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2017


Bowers RM, Kyrpides NC, Stepanauskas R, Harmon-Smith M, Doud D, Reddy TBK et al. Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea. Nature Biotechnology. 2017 Aug 8;35(8):725-731. doi: 10.1038/nbt.3893

Thannesberger J, Hellinger HJ, Klymiuk I, Kastner MT, Rieder FJJ, Schneider M et al. Viruses comprise an extensive pool of mobile genetic elements in eukaryote cell cultures and human clinical samples. The FASEB Journal. 2017 May 1;31(5):1987-2000. Epub 2017 Feb 8. doi: 10.1096/fj.201601168R

Zojer M, Schuster LN, Schulz F, Pfundner A, Horn M, Rattei T. Variant profiling of evolving prokaryotic populations. PeerJ. 2017 Feb 16;5:e2997. doi: 10.7717/peerj.2997

Loy A, Pfann C, Steinberger M, Hanson B, Herp S, Brugiroux S et al. Lifestyle and Horizontal Gene Transfer-Mediated Evolution of Mucispirillum schaedleri, a Core Member of the Murine Gut Microbiota. mSystems. 2017 Feb 9;2(1):00171-16. doi: 10.1128/mSystems.00171-16

Di Giglio MG, Muttenthaler M, Harpsøe K, Liutkeviciute Z, Keov P, Eder T et al. Development of a human vasopressin V1a-receptor antagonist from an evolutionary-related insect neuropeptide. Scientific Reports. 2017 Feb 1;7:41002. doi: 10.1038/srep41002

Sato Y, Ling EYS, Turaev D, Laffy P, Weynberg KD, Rattei T et al. Unraveling the microbial processes of black band disease in corals through integrated genomics. Scientific Reports. 2017 Jan 17;7:40455. doi: 10.1038/srep40455

Weynberg KD, Laffy PW, Wood-Charlson EM, Turaev D, Rattei T, Webster NS et al. Coral-associated viral communities show high levels of diversity and host auxiliary functions. PeerJ. 2017;5:e4054. doi: 10.7717/peerj.4054

Capel E, Barnier JP, Zomer AL, Bole-Feysot C, Nussbaumer T, Jamet A et al. Peripheral blood vessels are a niche for blood-borne meningococci. Virulence. 2017;8(8):1808–1819. Epub 2017 Nov 27. doi: 10.1080/21505594.2017.1391446

2016


Diesner SC, Bergmayr C, Pfitzner B, Assmann V, Krishnamurthy D, Starkl P et al. A distinct microbiota composition is associated with protection from food allergy in an oral mouse immunization model. Clinical Immunology. 2016 Dec;173:10–18. doi: 10.1016/j.clim.2016.10.009

Eder T, Grebien F, Rattei T. NVT: a fast and simple tool for the assessment of RNA-Seq normalization strategies. Bioinformatics. 2016 Aug 11;32(23):3682-3684. doi: 10.1093/bioinformatics/btw521

Weinmaier T, Platzer A, Frank J, Hellinger HJ, Tischler P, Rattei T. ConsPred - a rule-based (re-)annotation framework for prokaryotic genomes. Bioinformatics. 2016 Jul 4;32(21):3327-3329. doi: 10.1093/bioinformatics/btw393

Bulat T, Smidak R, Sialana FJ, Jung G, Rattei T, Bilban M et al. Transcriptomic and Proteomic Analysis of Arion vulgaris-Proteins for Probably Successful Survival Strategies? PLoS ONE. 2016 Mar;11(3):e0150614. doi: 10.1371/journal.pone.0150614

Maixner F, Krause-Kyora B, Turaev D, Herbig A, Hoopmann MR, Hallows JL et al. The 5300-year-old Helicobacter pylori genome of the Iceman. Science. 2016 Jan 8;351(6269):162-165. doi: 10.1126/science.aad2545

Eichinger V, Nussbaumer T, Platzer A, Jehl MA, Arnold R, Rattei T. EffectiveDB-updates and novel features for a better annotation of bacterial secreted proteins and Type III, IV, VI secretion systems. Nucleic Acids Research. 2016 Jan 4;44(D1):D669–D674. doi: 10.1093/nar/gkv1269

Huerta-Cepas J, Szklarczyk D, Forslund K, Cook H, Heller D, Walter MC et al. eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences. Nucleic Acids Research. 2016 Jan 4;44(D1):D286–D293. doi: 10.1093/nar/gkv1248

Capel E, Zomer AL, Nussbaumer T, Bole C, Izac B, Frapy E et al. Comprehensive Identification of Meningococcal Genes and Small Noncoding RNAs Required for Host Cell Colonization. mBio. 2016;7(4):e01173-16. doi: 10.1128/mBio.01173-16

Laffy PW, Wood-Charlson EM, Turaev D, Weynberg KD, Botté ES, van Oppen MJH et al. HoloVir: A Workflow for Investigating the Diversity and Function of Viruses in Invertebrate Holobionts. Frontiers in Microbiology. 2016;7:822. doi: 10.3389/fmicb.2016.00822