Univ. Prof. Dr. Thomas Rattei

 

 

 

 

 

Head of the Division of Computational Systems Biology
Vice-head of the Department of Microbiology and Ecosystem Science

☎ +43 1 4277 91280

thomas.rattei@univie.ac.at 

Thomas Rattei’s work covers a wide spectrum of topics from bioinformatics, genome and metagenome analysis and systems biology. He has long-standing expertise in developing and applying computational methods for the interpretation of large-scale sequence information. The international reputation of his research group triggered their involvement in numerous international (meta-) genome sequencing and analysis consortia.

Thomas’ research activities not only cover individual, project-specific questions but also general problems in bioinformatics, computational infrastructure, and large-scale biological databases. Furthermore, his group develops novel, genome-based computational approaches for studying molecular inter-species interactions, such as between hosts and pathogens, between symbionts, or in microbial ecosystems.

Thomas and his team maintain and develop internationally relevant resources in computational biology, such as the web portals phendb.org, vogdb.org and effectivedb.org for microbial trait prediction, virus orthologous groups and protein families, and bacterial secreted proteins and secretion systems.

Links

Teaching

To explore Thomas' teaching activities at the University of Vienna, visit u:find.

Join the Team

If you are interested in joining the lab, explore open positions here or email Thomas directly.

Group Members

  • Michael Neumayer
  • Alexander Pfundner
  • Michael Predl
  • Roko Sango
  • Lovro Trgovec-Greif

 Publications

Sheibani-Tezerji R, Rattei T, Sessitsch A, Trognitz F, Mitter B. Transcriptome Profiling of the Endophyte Burkholderia phytofirmans PsJN Indicates Sensing of the Plant Environment and Drought Stress. mBio. 2015;6(5):1-11. e00621-15. doi: 10.1128/mBio.00621-15

Domman D, Collingro A, Lagkouvardos I, Gehre L, Weinmaier T, Rattei T et al. Massive Expansion of Ubiquitination-Related Gene Families within the Chlamydiae. Molecular Biology and Evolution. 2014 Nov;31(11):2890-2904. doi: 10.1093/molbev/msu227

Pester M, Maixner F, Berry D, Rattei T, Koch H, Lücker S et al. NxrB encoding the beta subunit of nitrite oxidoreductase as functional and phylogenetic marker for nitrite-oxidizing Nitrospira. Environmental Microbiology. 2014 Oct;16(10):3055-3071. Epub 2013 Nov 8. doi: 10.1111/1462-2920.12300

Janezic S, Indra A, Rattei T, Weinmaier T, Rupnik M. Recombination Drives Evolution of the Clostridium difficile 16S-23S rRNA Intergenic Spacer Region. PLoS ONE. 2014 Sept 15;9(9):e106545. e106545. doi: 10.1371/journal.pone.0106545

Ilmberger N, Güllert S, Dannenberg J, Rabausch U, Torres J, Wemheuer B et al. A comparative metagenome survey of the fecal microbiota of a breast- and a plant-fed Asian elephant reveals an unexpectedly high diversity of glycoside hydrolase family enzymes. PLoS ONE. 2014 Sept 10;9(9):e106707. e106707. doi: 10.1371/journal.pone.0106707

Kirchner S, Weinmaier T, Rattei T, Sattmann H, Kruckenhauser L. Characterization of 19 new microsatellite loci for the Omani barb Garra barreimiae from 454 sequences. BMC research notes. 2014 Aug 12;7(1):522. 522. doi: 10.1186/1756-0500-7-522

Marz M, Beerenwinkel N, Drosten C, Fricke M, Frishman D, Hofacker IL et al. Challenges in RNA virus bioinformatics. Bioinformatics. 2014 Jul 1;30(13):1793-1799. doi: 10.1093/bioinformatics/btu105

Walker A, Pfitzner B, Neschen S, Kahle M, Harir M, Lucio M et al. Distinct signatures of host-microbial meta-metabolome and gut microbiome in two C57BL/6 strains under high-fat diet. The ISME Journal: multidisciplinary journal of microbial ecology. 2014 Jun 6;8(12):2380–2396. doi: 10.1038/ismej.2014.79

Behrens S, Widder S, Mannala GK, Qing X, Madhugiri R, Kefer N et al. Ultra deep sequencing of Listeria monocytogenes sRNA transcriptome revealed new antisense RNAs. PLoS ONE. 2014 Feb 3;9(2):e83979. e83979. doi: 10.1371/journal.pone.0083979