroon, 2010

Kaas, Rolf Sommer ; Ngandjio, Antoinette ; Nzouankeu, Ariane ; Siriphap, Achiraya ; Fonkoua, Marie-Christine ; Aarestrup, Frank Møller ; Hendriksen, Rene S.
in: P L o S One, vol: 11, issue: 5

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2016     |    DOI: https://doi.org/10.1371/journal.pone.0155691

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The proficiency test (pilot) report of the global microbial identifier (GMI) initiative, year 2014

Hendriksen, Rene S. ; Karlsmose Pedersen, Susanne ; Larsen, Mette Voldby ; Neubert Pedersen, Jamie ; Lukjancenko, Oksana ; Kaas, Rolf Sommer ; Leekitcharoenphon, Pimlapas ; Bergmark, Lasse ; Hansen, Inge Marianne ; Sintchenko, Vitali ; Wolfgang, William J. ; Westh, Henrik Torkil ; Moran-Gilad, Jacob ; Hsiao, William ; Cuesta, Isabel ; Barrera, Jorge ; Zaballos, Angel ; Olson, Nathanael David ; Beck, Brian ; Underwood, Anthony ; Aarestrup, Frank Møller ; Strain, Errol ; Pettengill, James

Type: Report (Peer reviewed)

Status: Published     |    År: 2016

2015
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Detection of mcr-1 encoding plasmid-mediated colistin-resistant Escherichia coli isolates from human bloodstream infection and imported chicken meat, Denmark 2015

Hasman, H. ; Hammerum, A. M. ; Hansen, F. ; Hendriksen, Rene S. ; Olesen, B. ; Agersø, Yvonne ; Zankari, Ea ; Leekitcharoenphon, Pimlapas ; Stegger, M. ; Kaas, Rolf Sommer ; Cavaco, Lina ; Hansen, D. S. ; Aarestrup, Frank Møller ; Skov, R. L.
in: Eurosurveillance (Online Edition), vol: 20, issue: 49, pages: 1-5

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2015     |    DOI: https://doi.org/10.2807/1560-7917.es.2015.20.49.30085

 

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, issue: 2, pages: 677-680

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2015     |    DOI: https://doi.org/10.1128/JCM.03104-14

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Genomic Epidemiology

Lund, Ole ; Thomsen, Martin ; Bellod Cisneros, Jose Luis ; Ahrenfeldt, Johanne ; Tetzschner, Anna Maria Malberg ; Leekitcharoenphon, Shinny ; Kaas, Rolf Sommer ; Lukjancenko, Oksana ; Aarestrup, Frank
part of: Book of Abstracts. DTU's Sustain Conference 2015, 2015, Technical University of Denmark, Lyngby
Presented at:
DTU Sustain Conference 2015

Type: Conference abstract in proceedings (Peer reviewed)

Status: Published     |    År: 2015

 

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 Kiesbye ; Kaas, Rolf Sommer ; Cavaco, Lina ; Aarestrup, Frank Møller ; Hasman, Henrik ; Mwansa, James C. L.
in: Journal of Clinical Microbiology, vol: 53, issue: 1, pages: 262-272

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2015     |    DOI: https://doi.org/10.1128/JCM.02026-14

2014
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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, issue: 2

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2014     |    DOI: https://doi.org/10.1371/journal.pone.0087991

 

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, issue: 8, pages: 822-828

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2014     |    DOI: https://doi.org/10.1038/nbt.2939

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Real-time whole-genome sequencing for routine typing, surveillance, and outbreak detection of verotoxigenic Escherichia coli.

Joensen, Katrine Grimstrup ; Scheutz, Flemming ; Lund, Ole ; Hasman, Henrik ; Kaas, Rolf Sommer ; Nielsen, Eva M. ; Aarestrup, Frank Møller
in: Journal of Clinical Microbiology, vol: 52, issue: 5, pages: 1501-1510

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2014     |    DOI: https://doi.org/10.1128/JCM.03617-13

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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, issue: 8

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2014     |    DOI: https://doi.org/10.1371/journal.pone.0104984

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Whole Genome Epidemiological Typing of Escherichia coli

Kaas, Rolf Sommer

Type: Ph.D. thesis

Status: Published     |    År: 2014

2013
 

Comparison of typing by whole genome sequencing (WGS) and pulsed field gel electrophoresis (PFGE) of isolates from a hospital outbreak with a CTX-M-15 producing Klebsiella pneumoniae

Hansen, D. S. ; Kaas, Rolf Sommer ; Nielsen, E. M. ; Aarestrup, Frank Møller ; Hasman, Henrik
part of: 10th International Meeting on Microbial Epidemiological Markers (IMMEM-10) - Abstract Book, pages: 154, 2013, Paris, France
Presented at:
10th International Meeting on Microbial Epidemiological Markers

Type: Conference abstract in proceedings (Peer reviewed)

Status: Published     |    År: 2013

 

Genotyping using whole-genome sequencing is a realistic alternative to surveillance based on phenotypic antimicrobial susceptibility testing

Zankari, Ea ; Hasman, Henrik ; Kaas, Rolf Sommer ; Seyfarth, Anne Mette ; Agersø, Yvonne ; Lund, Ole ; Larsen, Mette Voldby ; Aarestrup, Frank Møller
in: Journal of Antimicrobial Chemotherapy, vol: 68, issue: 4, pages: 771-777

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2013     |    DOI: https://doi.org/10.1093/jac/dks496

 

Veillonella, Firmicutes: Microbes disguised as Gram negatives

Vesth, Tammi Camilla ; Ozen, Asli ; Andersen, Sandra Christine ; Kaas, Rolf Sommer ; Lukjancenko, Oksana ; Bohlin, Jon ; Nookaew, Intawat ; Wassenaar, Trudy M. ; Ussery, David
in: Standards in Genomic Sciences, vol: 9, issue: 2, pages: 431-448

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2013     |    DOI: https://doi.org/10.4056/sigs.2981345

2012
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Draft Genome Sequence of the Yeast Pachysolen tannophilus CBS 4044/NRRL Y-2460

Liu, Xiaoying ; Kaas, Rolf Sommer ; Jensen, Peter Ruhdal ; Workman, Mhairi
in: Eukaryotic Cell (Online Edition), vol: 11, issue: 6, pages: 827

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2012     |    DOI: https://doi.org/10.1128/EC.00114-12

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Estimating variation within the genes and inferring the phylogeny of 186 sequenced diverse Escherichia coli genomes

Kaas, Rolf Sommer ; Rundsten, Carsten Friis ; Ussery, David ; Aarestrup, Frank Møller
in: B M C Genomics, vol: 13, issue: 1, pages: 577

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2012     |    DOI: https://doi.org/10.1186/1471-2164-13-577

 

European freshwater VHSV genotype Ia isolates divide into two distinct subpopulations

Kahns, Søren ; Skall, Helle Frank ; Kaas, Rolf Sommer ; Korsholm, H. ; Jensen, Ann Britt Bang ; Jonstrup, Søren Peter ; Dodge, M. J. ; Einer-Jensen, Katja ; Stone, D. ; Olesen, Niels Jørgen
in: Diseases of Aquatic Organisms, vol: 99, issue: 1, pages: 23-35

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2012     |    DOI: https://doi.org/10.3354/dao02444

2011
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Population Genetics of Vibrio cholerae from Nepal in 2010: Evidence on the Origin of the Haitian Outbreak

Hendriksen, Rene S. ; Price, Lance B. ; Schupp, James M. ; Gillece, John D. ; Kaas, Rolf Sommer ; Engelthaler, David M. ; Bortolaia, Valeria ; Pearson, Talima ; Waters, Andrew E. ; Prasad Upadhyay, Bishnu ; Devi Shrestha, Sirjana ; Adhikari, Shailaja ; Shakya, Geeta ; Keim, Paul S. ; Aarestrup, Frank Møller
in: mBio, vol: 2, issue: 4, pages: e00157

Type: Journal article (Peer reviewed)

Status: Published     |    År: 2011     |    DOI: https://doi.org/10.1128/mBio.00157-11