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Drying and Rainfall Shape the Structure and Functioning of Nitrifying Microbial Communities in Riverbed Sediments.

Arce MI, von Schiller D, Bengtsson MM, Hinze C, Jung H, Alves RJE, Urich T, Singer G.

Front Microbiol. 2018 Nov 16;9:2794. doi: 10.3389/fmicb.2018.02794. eCollection 2018.


A plant-microbe interaction framework explaining nutrient effects on primary production.

Čapek P, Manzoni S, Kaštovská E, Wild B, Diáková K, Bárta J, Schnecker J, Biasi C, Martikainen PJ, Alves RJE, Guggenberger G, Gentsch N, Hugelius G, Palmtag J, Mikutta R, Shibistova O, Urich T, Schleper C, Richter A, Šantrůčková H.

Nat Ecol Evol. 2018 Oct;2(10):1588-1596. doi: 10.1038/s41559-018-0662-8. Epub 2018 Sep 10.


Holistic Assessment of Rumen Microbiome Dynamics through Quantitative Metatranscriptomics Reveals Multifunctional Redundancy during Key Steps of Anaerobic Feed Degradation.

Söllinger A, Tveit AT, Poulsen M, Noel SJ, Bengtsson M, Bernhardt J, Frydendahl Hellwing AL, Lund P, Riedel K, Schleper C, Højberg O, Urich T.

mSystems. 2018 Aug 7;3(4). pii: e00038-18. doi: 10.1128/mSystems.00038-18. eCollection 2018 Jul-Aug.


Temperature response of permafrost soil carbon is attenuated by mineral protection.

Gentsch N, Wild B, Mikutta R, Čapek P, Diáková K, Schrumpf M, Turner S, Minnich C, Schaarschmidt F, Shibistova O, Schnecker J, Urich T, Gittel A, Šantrůčková H, Bárta J, Lashchinskiy N, Fuß R, Richter A, Guggenberger G.

Glob Chang Biol. 2018 Aug;24(8):3401-3415. doi: 10.1111/gcb.14316. Epub 2018 Jun 1.


Light availability impacts structure and function of phototrophic stream biofilms across domains and trophic levels.

Bengtsson MM, Wagner K, Schwab C, Urich T, Battin TJ.

Mol Ecol. 2018 Jul;27(14):2913-2925. doi: 10.1111/mec.14696. Epub 2018 Jun 4.


Unifying the global phylogeny and environmental distribution of ammonia-oxidising archaea based on amoA genes.

Alves RJE, Minh BQ, Urich T, von Haeseler A, Schleper C.

Nat Commun. 2018 Apr 17;9(1):1517. doi: 10.1038/s41467-018-03861-1.


Chronic Helminth Infection Perturbs the Gut-Brain Axis, Promotes Neuropathology, and Alters Behavior.

Giacomin PR, Kraeuter AK, Albornoz EA, Jin S, Bengtsson M, Gordon R, Woodruff TM, Urich T, Sarnyai Z, Soares Magalhães RJ.

J Infect Dis. 2018 Sep 22;218(9):1511-1516. doi: 10.1093/infdis/jiy092.


Alterations in the Rumen Liquid-, Particle- and Epithelium-Associated Microbiota of Dairy Cows during the Transition from a Silage- and Concentrate-Based Ration to Pasture in Spring.

Schären M, Kiri K, Riede S, Gardener M, Meyer U, Hummel J, Urich T, Breves G, Dänicke S.

Front Microbiol. 2017 May 2;8:744. doi: 10.3389/fmicb.2017.00744. eCollection 2017.


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.


Differential effects of monensin and a blend of essential oils on rumen microbiota composition of transition dairy cows.

Schären M, Drong C, Kiri K, Riede S, Gardener M, Meyer U, Hummel J, Urich T, Breves G, Dänicke S.

J Dairy Sci. 2017 Apr;100(4):2765-2783. doi: 10.3168/jds.2016-11994. Epub 2017 Feb 1.


Low abundance of Archaeorhizomycetes among fungi in soil metatranscriptomes.

Choma M, Bárta J, Šantrůčková H, Urich T.

Sci Rep. 2016 Dec 23;6:38455. doi: 10.1038/srep38455.


Resource Partitioning between Bacteria, Fungi, and Protists in the Detritusphere of an Agricultural Soil.

Kramer S, Dibbern D, Moll J, Huenninghaus M, Koller R, Krueger D, Marhan S, Urich T, Wubet T, Bonkowski M, Buscot F, Lueders T, Kandeler E.

Front Microbiol. 2016 Sep 26;7:1524. eCollection 2016.


Altered carbon turnover processes and microbiomes in soils under long-term extremely high CO2 exposure.

Beulig F, Urich T, Nowak M, Trumbore SE, Gleixner G, Gilfillan GD, Fjelland KE, Küsel K.

Nat Microbiol. 2016 Jan 27;1:15025. doi: 10.1038/nmicrobiol.2015.25.


Unusual Butane- and Pentanetriol-Based Tetraether Lipids in Methanomassiliicoccus luminyensis, a Representative of the Seventh Order of Methanogens.

Becker KW, Elling FJ, Yoshinaga MY, Söllinger A, Urich T, Hinrichs KU.

Appl Environ Microbiol. 2016 Jul 15;82(15):4505-4516. doi: 10.1128/AEM.00772-16. Print 2016 Aug 1.


Plant-derived compounds stimulate the decomposition of organic matter in arctic permafrost soils.

Wild B, Gentsch N, Čapek P, Diáková K, Alves RJ, Bárta J, Gittel A, Hugelius G, Knoltsch A, Kuhry P, Lashchinskiy N, Mikutta R, Palmtag J, Schleper C, Schnecker J, Shibistova O, Takriti M, Torsvik VL, Urich T, Watzka M, Šantrůčková H, Guggenberger G, Richter A.

Sci Rep. 2016 May 9;6:25607. doi: 10.1038/srep25607.


Draft Genome Sequence of "Candidatus Methanomethylophilus" sp. 1R26, Enriched from Bovine Rumen, a Methanogenic Archaeon Belonging to the Methanomassiliicoccales Order.

Noel SJ, Højberg O, Urich T, Poulsen M.

Genome Announc. 2016 Feb 18;4(1). pii: e01734-15. doi: 10.1128/genomeA.01734-15.


Intestinal Microbiota Signatures Associated with Inflammation History in Mice Experiencing Recurring Colitis.

Berry D, Kuzyk O, Rauch I, Heider S, Schwab C, Hainzl E, Decker T, Müller M, Strobl B, Schleper C, Urich T, Wagner M, Kenner L, Loy A.

Front Microbiol. 2015 Dec 15;6:1408. doi: 10.3389/fmicb.2015.01408. eCollection 2015.


Phylogenetic and genomic analysis of Methanomassiliicoccales in wetlands and animal intestinal tracts reveals clade-specific habitat preferences.

Söllinger A, Schwab C, Weinmaier T, Loy A, Tveit AT, Schleper C, Urich T.

FEMS Microbiol Ecol. 2016 Jan;92(1). pii: fiv149. doi: 10.1093/femsec/fiv149. Epub 2015 Nov 26.


Intestinal Epithelial Cell Tyrosine Kinase 2 Transduces IL-22 Signals To Protect from Acute Colitis.

Hainzl E, Stockinger S, Rauch I, Heider S, Berry D, Lassnig C, Schwab C, Rosebrock F, Milinovich G, Schlederer M, Wagner M, Schleper C, Loy A, Urich T, Kenner L, Han X, Decker T, Strobl B, Müller M.

J Immunol. 2015 Nov 15;195(10):5011-24. doi: 10.4049/jimmunol.1402565. Epub 2015 Oct 2.


Pack hunting by a common soil amoeba on nematodes.

Geisen S, Rosengarten J, Koller R, Mulder C, Urich T, Bonkowski M.

Environ Microbiol. 2015 Nov;17(11):4538-46. doi: 10.1111/1462-2920.12949. Epub 2015 Jul 28.


Metabolic and trophic interactions modulate methane production by Arctic peat microbiota in response to warming.

Tveit AT, Urich T, Frenzel P, Svenning MM.

Proc Natl Acad Sci U S A. 2015 May 12;112(19):E2507-16. doi: 10.1073/pnas.1420797112. Epub 2015 Apr 27.


Metatranscriptomic census of active protists in soils.

Geisen S, Tveit AT, Clark IM, Richter A, Svenning MM, Bonkowski M, Urich T.

ISME J. 2015 Oct;9(10):2178-90. doi: 10.1038/ismej.2015.30. Epub 2015 Mar 27.


Adaptation of soil microbial community structure and function to chronic metal contamination at an abandoned Pb-Zn mine.

Epelde L, Lanzén A, Blanco F, Urich T, Garbisu C.

FEMS Microbiol Ecol. 2015 Jan;91(1):1-11. doi: 10.1093/femsec/fiu007. Epub 2014 Dec 5.


Site- and horizon-specific patterns of microbial community structure and enzyme activities in permafrost-affected soils of Greenland.

Gittel A, Bárta J, Kohoutová I, Schnecker J, Wild B, Capek P, Kaiser C, Torsvik VL, Richter A, Schleper C, Urich T.

Front Microbiol. 2014 Oct 16;5:541. doi: 10.3389/fmicb.2014.00541. eCollection 2014.


Input of easily available organic C and N stimulates microbial decomposition of soil organic matter in arctic permafrost soil.

Wild B, Schnecker J, Alves RJ, Barsukov P, Bárta J, Capek P, Gentsch N, Gittel A, Guggenberger G, Lashchinskiy N, Mikutta R, Rusalimova O, Santrůčková H, Shibistova O, Urich T, Watzka M, Zrazhevskaya G, Richter A.

Soil Biol Biochem. 2014 Aug;75(100):143-151.


Metatranscriptomic analysis of arctic peat soil microbiota.

Tveit AT, Urich T, Svenning MM.

Appl Environ Microbiol. 2014 Sep;80(18):5761-72. doi: 10.1128/AEM.01030-14. Epub 2014 Jul 11.


Type I interferons have opposing effects during the emergence and recovery phases of colitis.

Rauch I, Hainzl E, Rosebrock F, Heider S, Schwab C, Berry D, Stoiber D, Wagner M, Schleper C, Loy A, Urich T, Müller M, Strobl B, Kenner L, Decker T.

Eur J Immunol. 2014 Sep;44(9):2749-60. doi: 10.1002/eji.201344401. Epub 2014 Aug 25.


Effects of soil organic matter properties and microbial community composition on enzyme activities in cryoturbated arctic soils.

Schnecker J, Wild B, Hofhansl F, Eloy Alves RJ, Bárta J, Capek P, Fuchslueger L, Gentsch N, Gittel A, Guggenberger G, Hofer A, Kienzl S, Knoltsch A, Lashchinskiy N, Mikutta R, Santrůčková H, Shibistova O, Takriti M, Urich T, Weltin G, Richter A.

PLoS One. 2014 Apr 4;9(4):e94076. doi: 10.1371/journal.pone.0094076. eCollection 2014.


Gene expression of lactobacilli in murine forestomach biofilms.

Schwab C, Tveit AT, Schleper C, Urich T.

Microb Biotechnol. 2014 Jul;7(4):347-59. doi: 10.1111/1751-7915.12126. Epub 2014 Apr 4.


Biochar decelerates soil organic nitrogen cycling but stimulates soil nitrification in a temperate arable field trial.

Prommer J, Wanek W, Hofhansl F, Trojan D, Offre P, Urich T, Schleper C, Sassmann S, Kitzler B, Soja G, Hood-Nowotny RC.

PLoS One. 2014 Jan 30;9(1):e86388. doi: 10.1371/journal.pone.0086388. eCollection 2014.


Rare but active taxa contribute to community dynamics of benthic biofilms in glacier-fed streams.

Wilhelm L, Besemer K, Fasching C, Urich T, Singer GA, Quince C, Battin TJ.

Environ Microbiol. 2014 Aug;16(8):2514-24. doi: 10.1111/1462-2920.12392. Epub 2014 Feb 18.


Longitudinal study of murine microbiota activity and interactions with the host during acute inflammation and recovery.

Schwab C, Berry D, Rauch I, Rennisch I, Ramesmayer J, Hainzl E, Heider S, Decker T, Kenner L, Müller M, Strobl B, Wagner M, Schleper C, Loy A, Urich T.

ISME J. 2014 May;8(5):1101-14. doi: 10.1038/ismej.2013.223. Epub 2014 Jan 9.


Distinct microbial communities associated with buried soils in the Siberian tundra.

Gittel A, Bárta J, Kohoutová I, Mikutta R, Owens S, Gilbert J, Schnecker J, Wild B, Hannisdal B, Maerz J, Lashchinskiy N, Capek P, Santrůčková H, Gentsch N, Shibistova O, Guggenberger G, Richter A, Torsvik VL, Schleper C, Urich T.

ISME J. 2014 Apr;8(4):841-53. doi: 10.1038/ismej.2013.219. Epub 2013 Dec 12.


Nitrogen dynamics in Turbic Cryosols from Siberia and Greenland.

Wild B, Schnecker J, Bárta J, Capek P, Guggenberger G, Hofhansl F, Kaiser C, Lashchinsky N, Mikutta R, Mooshammer M, Santrůčková H, Shibistova O, Urich T, Zimov SA, Richter A.

Soil Biol Biochem. 2013 Dec;67(100):85-93.


Microbial community structure and functioning in marine sediments associated with diffuse hydrothermal venting assessed by integrated meta-omics.

Urich T, Lanzén A, Stokke R, Pedersen RB, Bayer C, Thorseth IH, Schleper C, Steen IH, Ovreas L.

Environ Microbiol. 2014 Sep;16(9):2699-710. doi: 10.1111/1462-2920.12283. Epub 2013 Oct 27.


Responses of the terrestrial ammonia-oxidizing archaeon Ca. Nitrososphaera viennensis and the ammonia-oxidizing bacterium Nitrosospira multiformis to nitrification inhibitors.

Shen T, Stieglmeier M, Dai J, Urich T, Schleper C.

FEMS Microbiol Lett. 2013 Jul;344(2):121-9. doi: 10.1111/1574-6968.12164. Epub 2013 May 20.


Nitrification rates in Arctic soils are associated with functionally distinct populations of ammonia-oxidizing archaea.

Alves RJ, Wanek W, Zappe A, Richter A, Svenning MM, Schleper C, Urich T.

ISME J. 2013 Aug;7(8):1620-31. doi: 10.1038/ismej.2013.35. Epub 2013 Mar 7.


Methylotrophic methanogenic Thermoplasmata implicated in reduced methane emissions from bovine rumen.

Poulsen M, Schwab C, Jensen BB, Engberg RM, Spang A, Canibe N, Højberg O, Milinovich G, Fragner L, Schleper C, Weckwerth W, Lund P, Schramm A, Urich T.

Nat Commun. 2013;4:1428. doi: 10.1038/ncomms2432. Erratum in: Nat Commun. 2013;4:1947.


CREST--classification resources for environmental sequence tags.

Lanzén A, Jørgensen SL, Huson DH, Gorfer M, Grindhaug SH, Jonassen I, Øvreås L, Urich T.

PLoS One. 2012;7(11):e49334. doi: 10.1371/journal.pone.0049334. Epub 2012 Nov 8.


Organic carbon transformations in high-Arctic peat soils: key functions and microorganisms.

Tveit A, Schwacke R, Svenning MM, Urich T.

ISME J. 2013 Feb;7(2):299-311. doi: 10.1038/ismej.2012.99. Epub 2012 Sep 6.


Phylotype-level 16S rRNA analysis reveals new bacterial indicators of health state in acute murine colitis.

Berry D, Schwab C, Milinovich G, Reichert J, Ben Mahfoudh K, Decker T, Engel M, Hai B, Hainzl E, Heider S, Kenner L, Müller M, Rauch I, Strobl B, Wagner M, Schleper C, Urich T, Loy A.

ISME J. 2012 Nov;6(11):2091-106. doi: 10.1038/ismej.2012.39. Epub 2012 May 10.


Metatranscriptomics of the marine sponge Geodia barretti: tackling phylogeny and function of its microbial community.

Radax R, Rattei T, Lanzen A, Bayer C, Rapp HT, Urich T, Schleper C.

Environ Microbiol. 2012 May;14(5):1308-24. doi: 10.1111/j.1462-2920.2012.02714.x. Epub 2012 Feb 24.


Sulfur-oxidizing chemolithotrophic proteobacteria dominate the microbiota in high arctic thermal springs on Svalbard.

Reigstad LJ, Jorgensen SL, Lauritzen SE, Schleper C, Urich T.

Astrobiology. 2011 Sep;11(7):665-78. doi: 10.1089/ast.2010.0551. Epub 2011 Sep 7.


Substrate pathways and mechanisms of inhibition in the sulfur oxygenase reductase of acidianus ambivalens.

Veith A, Urich T, Seyfarth K, Protze J, Frazão C, Kletzin A.

Front Microbiol. 2011 Mar 7;2:37. doi: 10.3389/fmicb.2011.00037. eCollection 2011.


Exploring the composition and diversity of microbial communities at the Jan Mayen hydrothermal vent field using RNA and DNA.

Lanzén A, Jørgensen SL, Bengtsson MM, Jonassen I, Øvreås L, Urich T.

FEMS Microbiol Ecol. 2011 Sep;77(3):577-89. doi: 10.1111/j.1574-6941.2011.01138.x. Epub 2011 Jul 4.


Nitrososphaera viennensis, an ammonia oxidizing archaeon from soil.

Tourna M, Stieglmeier M, Spang A, Könneke M, Schintlmeister A, Urich T, Engel M, Schloter M, Wagner M, Richter A, Schleper C.

Proc Natl Acad Sci U S A. 2011 May 17;108(20):8420-5. doi: 10.1073/pnas.1013488108. Epub 2011 Apr 27.


Functional analysis of metagenomes and metatranscriptomes using SEED and KEGG.

Mitra S, Rupek P, Richter DC, Urich T, Gilbert JA, Meyer F, Wilke A, Huson DH.

BMC Bioinformatics. 2011 Feb 15;12 Suppl 1:S21. doi: 10.1186/1471-2105-12-S1-S21.


Simultaneous assessment of soil microbial community structure and function through analysis of the meta-transcriptome.

Urich T, Lanzén A, Qi J, Huson DH, Schleper C, Schuster SC.

PLoS One. 2008 Jun 25;3(6):e2527. doi: 10.1371/journal.pone.0002527.


Nitrification in terrestrial hot springs of Iceland and Kamchatka.

Reigstad LJ, Richter A, Daims H, Urich T, Schwark L, Schleper C.

FEMS Microbiol Ecol. 2008 May;64(2):167-74. doi: 10.1111/j.1574-6941.2008.00466.x. Epub 2008 Mar 18.


A proteomic approach toward the selection of proteins with enhanced intrinsic conformational stability.

Prosinecki V, Botelho HM, Francese S, Mastrobuoni G, Moneti G, Urich T, Kletzin A, Gomes CM.

J Proteome Res. 2006 Oct;5(10):2720-6.


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