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Items: 1 to 50 of 122

1.

The Iceman's Last Meal Consisted of Fat, Wild Meat, and Cereals.

Maixner F, Turaev D, Cazenave-Gassiot A, Janko M, Krause-Kyora B, Hoopmann MR, Kusebauch U, Sartain M, Guerriero G, O'Sullivan N, Teasdale M, Cipollini G, Paladin A, Mattiangeli V, Samadelli M, Tecchiati U, Putzer A, Palazoglu M, Meissen J, Lösch S, Rausch P, Baines JF, Kim BJ, An HJ, Gostner P, Egarter-Vigl E, Malfertheiner P, Keller A, Stark RW, Wenk M, Bishop D, Bradley DG, Fiehn O, Engstrand L, Moritz RL, Doble P, Franke A, Nebel A, Oeggl K, Rattei T, Grimm R, Zink A.

Curr Biol. 2018 Jul 23;28(14):2348-2355.e9. doi: 10.1016/j.cub.2018.05.067. Epub 2018 Jul 12.

2.

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

Bowers RM, Kyrpides NC, Stepanauskas R, Harmon-Smith M, Doud D, Reddy TBK, Schulz F, Jarett J, Rivers AR, Eloe-Fadrosh EA, Tringe SG, Ivanova NN, Copeland A, Clum A, Becraft ED, Malmstrom RR, Birren B, Podar M, Bork P, Weinstock GM, Garrity GM, Dodsworth JA, Yooseph S, Sutton G, Glöckner FO, Gilbert JA, Nelson WC, Hallam SJ, Jungbluth SP, Ettema TJG, Tighe S, Konstantinidis KT, Liu WT, Baker BJ, Rattei T, Eisen JA, Hedlund B, McMahon KD, Fierer N, Knight R, Finn R, Cochrane G, Karsch-Mizrachi I, Tyson GW, Rinke C; Genome Standards Consortium, Lapidus A, Meyer F, Yilmaz P, Parks DH, Eren AM, Schriml L, Banfield JF, Hugenholtz P, Woyke T.

Nat Biotechnol. 2018 Jul 6;36(7):660. doi: 10.1038/nbt0718-660a. No abstract available.

PMID:
29979671
3.

Oxytocin-like signaling in ants influences metabolic gene expression and locomotor activity.

Liutkevičiūtė Z, Gil-Mansilla E, Eder T, Casillas-Pérez B, Di Giglio MG, Muratspahić E, Grebien F, Rattei T, Muttenthaler M, Cremer S, Gruber CW.

FASEB J. 2018 Jun 25:fj201800443. doi: 10.1096/fj.201800443. [Epub ahead of print]

PMID:
29939785
4.

Characterization of a community-acquired-MRSA USA300 isolate from a river sample in Austria and whole genome sequence based comparison to a diverse collection of USA300 isolates.

Lepuschitz S, Huhulescu S, Hyden P, Springer B, Rattei T, Allerberger F, Mach RL, Ruppitsch W.

Sci Rep. 2018 Jun 21;8(1):9467. doi: 10.1038/s41598-018-27781-8.

5.

Interplay between gut microbiota metabolism and inflammation in HIV infection.

Vázquez-Castellanos JF, Serrano-Villar S, Jiménez-Hernández N, Soto Del Rio MD, Gayo S, Rojo D, Ferrer M, Barbas C, Moreno S, Estrada V, Rattei T, Latorre A, Moya A, Gosalbes MJ.

ISME J. 2018 Aug;12(8):1964-1976. doi: 10.1038/s41396-018-0151-8. Epub 2018 May 23.

PMID:
29789624
6.

Reef invertebrate viromics: diversity, host specificity and functional capacity.

Laffy PW, Wood-Charlson EM, Turaev D, Jutz S, Pascelli C, Botté ES, Bell SC, Peirce TE, Weynberg KD, van Oppen MJH, Rattei T, Webster NS.

Environ Microbiol. 2018 Mar 25. doi: 10.1111/1462-2920.14110. [Epub ahead of print]

PMID:
29575552
7.

Great Cause-Small Effect: Undeclared Genetically Engineered Orange Petunias Harbor an Inefficient Dihydroflavonol 4-Reductase.

Haselmair-Gosch C, Miosic S, Nitarska D, Roth BL, Walliser B, Paltram R, Lucaciu RC, Eidenberger L, Rattei T, Olbricht K, Stich K, Halbwirth H.

Front Plant Sci. 2018 Feb 28;9:149. doi: 10.3389/fpls.2018.00149. eCollection 2018.

8.

Peatland Acidobacteria with a dissimilatory sulfur metabolism.

Hausmann B, Pelikan C, Herbold CW, Köstlbacher S, Albertsen M, Eichorst SA, Glavina Del Rio T, Huemer M, Nielsen PH, Rattei T, Stingl U, Tringe SG, Trojan D, Wentrup C, Woebken D, Pester M, Loy A.

ISME J. 2018 Jun;12(7):1729-1742. doi: 10.1038/s41396-018-0077-1. Epub 2018 Feb 23.

9.

Corrigendum: Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

Bowers RM, Kyrpides NC, Stepanauskas R, Harmon-Smith M, Doud D, Reddy TBK, Schulz F, Jarett J, Rivers AR, Eloe-Fadrosh EA, Tringe SG, Ivanova NN, Copeland A, Clum A, Becraft ED, Malmstrom RR, Birren B, Podar M, Bork P, Weinstock GM, Garrity GM, Dodsworth JA, Yooseph S, Sutton G, Glöckner FO, Gilbert JA, Nelson WC, Hallam SJ, Jungbluth SP, Ettema TJG, Tighe S, Konstantinidis KT, Liu WT, Baker BJ, Rattei T, Eisen JA, Hedlund B, McMahon KD, Fierer N, Knight R, Finn R, Cochrane G, Karsch-Mizrachi I, Tyson GW, Rinke C; Genome Standards Consortium, Lapidus A, Meyer F, Yilmaz P, Parks DH, Eren AM, Schriml L, Banfield JF, Hugenholtz P, Woyke T.

Nat Biotechnol. 2018 Feb 6;36(2):196. doi: 10.1038/nbt0218-196a. No abstract available.

10.

Asian horses deepen the MSY phylogeny.

Felkel S, Vogl C, Rigler D, Jagannathan V, Leeb T, Fries R, Neuditschko M, Rieder S, Velie B, Lindgren G, Rubin CJ, Schlötterer C, Rattei T, Brem G, Wallner B.

Anim Genet. 2018 Feb;49(1):90-93. doi: 10.1111/age.12635. Epub 2018 Jan 15.

PMID:
29333704
11.

Genomic insights into the Acidobacteria reveal strategies for their success in terrestrial environments.

Eichorst SA, Trojan D, Roux S, Herbold C, Rattei T, Woebken D.

Environ Microbiol. 2018 Mar;20(3):1041-1063. doi: 10.1111/1462-2920.14043. Epub 2018 Mar 12.

12.

Growth of Chlamydia pneumoniae Is Enhanced in Cells with Impaired Mitochondrial Function.

Käding N, Kaufhold I, Müller C, Szaszák M, Shima K, Weinmaier T, Lomas R, Conesa A, Schmitt-Kopplin P, Rattei T, Rupp J.

Front Cell Infect Microbiol. 2017 Dec 5;7:499. doi: 10.3389/fcimb.2017.00499. eCollection 2017.

13.

Genome sequencing of Chlamydia trachomatis serovars E and F reveals substantial genetic variation.

Eder T, Kobus S, Stallmann S, Stepanow S, Köhrer K, Hegemann JH, Rattei T.

Pathog Dis. 2017 Dec 29;75(9). doi: 10.1093/femspd/ftx120.

14.

Coral-associated viral communities show high levels of diversity and host auxiliary functions.

Weynberg KD, Laffy PW, Wood-Charlson EM, Turaev D, Rattei T, Webster NS, van Oppen MJH.

PeerJ. 2017 Nov 17;5:e4054. doi: 10.7717/peerj.4054. eCollection 2017.

15.

Peripheral blood vessels are a niche for blood-borne meningococci.

Capel E, Barnier JP, Zomer AL, Bole-Feysot C, Nussbaumer T, Jamet A, Lécuyer H, Euphrasie D, Virion Z, Frapy E, Pélissier P, Join-Lambert O, Rattei T, Bourdoulous S, Nassif X, Coureuil M.

Virulence. 2017 Nov 17;8(8):1808-1819. doi: 10.1080/21505594.2017.1391446. Epub 2017 Nov 27.

PMID:
29099305
16.

Critical Assessment of Metagenome Interpretation-a benchmark of metagenomics software.

Sczyrba A, Hofmann P, Belmann P, Koslicki D, Janssen S, Dröge J, Gregor I, Majda S, Fiedler J, Dahms E, Bremges A, Fritz A, Garrido-Oter R, Jørgensen TS, Shapiro N, Blood PD, Gurevich A, Bai Y, Turaev D, DeMaere MZ, Chikhi R, Nagarajan N, Quince C, Meyer F, Balvočiūtė M, Hansen LH, Sørensen SJ, Chia BKH, Denis B, Froula JL, Wang Z, Egan R, Don Kang D, Cook JJ, Deltel C, Beckstette M, Lemaitre C, Peterlongo P, Rizk G, Lavenier D, Wu YW, Singer SW, Jain C, Strous M, Klingenberg H, Meinicke P, Barton MD, Lingner T, Lin HH, Liao YC, Silva GGZ, Cuevas DA, Edwards RA, Saha S, Piro VC, Renard BY, Pop M, Klenk HP, Göker M, Kyrpides NC, Woyke T, Vorholt JA, Schulze-Lefert P, Rubin EM, Darling AE, Rattei T, McHardy AC.

Nat Methods. 2017 Nov;14(11):1063-1071. doi: 10.1038/nmeth.4458. Epub 2017 Oct 2.

17.

Sulfonolipids as novel metabolite markers of Alistipes and Odoribacter affected by high-fat diets.

Walker A, Pfitzner B, Harir M, Schaubeck M, Calasan J, Heinzmann SS, Turaev D, Rattei T, Endesfelder D, Castell WZ, Haller D, Schmid M, Hartmann A, Schmitt-Kopplin P.

Sci Rep. 2017 Sep 8;7(1):11047. doi: 10.1038/s41598-017-10369-z.

18.

Minimum information about a single amplified genome (MISAG) and a metagenome-assembled genome (MIMAG) of bacteria and archaea.

Bowers RM, Kyrpides NC, Stepanauskas R, Harmon-Smith M, Doud D, Reddy TBK, Schulz F, Jarett J, Rivers AR, Eloe-Fadrosh EA, Tringe SG, Ivanova NN, Copeland A, Clum A, Becraft ED, Malmstrom RR, Birren B, Podar M, Bork P, Weinstock GM, Garrity GM, Dodsworth JA, Yooseph S, Sutton G, Glöckner FO, Gilbert JA, Nelson WC, Hallam SJ, Jungbluth SP, Ettema TJG, Tighe S, Konstantinidis KT, Liu WT, Baker BJ, Rattei T, Eisen JA, Hedlund B, McMahon KD, Fierer N, Knight R, Finn R, Cochrane G, Karsch-Mizrachi I, Tyson GW, Rinke C; Genome Standards Consortium, Lapidus A, Meyer F, Yilmaz P, Parks DH, Eren AM, Schriml L, Banfield JF, Hugenholtz P, Woyke T.

Nat Biotechnol. 2017 Aug 8;35(8):725-731. doi: 10.1038/nbt.3893.

PMID:
28787424
19.

Variant profiling of evolving prokaryotic populations.

Zojer M, Schuster LN, Schulz F, Pfundner A, Horn M, Rattei T.

PeerJ. 2017 Feb 16;5:e2997. doi: 10.7717/peerj.2997. eCollection 2017.

20.

Viruses comprise an extensive pool of mobile genetic elements in eukaryote cell cultures and human clinical samples.

Thannesberger J, Hellinger HJ, Klymiuk I, Kastner MT, Rieder FJJ, Schneider M, Fister S, Lion T, Kosulin K, Laengle J, Bergmann M, Rattei T, Steininger C.

FASEB J. 2017 May;31(5):1987-2000. doi: 10.1096/fj.201601168R. Epub 2017 Feb 8.

PMID:
28179422
21.

Lifestyle and Horizontal Gene Transfer-Mediated Evolution of Mucispirillum schaedleri, a Core Member of the Murine Gut Microbiota.

Loy A, Pfann C, Steinberger M, Hanson B, Herp S, Brugiroux S, Gomes Neto JC, Boekschoten MV, Schwab C, Urich T, Ramer-Tait AE, Rattei T, Stecher B, Berry D.

mSystems. 2017 Jan 31;2(1). pii: e00171-16. doi: 10.1128/mSystems.00171-16. eCollection 2017 Jan-Feb.

22.

Development of a human vasopressin V1a-receptor antagonist from an evolutionary-related insect neuropeptide.

Di Giglio MG, Muttenthaler M, Harpsøe K, Liutkeviciute Z, Keov P, Eder T, Rattei T, Arrowsmith S, Wray S, Marek A, Elbert T, Alewood PF, Gloriam DE, Gruber CW.

Sci Rep. 2017 Feb 1;7:41002. doi: 10.1038/srep41002.

23.

Unraveling the microbial processes of black band disease in corals through integrated genomics.

Sato Y, Ling EY, Turaev D, Laffy P, Weynberg KD, Rattei T, Willis BL, Bourne DG.

Sci Rep. 2017 Jan 17;7:40455. doi: 10.1038/srep40455.

24.

A distinct microbiota composition is associated with protection from food allergy in an oral mouse immunization model.

Diesner SC, Bergmayr C, Pfitzner B, Assmann V, Krishnamurthy D, Starkl P, Endesfelder D, Rothballer M, Welzl G, Rattei T, Eiwegger T, Szépfalusi Z, Fehrenbach H, Jensen-Jarolim E, Hartmann A, Pali-Schöll I, Untersmayr E.

Clin Immunol. 2016 Dec;173:10-18. doi: 10.1016/j.clim.2016.10.009. Epub 2016 Oct 24.

25.

ConsPred: a rule-based (re-)annotation framework for prokaryotic genomes.

Weinmaier T, Platzer A, Frank J, Hellinger HJ, Tischler P, Rattei T.

Bioinformatics. 2016 Nov 1;32(21):3327-3329. Epub 2016 Jul 4.

PMID:
27378292
26.

NVT: a fast and simple tool for the assessment of RNA-seq normalization strategies.

Eder T, Grebien F, Rattei T.

Bioinformatics. 2016 Dec 1;32(23):3682-3684. doi: 10.1093/bioinformatics/btw521. Epub 2016 Aug 11.

27.

Comprehensive Identification of Meningococcal Genes and Small Noncoding RNAs Required for Host Cell Colonization.

Capel E, Zomer AL, Nussbaumer T, Bole C, Izac B, Frapy E, Meyer J, Bouzinba-Ségard H, Bille E, Jamet A, Cavau A, Letourneur F, Bourdoulous S, Rattei T, Nassif X, Coureuil M.

MBio. 2016 Aug 2;7(4). pii: e01173-16. doi: 10.1128/mBio.01173-16.

28.

HoloVir: A Workflow for Investigating the Diversity and Function of Viruses in Invertebrate Holobionts.

Laffy PW, Wood-Charlson EM, Turaev D, Weynberg KD, Botté ES, van Oppen MJ, Webster NS, Rattei T.

Front Microbiol. 2016 Jun 9;7:822. doi: 10.3389/fmicb.2016.00822. eCollection 2016.

29.

Deep metagenome and metatranscriptome analyses of microbial communities affiliated with an industrial biogas fermenter, a cow rumen, and elephant feces reveal major differences in carbohydrate hydrolysis strategies.

Güllert S, Fischer MA, Turaev D, Noebauer B, Ilmberger N, Wemheuer B, Alawi M, Rattei T, Daniel R, Schmitz RA, Grundhoff A, Streit WR.

Biotechnol Biofuels. 2016 Jun 7;9:121. doi: 10.1186/s13068-016-0534-x. eCollection 2016.

30.

High definition for systems biology of microbial communities: metagenomics gets genome-centric and strain-resolved.

Turaev D, Rattei T.

Curr Opin Biotechnol. 2016 Jun;39:174-181. doi: 10.1016/j.copbio.2016.04.011. Epub 2016 Apr 23. Review.

PMID:
27115497
31.

Transcriptomic and Proteomic Analysis of Arion vulgaris--Proteins for Probably Successful Survival Strategies?

Bulat T, Smidak R, Sialana FJ, Jung G, Rattei T, Bilban M, Sattmann H, Lubec G, Aradska J.

PLoS One. 2016 Mar 17;11(3):e0150614. doi: 10.1371/journal.pone.0150614. eCollection 2016.

32.

The 5300-year-old Helicobacter pylori genome of the Iceman.

Maixner F, Krause-Kyora B, Turaev D, Herbig A, Hoopmann MR, Hallows JL, Kusebauch U, Vigl EE, Malfertheiner P, Megraud F, O'Sullivan N, Cipollini G, Coia V, Samadelli M, Engstrand L, Linz B, Moritz RL, Grimm R, Krause J, Nebel A, Moodley Y, Rattei T, Zink A.

Science. 2016 Jan 8;351(6269):162-165. doi: 10.1126/science.aad2545.

33.

A viability-linked metagenomic analysis of cleanroom environments: eukarya, prokaryotes, and viruses.

Weinmaier T, Probst AJ, La Duc MT, Ciobanu D, Cheng JF, Ivanova N, Rattei T, Vaishampayan P.

Microbiome. 2015 Dec 8;3:62. doi: 10.1186/s40168-015-0129-y.

34.

Complete nitrification by Nitrospira bacteria.

Daims H, Lebedeva EV, Pjevac P, Han P, Herbold C, Albertsen M, Jehmlich N, Palatinszky M, Vierheilig J, Bulaev A, Kirkegaard RH, von Bergen M, Rattei T, Bendinger B, Nielsen PH, Wagner M.

Nature. 2015 Dec 24;528(7583):504-9. doi: 10.1038/nature16461. Epub 2015 Nov 26.

35.

EffectiveDB--updates and novel features for a better annotation of bacterial secreted proteins and Type III, IV, VI secretion systems.

Eichinger V, Nussbaumer T, Platzer A, Jehl MA, Arnold R, Rattei T.

Nucleic Acids Res. 2016 Jan 4;44(D1):D669-74. doi: 10.1093/nar/gkv1269. Epub 2015 Nov 20.

36.

probeBase--an online resource for rRNA-targeted oligonucleotide probes and primers: new features 2016.

Greuter D, Loy A, Horn M, Rattei T.

Nucleic Acids Res. 2016 Jan 4;44(D1):D586-9. doi: 10.1093/nar/gkv1232. Epub 2015 Nov 19.

37.

eggNOG 4.5: a hierarchical orthology framework with improved functional annotations for eukaryotic, prokaryotic and viral sequences.

Huerta-Cepas J, Szklarczyk D, Forslund K, Cook H, Heller D, Walter MC, Rattei T, Mende DR, Sunagawa S, Kuhn M, Jensen LJ, von Mering C, Bork P.

Nucleic Acids Res. 2016 Jan 4;44(D1):D286-93. doi: 10.1093/nar/gkv1248. Epub 2015 Nov 17.

38.

Prediction of microbial phenotypes based on comparative genomics.

Feldbauer R, Schulz F, Horn M, Rattei T.

BMC Bioinformatics. 2015;16 Suppl 14:S1. doi: 10.1186/1471-2105-16-S14-S1. Epub 2015 Oct 2.

39.

Transcriptome Profiling of the Endophyte Burkholderia phytofirmans PsJN Indicates Sensing of the Plant Environment and Drought Stress.

Sheibani-Tezerji R, Rattei T, Sessitsch A, Trognitz F, Mitter B.

MBio. 2015 Sep 8;6(5):e00621-15. doi: 10.1128/mBio.00621-15.

40.

Internalization of Pseudomonas aeruginosa Strain PAO1 into Epithelial Cells Is Promoted by Interaction of a T6SS Effector with the Microtubule Network.

Sana TG, Baumann C, Merdes A, Soscia C, Rattei T, Hachani A, Jones C, Bennett KL, Filloux A, Superti-Furga G, Voulhoux R, Bleves S.

MBio. 2015 Jun 2;6(3):e00712. doi: 10.1128/mBio.00712-15.

41.

The genomes of closely related Pantoea ananatis maize seed endophytes having different effects on the host plant differ in secretion system genes and mobile genetic elements.

Sheibani-Tezerji R, Naveed M, Jehl MA, Sessitsch A, Rattei T, Mitter B.

Front Microbiol. 2015 May 12;6:440. doi: 10.3389/fmicb.2015.00440. eCollection 2015.

42.

The Intraperitoneal Transcriptome of the Opportunistic Pathogen Enterococcus faecalis in Mice.

Muller C, Cacaci M, Sauvageot N, Sanguinetti M, Rattei T, Eder T, Giard JC, Kalinowski J, Hain T, Hartke A.

PLoS One. 2015 May 15;10(5):e0126143. doi: 10.1371/journal.pone.0126143. eCollection 2015.

43.

Genomic factors related to tissue tropism in Chlamydia pneumoniae infection.

Weinmaier T, Hoser J, Eck S, Kaufhold I, Shima K, Strom TM, Rattei T, Rupp J.

BMC Genomics. 2015 Apr 7;16:268. doi: 10.1186/s12864-015-1377-8.

44.

pH as a Driver for Ammonia-Oxidizing Archaea in Forest Soils.

Stempfhuber B, Engel M, Fischer D, Neskovic-Prit G, Wubet T, Schöning I, Gubry-Rangin C, Kublik S, Schloter-Hai B, Rattei T, Welzl G, Nicol GW, Schrumpf M, Buscot F, Prosser JI, Schloter M.

Microb Ecol. 2015 May;69(4):879-83. doi: 10.1007/s00248-014-0548-5. Epub 2014 Dec 12.

PMID:
25501889
45.

Complete Genome Sequence of Listeria monocytogenes Lm60, a Strain with an Enhanced Cold Adaptation Capacity.

Tasara T, Weinmaier T, Klumpp J, Rattei T, Stephan R.

Genome Announc. 2014 Dec 4;2(6). pii: e01248-14. doi: 10.1128/genomeA.01248-14.

46.

Biology of a widespread uncultivated archaeon that contributes to carbon fixation in the subsurface.

Probst AJ, Weinmaier T, Raymann K, Perras A, Emerson JB, Rattei T, Wanner G, Klingl A, Berg IA, Yoshinaga M, Viehweger B, Hinrichs KU, Thomas BC, Meck S, Auerbach AK, Heise M, Schintlmeister A, Schmid M, Wagner M, Gribaldo S, Banfield JF, Moissl-Eichinger C.

Nat Commun. 2014 Nov 26;5:5497. doi: 10.1038/ncomms6497.

PMID:
25425419
47.

Phylogenetic and environmental diversity of DsrAB-type dissimilatory (bi)sulfite reductases.

Müller AL, Kjeldsen KU, Rattei T, Pester M, Loy A.

ISME J. 2015 May;9(5):1152-65. doi: 10.1038/ismej.2014.208. Epub 2014 Oct 24.

48.

Recombination drives evolution of the Clostridium difficile 16S-23S rRNA intergenic spacer region.

Janezic S, Indra A, Rattei T, Weinmaier T, Rupnik M.

PLoS One. 2014 Sep 15;9(9):e106545. doi: 10.1371/journal.pone.0106545. eCollection 2014.

49.

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.

Ilmberger N, Güllert S, Dannenberg J, Rabausch U, Torres J, Wemheuer B, Alawi M, Poehlein A, Chow J, Turaev D, Rattei T, Schmeisser C, Salomon J, Olsen PB, Daniel R, Grundhoff A, Borchert MS, Streit WR.

PLoS One. 2014 Sep 10;9(9):e106707. doi: 10.1371/journal.pone.0106707. eCollection 2014.

50.

Functionally relevant diversity of closely related Nitrospira in activated sludge.

Gruber-Dorninger C, Pester M, Kitzinger K, Savio DF, Loy A, Rattei T, Wagner M, Daims H.

ISME J. 2015 Mar;9(3):643-55. doi: 10.1038/ismej.2014.156. Epub 2014 Aug 22.

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