Thomas Sicheritz-Pontén
Professor
Section for Hologenomics
Øster Farimagsgade 5, 1014 København K
- 2016
A novel approach to probe host-pathogen interactions of bovine digital dermatitis, a model of a complex polymicrobial infection
Marcatili, P., Nielsen, M. W., Sicheritz-Pontén, Thomas, Jensen, Tim Kåre, Schafer-Nielsen, C., Boye, M., Nielsen, M. & Schou, K. K., 2016, In: BMC Genomics. 17, 13 p., 987.Research output: Contribution to journal › Journal article › Research › peer-review
Identification of common bacterial antigenic markers from bovine digital dermatitis lesions using meta-transcriptomics in combination with high-density peptide-microarrays
Nielsen, M. W., Marcatili, P., Sicheritz-Pontén, Thomas, Jensen, Tim Kåre, Schafer-Nielsen, C., Boye, M., Nielsen, M. & Schou, K. K., 2016.Research output: Contribution to conference › Conference abstract for conference › Research › peer-review
- 2017
Complete mitochondrial genome of the Oriental Hornet, Vespa orientalis F. (Hymenoptera: Vespidae)
Haddad, N. J., Al-Nakeeb, K. A. A., Petersen, Bent, Dalén, L., Blom, N. & Sicheritz-Pontén, Thomas, 2017, In: Mitochondrial DNA Part B: Resources. 2, 1, p. 139-140 2 p.Research output: Contribution to journal › Journal article › Research › peer-review
Genome sequence of Talaromyces atroroseus, which produces red colorants for the food industry
Thrane, U., Rasmussen, K. B., Petersen, Bent, Rasmussen, Simon, Sicheritz-Pontén, Thomas & Mortensen, U. H., 2017, In: Genome Announcements. 5, 9, 2 p.Research output: Contribution to journal › Journal article › Research › peer-review
- 2018
- Published
Protective role of the vulture facial skin and gut microbiomes aid adaptation to scavenging
Zepeda Mendoza, M. L., Roggenbuck, M., Manzano Vargas, K., Hansen, L. H., Brunak, Søren, Gilbert, M Thomas P & Sicheritz-Pontén, Thomas, 2018, In: Acta Veterinaria Scandinavica. 60, 1, p. 1-19 19 p., 61.Research output: Contribution to journal › Journal article › Research › peer-review
- 2019
- Published
Contaminating viral sequences in high-throughput sequencing viromics: a linkage study of 700 sequencing libraries
Asplund, M., Kjartansdóttir, K. R., Mollerup, S., Vinner, L., Fridholm, H., Herrera, J. A. R., Friis-Nielsen, J., Hansen, T. A., Jensen, R. H., Nielsen, I. B., Richter, S. R., Rey-Iglesia, A., Matey-Hernandez, M. L., Alquezar-Planas, D. E., Olsen, P. V. S., Sicheritz-Pontén, T., Willerslev, E., Lund, O., Brunak, S., Mourier, T. & 3 others, , 2019, In: Clinical Microbiology and Infection. 25, 10, p. 1277-1285Research output: Contribution to journal › Journal article › Research › peer-review
Global monitoring of antimicrobial resistance based on metagenomics analyses of urban sewage
Hendriksen, R. S., Munk, P., Njage, P., van Bunnik, B., McNally, L., Lukjancenko, O., Röder, T., Nieuwenhuijse, D., Pedersen, S. K., Kjeldgaard, J., Kaas, R. S., Clausen, P. T. L. C., Vogt, J. K., Leekitcharoenphon, P., van de Schans, M. G. M., Zuidema, T., de Roda Husman, A. M., Rasmussen, S., Petersen, B., Bego, A. & 108 others, , 2019, In: Nature Communications. 10, 1, 12 p., 1124.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The Third Annual Meeting of the European Virus Bioinformatics Center
Hufsky, F., Ibrahim, B., Modha, S., Clokie, M. R. J., Deinhardt-Emmer, S., Dutilh, B. E., Lycett, S., Simmonds, P., Thiel, V., Abroi, A., Adriaenssens, E. M., Escalera-Zamudio, M., Kelly, J. N., Lamkiewicz, K., Lu, L., Susat, J., Sicheritz-Pontén, Thomas, Robertson, D. L. & Marz, M., 2019, In: Viruses. 11, 5, 19 p., v11050420.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
High-Throughput Sequencing-Based Investigation of Viruses in Human Cancers by Multienrichment Approach
Mollerup, S., Asplund, M., Friis-Nielsen, J., Kjartansdóttir, K. R., Fridholm, H., Hansen, T. A., Herrera, J. A. R., Barnes, C. J., Jensen, R. H., Richter, S. R., Nielsen, I. B., Pietroni, C., Alquezar-Planas, D. E., Rey-Iglesia, A., Olsen, P. V. S., Rajpert-De Meyts, E., Groth-Pedersen, L., von Buchwald, C., Jensen, D. H., Gniadecki, R. & 20 others, , 15 Oct 2019, In: The Journal of Infectious Diseases. 220, 8, p. 1312-1324Research output: Contribution to journal › Journal article › Research › peer-review
- 2020
- Published
A draft genome sequence of the elusive giant squid, Architeuthis dux
da Fonseca, R. R., Couto, A., Machado, A. M., Brejova, B., Albertin, C. B., Silva, F., Gardner, P., Baril, T., Hayward, A., Campos, A., Ribeiro, Â. M., Barrio-Hernandez, I., Hoving, H-J., Tafur-Jimenez, R., Chu, C., Frazão, B., Petersen, B., Peñaloza, F., Musacchia, F., Alexander, G. C. & 24 others, , 2020, In: GigaScience. 9, 1, 12 p., giz152.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Arctic-adapted dogs emerged at the Pleistocene-Holocene transition
Sinding, M. H. S., Gopalakrishnan, S., Ramos-Madrigal, J., de Manuel, M., Pitulko, V. V., Kuderna, L., Feuerborn, T. R., Frantz, L. A. F., Vieira, F. G., Niemann, J., Samaniego Castruita, J. A., Carøe, C., Andersen-Ranberg, E. U., Jordan, P. D., Pavlova, E. Y., Nikolskiy, P. A., Kasparov, A. K., Ivanova, V. V., Willerslev, E., Skoglund, P. & 15 others, , 2020, In: Science (New York, N.Y.). 368, 6498, p. 1495-1499 5 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Dense sampling of bird diversity increases power of comparative genomics
Feng, S., Stiller, J., Deng, Y., Armstrong, J., Fang, Q., Hart Reeve, A., Xie, D., Chen, G., Guo, C., Faircloth, B. C., Petersen, B., Wang, Z., Zhou, Q., Diekhans, M., Chen, W., Andreu-Sánchez, S., Margaryan, A., Howard, J. T., Parent, C., Pacheco, G. & 130 others, , 2020, In: Nature. 587, 7833, p. 252-257Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Distinct life histories impact dikaryotic genome evolution in the rust fungus Puccinia striiformis causing stripe rust in wheat
Chen, Yan-Jun, Schwessinger, B., Tien, R., Vogt, J. K., Sperschneider, J., Nagar, R., McMullan, M., Sicheritz-Pontén, Thomas, Sørensen, C. K., Hovmøller, M. S., Rathjen, J. P. & Justesen, A. F., 2020, In: Genome Biology and Evolution. 12, 5, p. 597-617Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Genomes of Pleistocene Siberian Wolves Uncover Multiple Extinct Wolf Lineages
Ramos-Madrigal, J., Sinding, M-H. S., Carøe, C., Mak, S. S. T., Niemann, J., Samaniego Castruita, J. A., Fedorov, S., Kandyba, A., Germonpré, M., Bocherens, H., Feuerborn, T. R., Pitulko, V. V., Pavlova, E. Y., Nikolskiy, P. A., Kasparov, A. K., Ivanova, V. V., Larson, G., Frantz, L. A. F., Willerslev, E., Meldgaard, M. & 7 others, , 2020, In: Current biology : CB. 31, p. 198-206Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Microbiota in foods from Inuit traditional hunting
Hauptmann, A. L., Paulová, P., Hansen, Lars Hestbjerg, Sicheritz-Pontén, Thomas, Mulvad, G. & Nielsen, Dennis Sandris, 2020, In: PLoS ONE. 15, 1, 15 p., e0227819.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Multi-omic detection of Mycobacterium leprae in archaeological human dental calculus
Fotaki, Anna Katerina, Denham, S. D., Mackie, Meaghan, Iraeta Orbegozo, Miren, Mylopotamitaki, Dorothea, Gopalakrishnan, Shyam, Sicheritz-Pontén, Thomas, Olsen, Jesper Velgaard, Cappellini, Enrico, KU, thw266, Christophersen, A., Gilbert, M Thomas P & Vågene, Åshild Joanne, 2020, In: Philosophical Transactions of the Royal Society B: Biological Sciences. 375, 1812, 10 p., 20190584.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Rethinking Phage Ecology by Rooting it Within an Established Plant Framework
Clokie, M. R. J., Blasdel, B. G., Demars, B. O. L. & Sicheritz-Pontén, Thomas, 2020, In: PHAGE: Therapy, Applications, and Research. 1, 3, p. 121-136Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The evolutionary history of extinct and living lions
de Manuel, M., Barnett, R., Sandoval-Velasco, M., Yamaguchi, N., Vieira, F. G., Mendoza, M. L. Z., Liu, S., Martin, M. D., Sinding, M-H. S., Mak, S. S. T., Caroe, C., Liu, S., Guo, C., Zheng, J., Zazula, G., Baryshnikov, G., Eizirik, E., Koepfli, K-P., Johnson, W. E., Antunes, A. & 9 others, , 2020, In: Proceedings of the National Academy of Sciences of the United States of America. 117, 20, p. 10927-10934 8 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
The microbial composition of dried fish prepared according to Greenlandic Inuit traditions and industrial counterparts
Hauptmann, A. L., Paulová, P., Castro-Mejía, J. L., Hansen, L. H., Sicheritz-Pontén, Thomas, Mulvad, G. & Nielsen, Dennis Sandris, 2020, In: Food Microbiology. 85, 11 p., 103305.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
inPhocus: A Local Perspective on Phage-Based Biocontrol in Agriculture and Aquaculture in India
Kondabagil, K., Sicheritz-Pontén, Thomas & Clokie, M. R. J., 2020, In: PHAGE: Therapy, Applications, and Research. 1, 4, p. 169-173Research output: Contribution to journal › Journal article › Research › peer-review
- 2021
- Published
Analysis of Selection Methods to Develop Novel Phage Therapy Cocktails Against Antimicrobial Resistant Clinical Isolates of Bacteria
Haines, M. E. K., Hodges, F. E., Nale, J. Y., Mahony, J., van Sinderen, D., Kaczorowska, J., Alrashid, B., Akter, M., Brown, N., Sauvageau, D., Sicheritz-Pontén, Thomas, Thanki, A. M., Millard, A. D., Galyov, E. E. & Clokie, M. R. J., 2021, In: Frontiers in Microbiology. 12, 15 p., 613529.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Complete Genome Sequence of Salmonella enterica Bacteriophage PRF-SP1
Mutusamy, P., Jothi, S. J., Lee, S. Y., Petersen, Bent, Sicheritz-Pontén, Thomas, Clokie, M. R. J., Loke, S., Millard, A., Parimannan, Sivachandran & Rajandas, Heera, 2021, In: Microbiology resource announcements. 10, 47, 3 p., e00965-21.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Evolutionary history of the extinct Sardinian dhole
Ciucani, M. M., Jensen, J. K., Sinding, M. S., Smith, O., Lucenti, S. B., Rosengren, E., Rook, L., Tuveri, C., Arca, M., Cappellini, Enrico, Galaverni, M., Randi, E., Guo, C., KU, thw266, Sicheritz-Pontén, Thomas, Dalén, L., Gilbert, M Thomas P & Gopalakrishnan, Shyam, 2021, In: Current Biology. 31, 24, p. 5571-5579.e6 16 p.Research output: Contribution to journal › Journal article › Research › peer-review
- Published
From Trees to Clouds: PhageClouds for Fast Comparison of ∼640,000 Phage Genomic Sequences and Host-Centric Visualization Using Genomic Network Graphs
Rangel Piñeros, Guillermo Andres, Millard, A., Michniewski, S., Scanlan, D., Sirén, K., Reyes, A., Petersen, Bent, Clokie, M. R. J. & Sicheritz-Pontén, Thomas, 2021, In: PHAGE: Therapy, Applications, and Research. 2, 4, p. 194-203Research output: Contribution to journal › Journal article › Research › peer-review
- Published
Historical population declines prompted significant genomic erosion in the northern and southern white rhinoceros (Ceratotherium simum)
Sánchez-Barreiro, F., Gopalakrishnan, Shyam, Ramos Madrigal, Jazmin, Westbury, Michael Vincent, de Manuel, M., Margaryan, Ashot, Ciucani, M. M., Vieira, Filipe Garrett, Patramanis, Ioannis, Kalthoff, D. C., Timmons, Z., Sicheritz-Pontén, Thomas, Dalén, L., Ryder, O. A., KU, thw266, Marques-Bonet, T., Moodley, Y. & Gilbert, M Thomas P, 2021, In: Molecular Ecology. 30, 23, p. 6355-6369 15 p.Research output: Contribution to journal › Journal article › Research › peer-review
ID: 202359275
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The microbial composition of dried fish prepared according to Greenlandic Inuit traditions and industrial counterparts
Research output: Contribution to journal › Journal article › Research › peer-review
Published -
171
downloads
Protective role of the vulture facial skin and gut microbiomes aid adaptation to scavenging
Research output: Contribution to journal › Journal article › Research › peer-review
Published -
142
downloads
High-Throughput Sequencing-Based Investigation of Viruses in Human Cancers by Multienrichment Approach
Research output: Contribution to journal › Journal article › Research › peer-review
Published