Publications of Alexander Herbig

Journal Article (54)

2015
Journal Article
Bos, K. I.; Jaeger, G.; Schuenemann, V. J.; Vågene, Å. J.; Spyrou, M. A.; Herbig, A.; Nieselt, K.; Krause, J.: Parallel detection of ancient pathogens via array-based DNA capture. Philosophical Transactions of the Royal Society of London, Series B: Biological Sciences 370 (1660), 20130375 (2015)
Journal Article
Mechler, L.; Herbig, A.; Paprotka, K.; Fraunholz, M.; Nieselt, K.; Bertram, R.: A novel point mutation promotes growth phase-dependent Daptomycin tolerance in Staphylococcus aureus. Antimicrobial Agents and Chemotherapy 59 (9), pp. 5366 - 5376 (2015)
Journal Article
Thomason, M. K.; Bischler, T.; Eisenbart, S. K.; Foerstner, K. U.; Zhang, A.; Herbig, A.; Nieselt, K.; Sharma, C. M.; Storz, G.: Global transcriptional start site mapping using differential RNA sequencing reveals novel antisense RNAs in Escherichia coli. Journal of Bacteriology (Washington, DC) 197 (1), pp. 18 - 28 (2015)
2014
Journal Article
Lechnera, S.; Praxa, M.; Lange, B.; Huber, C.; Eisenreich, W.; Herbig, A.; Nieselt, K.; Bertram, R.: Metabolic and transcriptional activities of Staphylococcus aureus challenged with high-doses of daptomycin. International Journal of Medical Microbiology 304 (8), pp. 931 - 940 (2014)
Journal Article
Schroeder, W.; Bernhardt, J.; Marincola, G.; Klein-Hitpass, L.; Herbig, A.; Krupp, G.; Nieselt, K.; Wolz, C.: Altering gene expression by aminocoumarins: the role of DNA supercoiling in Staphylococcus aureus. BMC Genomics 15, 291 (2014)
Journal Article
Bos, K. I.; Harkins, K. M.; Herbig, A.; Coscolla, M.; Weber, N.; Comas, I.; Forrest, S. A.; Bryant, J. M.; Harris, S. R.; Schuenemann, V. J. et al.; Campbell, T. J.; Majander, K.; Wilbur, A. K.; Guichon, R. A.; Steadman, D. L. W.; Cook, D. C.; Niemann, S.; Behr, M. A.; Zumarraga, M.; Bastida, R.; Huson, D.; Nieselt, K.; Young, D.; Parkhill, J.; Buikstra, J. E.; Gagneux, S.; Stone, A. C.; Krause, J.: Pre-Columbian mycobacterial genomes reveal seals as a source of New World human tuberculosis. Nature 514 (7523), pp. 494 - 497 (2014)
2013
Journal Article
Schuenemann, V. J.; Singh, P.; Mendum, T. A.; Krause-Kyora, B.; Jaeger, G.; Bos, K.; Herbig, A.; Economou, C.; Benjak, A.; Busso, P. et al.; Nebel, A.; Boldsen, J. L.; Kjellstrom, A.; Wu, H.; Stewart, G. R.; Taylor, G. M.; Bauer, P.; Lee, O. Y. -.; Wu, H. H. T.; Minnikin, D. E.; Besra, G. S.; Tucker, K.; Roffey, S.; Sow, S. O.; Cole, S. T.; Nieselt, K.; Krause, J.: Genome-wide comparison of medieval and modern Mycobacterium leprae. Science 341 (6142), pp. 179 - 183 (2013)
Journal Article
Dugar, G.; Herbig, A.; Foerstner, K. U.; Heidrich, N.; Reinhardt, R.; Nieselt, K.; Sharma, C. M.: High-resolution transcriptome maps reveal strain-specific regulatory features of multiple Campylobacter jejuni isolates. PLoS Genetics 9 (5), UNSP e1003495 (2013)
Journal Article
Schuster, C. F.; Park, J.-H.; Prax, M.; Herbig, A.; Nieselt, K.; Rosenstein, R.; Inouye, M.; Bertram, R.: Characterization of a mazEF toxin-antitoxin homologue from Staphylococcus equorum. Journal of Bacteriology (Washington, DC) 195 (1), pp. 115 - 125 (2013)
2012
Journal Article
Herbig, A.; Jäger, G.; Nieselt, K.: GenomeRing: alignment visualization based on SuperGenome coordinates. Bioinformatics 28 (12), pp. 7 - 15 (2012)
2011
Journal Article
Waldvogel, E.; Herbig, A.; Battke, F.; Amin, R.; Nentwich, M.; Nieselt, K.; Ellingsen, T. E.; Wentzel, A.; Hodgson, D. A.; Wohlleben, W. et al.; Mast, Y.: The P-II protein GlnK is a pleiotropic regulator for morphological differentiation and secondary metabolism in Streptomyces coelicolor. Applied Microbiology and Biotechnology 92 (6), pp. 1219 - 1236 (2011)
Journal Article
Battke, F.; Symons, S.; Herbig, A.; Nieselt, K.: GaggleBridge: collaborative data analysis. Bioinformatics 27 (18), pp. 2612 - 2613 (2011)
Journal Article
Herbig, A.; Nieselt, K.: nocoRNAc: Characterization of non-coding RNAs in prokaryotes. BMC Bioinformatics 12, 40 (2011)
2010
Journal Article
Nieselt, K.; Battke, F.; Herbig, A.; Bruheim, P.; Wentzel, A.; Jakobsen, O. M.; Sletta, H.; Alam, M. T.; Merlo, M. E.; Moore, J. et al.; Omara, W. A. M.; Morrissey, E. R.; Juarez-Hermosillo, M. A.; Rodriguez-Garcia, A.; Nentwich, M.; Thomas, L.; Iqbal, M.; Legaie, R.; Gaze, W. H.; Challis, G. L.; Jansen, R. C.; Dijkhuizen, L.; Rand, D. A.; Wild, D. L.; Bonin, M.; Reuther, J.; Wohlleben, W.; Smith, M. C. M.; Burroughs, N. J.; Martin, J. F.; Hodgson, D. A.; Takano, E.; Breitling, R.; Ellingsen, T. E.; Wellington, E. M. H.: The dynamic architecture of the metabolic switch in Streptomyces coelicolor. BMC Genomics 11, 10 (2010)

Book Chapter (3)

2013
Book Chapter
Nieselt, K.; Herbig, A.: Non-coding RNA, classification. In: Encyclopedia of systems biology, pp. 1532 - 1534 (Ed. Dubitzky, W.) (2013)
Book Chapter
Nieselt, K.; Herbig, A.: Non-coding RNA, prediction. In: Encyclopedia of systems biology, pp. 1534 - 1538 (Ed. Dubitzky, W.) (2013)
2011
Book Chapter
Battke, F.; Herbig, A.; A Wentzel, A.; Jakobsen, O. M.; Bonin, M.; Hodgson, D. A.; Wohlleben, W.; Ellingsen, T. E.; Nieselt, K.: A technical platform for generating reproducible expression data from streptomyces coelicolor batch cultivations. In: Software Tools and Algorithms for Biological Systems, pp. 3 - 15 (Ed. Arabnia , H. R.). Springer, New York (2011)

Poster (1)

2017
Poster
Honap, T. P.; Vågene, Å. J.; Herbig, A.; Buikstra, J. E.; Bos, K. I.; Krause, J.; Stone, A. C.: Genomic analyses of ancient Mycobacterium tuberculosis complex strains from the Americas. (2017)

Working Paper (4)

2021
Working Paper
Rohrlach, A. B.; Papac, L.; Childebayeva, A.; Rivollat, M.; Villalba-Mouco, V.; Neumann, G. U.; Penske, S. E.; Skourtanioti, E.; Loosdrecht, M. S. v. d.; Akar, M. et al.; Boyadzhiev, K.; Boyadzhiev, Y.; Deguilloux, M.-F.; Dobeš, M.; Erdal, Y. S.; Ernée, M.; Frangipane, M.; Furmanek, M.; Friederich, S.; Ghesquière, E.; Hałuszko, A.; Hansen, S.; Küßner, M.; Mannino, M.; Özbal, R.; Reinhold, S.; Rottier, S.; Salazar-García, D. C.; Soler Diaz, J.; Stockhammer, P. W.; Togores Muñoz, T. M.; Aslihan Yener, K.; Posth, C.; Krause, J.; Herbig, A.; Haak, W.: Using Y-chromosome capture enrichment to resolve haplogroup H2 shows new evidence for a two-Path Neolithic expansion to Western Europe. bioRxiv, 431761 (2021), 23 pp.
2018
Working Paper
Velsko, I. M.; Frantz, L. A. F.; Herbig, A.; Larson, G.; Warinner, C. G.: Selection of appropriate metagenome taxonomic classifiers for ancient microbiome research. bioRxiv, 260042 (2018), 41 pp.
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