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Journal Article (45)

1.
Journal Article
Barquera, R.; Lamnidis, T. C.; Lankapalli, A. K.; Kocher, A.; Hernández-Zaragoza, D. I.; Nelson, E. A.; Zamora-Herrera, A. C.; Perez Ramallo, P.; Bernal-Felipe, N.; Immel, A. et al.; Bos, K.; Acuña-Alonzo, V.; Barbieri, C.; Roberts, P.; Herbig, A.; Kühnert, D.; Márquez-Morfín, L.; Krause, J.: Origin and health status of first-generation Africans from early colonial Mexico. Current Biology 30, 2020.04.002, pp. 1 - 14 (2020)
2.
Journal Article
Borry, M.; Cordova, B.; Perri, A.; Wibowo, M.; Honap, T. P.; Ko, J.; Yu, J.; Britton, K.; Girdland-Flink, L.; Power, R. C. et al.; Stuijts, I.; Salazar-García, D. C.; Hofman, C.; Hagan, R.; Kagoné, T. S.; Meda, N.; Carabin, H.; Jacobson, D.; Reinhard, K.; Lewis, C.; Kostic, A.; Jeong, C.; Herbig, A.; Hübner, A.; Warinner, C.: CoproID predicts the source of coprolites and paleofeces using microbiome composition and host DNA content. PeerJ, 8:e9001 (2020)
3.
Journal Article
Key, F. M.; Posth, C.; Esquivel Gomez, L. R.; Hübler, R.; Spyrou, M. A.; Neumann, G. U.; Furtwängler, A.; Sabin, S.; Burri Promerová, M.; Wissgott, A. et al.; Lankapalli, A. K.; Vågene, Å. J.; Meyer, M.; Nagel, S.; Tukhbatova, R.; Khokhlov, A.; Chizhevsky, A.; Hansen, S.; Belinsky, A. B.; Kalmykov, A.; Kantorovich, A. R.; Maslov, V. E.; Stockhammer, P. W.; Vai, S.; Zavattaro, M.; Riga, A.; Caramelli, D.; Skeates, R.; Beckett, J.; Gradoli, M. G.; Steuri, N.; Hafner, A.; Ramstein, M.; Siebke, I.; Lösch, S.; Erdal, Y. S.; Alikhan, N.-F.; Zhou, Z.; Achtman, M.; Bos, K.; Reinhold, S.; Haak, W.; Kühnert, D.; Herbig, A.; Krause, J.: Emergence of human-adapted Salmonella enterica is linked to the Neolithization process. Nature Ecology & Evolution 4 (3), pp. 324 - 333 (2020)
4.
Journal Article
Nelson, E. A.; Buikstra, J. E.; Herbig, A.; Tung, T. A.; Bos, K. I.: Advances in the molecular detection of tuberculosis in pre-contact Andean South America. International Journey of Paleopathology, 2019.12.006 (2020)
5.
Journal Article
Hübler, R.; Key, F. M.; Warinner, C. G.; Bos, K. I.; Krause, J.; Herbig, A.: HOPS: Automated detection and authentication of pathogen DNA in archaeological remains. Genome Biology 20 (n/a), 280 (2019) (2019)
6.
Journal Article
Spyrou, M. A.; Keller, M.; Tukhbatova, R. I.; Scheib, C. L.; Nelson, E. A.; Andrades Valtueña, A.; Neumann, G.; Walker, D.; Alterauge, A.; Carty, N. et al.; Cessford, C.; Fetz, H.; Gourvennec, M.; Hartle, R.; Henderson, M.; von Heyking, K.; Inskip, S. A.; Kacki, S.; Key, F. M.; Knox, E. L.; Later, C.; Maheshwari-Aplin, P.; Peters, J.; Robb, J. E.; Schreiber, J.; Kivisild, T.; Castex, D.; Lösch, S.; Harbeck, M.; Herbig, A.; Bos, K. I.; Krause, J.: Phylogeography of the second plague pandemic revealed through analysis of historical Yersinia pestis genomes. Nature Communications 10 (1), 4470 (2019)
7.
Journal Article
Bos, K. I.; Kühnert, D.; Herbig, A.; Esquivel Gomez, L. R.; Andrades Valtueña, A.; Barquera Lozano, R. J.; Giffin, K.; Lankapalli, A. K.; Nelson, E. A.; Sabin, S. et al.; Spyrou, M. A.; Krause, J.: Paleomicrobiology: Diagnosis and Evolution of Ancient Pathogens. Annual Review of Microbiology 73 (1), pp. 639 - 666 (2019)
8.
Journal Article
Keller, M.; Spyrou, M. A.; Scheib, C. L.; Neumann, G.; Kröpelin, A.; Haas-Gebhard, B.; Päffgen, B.; Haberstroh, J.; Lacomba, A. R.; Raynaud, C. et al.; Cessford, C.; Durand, R.; Stadler, P.; Nägele, K.; Bates, J. S.; Trautmann, B.; Inskip, S. A.; Peters, J.; Robb, J. E.; Kivisild, T.; Castex, D.; McCormick, M.; Bos, K. I.; Harbeck, M.; Herbig, A.; Krause, J.: Ancient Yersinia pestis genomes from across Western Europe reveal early diversification during the First Pandemic (541–750). Proceedings of the National Academy of Sciences of the United States of America 116 (25), pp. 12363 - 12372 (2019)
9.
Journal Article
Sabin, S.; Herbig, A.; Vagene, A. J.; Ahlström, T.; Bozovic, G.; Arcini, C.; Kuehnert, D.; Bos, K. I.: A seventeenth-century Mycobacterium tuberculosis genome supports a Neolithic emergence of the Mycobacterium tuberculosis complex. bioRxiv (2019)
10.
Journal Article
Spyrou, M. A.; Bos, K. I.; Herbig, A.; Krause, J.: Ancient pathogen genomics as an emerging tool for infectious disease research. Nature Reviews Genetics 20, pp. 323 - 340 (2019)
11.
Journal Article
Velsko, I. M.; Frantz, L. A. F.; Herbig, A.; Larson, G.; Warinner, C.: Selection of Appropriate Metagenome Taxonomic Classifiers for Ancient Microbiome Research. mSystems 3 (4), e00080-18 (2018)
12.
Journal Article
Schuenemann, V. J.; Lankapalli, A. K.; Barquera, R.; Nelson, E. A.; Iraíz Hernández, D.; Acuña Alonzo, V.; Bos, K. I.; Márquez Morfín, L.; Herbig, A.; Krause, J.: Historic Treponema pallidum genomes from Colonial Mexico retrieved from archaeological remains. PLOS Neglected Tropical Diseases 12 (6), e0006447 (2018)
13.
Journal Article
Spyrou, M. A.; Tukhbatova, R. I.; Wang, C.-C.; Andrades Valtueña, A.; Lankapalli, A. K.; Kondrashin, V. V.; Tsybin, V. A.; Khokhlov, A.; Kühnert, D.; Herbig, A. et al.; Bos, K. I.; Krause, J.: Analysis of 3800-year-old Yersinia pestis genomes suggests Bronze Age origin for bubonic plague. Nature Communications 9, 2234 (2018)
14.
Journal Article
Schuenemann, V. J.; Avanzi, C.; Krause-Kyora, B.; Seitz, A.; Herbig, A.; Inskip, S.; Bonazzi, M.; Reiter, E.; Urban, C.; Dangvard Pedersen, D. et al.; Taylor, G. M.; Singh, P.; Stewart, G. R.; Velemínský, P.; Likovsky, J.; Marcsik, A.; Molnár, E.; Pálfi, G.; Mariotti, V.; Riga, A.; Belcastro, M. G.; Boldsen, J. L.; Nebel, A.; Mays, S.; Donoghue, H. D.; Zakrzewski, S.; Benjak, A.; Nieselt, K.; Cole, S. T.; Krause, J.: Ancient genomes reveal a high diversity of Mycobacterium leprae in medieval Europe. PLoS Pathogens 14 (5), pp. 1 - 17 (2018)
15.
Journal Article
Krause-Kyora, B.; Susat, J.; Key, F. M.; Kühnert, D.; Bosse, E.; Immel, A.; Rinne, C.; Kornell, S.-C.; Yepes, D.; Franzenburg, S. et al.; Heyne, H. O.; Meier, T.; Lösch, S.; Meller, H.; Friederich, S.; Nicklisch, N.; Alt, K. W.; Schreiber, S.; Tholey, A.; Herbig, A.; Nebel, A.; Krause, J.: Neolithic and medieval virus genomes reveal complex evolution of Hepatitis B. eLife 7, e36666 (2018)
16.
Journal Article
Vågene, Å. J.; Herbig, A.; Campana, M. G.; García, R.; M., N.; Warinner, C.; Sabin, S.; Spyrou, M. A.; Andrades Valtueña, A.; Huson, D. et al.; Tuross, N.; Bos, K. I.; Krause, J.: Salmonella enterica genomes from victims of a major sixteenth-century epidemic in Mexico. Nature Ecology & Evolution 2 (3), pp. 520 - 528 (2018)
17.
Journal Article
Schuenemann, V. J.; Avanzi, C.; Krause-Kyora, B.; Seitz, A.; Herbig, A.; Inskip, S.; Bonazzi, M.; Reiter, E.; Urban, C.; Dangvard Pedersen, D. et al.; Taylor, G. M.; Singh, P.; Stewart, G. R.; Velemínský, P.; Likovsky, J.; Marcsik, A.; Molnár, E.; Pálfi, G.; Mariotti, V.; Riga, A.; Belcastro, M. G.; Boldsen, J. L.; Nebel, A.; Mays, S.; Donoghue, H. D.; Zakrzewski, S.; Benjak, A.; Nieselt, K.; Cole, S. T.; Krause, J.: Ancient genomes reveal a high diversity of Mycobacterium leprae in medieval Europe. PLoS Pathogens 14 (5), e1006997 (2018)
18.
Journal Article
Fellows Yates, J. A.; Drucker, D. G.; Reiter, E.; Heumos, S.; Welker, F.; Münzel, S. C.; Wojtal, P.; Lázničková-Galetová, M.; Conard, N. J.; Herbig, A. et al.; Bocherens, H.; Krause, J.: Central European Woolly Mammoth population dynamics: Insights from Late Pleistocene Mitochondrial Genomes. Scientific Reports 7, 17714 (2017)
19.
Journal Article
Key, F. M.; Posth, C.; Krause, J.; Herbig, A.; Bos, K. I.: Mining metagenomic data sets for ancient DNA: Recommended protocols for authentication. Trends in Genetics 33 (8), pp. 508 - 520 (2017)
20.
Journal Article
Warinner, C. G.; Herbig, A.; Mann, A.; Fellows Yates, J. A.; Weiß, C. L.; Burbano, H. A.; Orlando, L.; Krause, J.: A robust framework for microbial archaeology. Annual Review of Genomics and Human Genetics 18, pp. 321 - 356 (2017)
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