List of Publications

Prof. Dr. Rolf Daniel


432. Baur ST, Markussen S, Di Bartolomeo F, Poehlein A, Baker A, Jenkinson ER, Daniel R, Wentzel A, Dürre P (2022) Increased butyrate production in Clostridium saccharoperbutylacetonicum from lignocellulose-derived sugars. Appl Environ Microbiol 21:e0241921. (doi:10.1128/aem.02419-21)

431. Baur ST, Poehlein A, Renz NJ, Hollitzer SK, Montoya Solano JD, Schiel-Bengelsdorf B, Daniel R, Dürre P (2022) Solvent formation and sol mRNA expression in Clostridium saccharoperbutylacetonicum affected by the long non-coding RNA Assolrna. Front Genet . (doi:10.3389/fgene.2022.966643)

430. Breisch J, Schumm C, Poehlein A, Daniel R, Averhoff B (2022) The carnitine degradation pathway of Acinetobacter baumannii and its role in virulence. Environ Microbiol 24(9):4437-4448. (doi:10.1111/1462-2920.16075)

429. Chacón FI, Sineli PE, Mansilla FI, Pereyra MM, Diaz MA, Volentini SI, Poehlein A, Meinhardt F, Daniel R, Dib JR (2022) Native cultivable bacteria from the blueberry microbiome as novel potential biocontrol agents. Microorganisms 10(5):969. (doi:10.3390/microorganisms10050969)

428. Dlugosch L, Poehlein A, Wemheuer B, Pfeiffer B, Badewien TH, Daniel R, Simon M (2022) Significance of gene variants for the functional biogeography of the near-surface Atlantic Ocean microbiome. Nat Commun 11:1186. (doi:10.1038/s41467-022-28128-8)

427. Eze MO, Thiel V, Hose GC, George SC, Daniel R (2022) Enhancing rhizoremediation of petroleum hydrocarbons through bioaugmentation with a plant growth-promoting bacterial consortium. Chemosphere 289:133143. (doi:10.1016/j.chemosphere.2021.133143)

426. Eze MO, Thiel V, Hose GC, George SC, Daniel R (2022) Bacteria-plant interactions synergistically enhance biodegradation of diesel fuel hydrocarbons. Commun Earth Environ 3:192. (doi:10.1038/s43247-022-00526-2)

425. Fussmann D, von Hoyningen-Huene AJE, Reimer A, Schneider D, Karius V, Riechelmann S, Pederson CH, Swart PK, Daniel R, Arp G (2022) Decoupling of pore water chemistry, bacterial community profiles, and carbonate mud diagenesis in a land-locked pool on Aldabra (Seychelles, Indian Ocean). Geomicrobiol J 1-19. (doi:10.1080/01490451.2022.2070689)

424. Gudzuhn M, Alio I, Moll R, de Vries J, Boehlich J, Assmann M, Janneschütz J, Schützenmeister N, Himmelbach A, Poehlein A, Daniel R, Streit WR (2022) Molecular insight into gene response of diorcinol- and rubrolide-treated biofilms of the emerging pathogen Stenotrophomonas maltophilia. Microbiol Spectr 26:e0258221. (doi:10.1128/spectrum.02582-21)

423. Guzman J, Ortúzar M, Poehlein A, Daniel R, Trujillo ME, Vilcinskas A (2022) Agromyces archimandritae sp. nov., isolated from the cockroach Archimandrita tessellata. Int J Syst Evol Microbiol 72(3):005283. (doi:10.1099/ijsem.0.005283)

422. Hertel R, Schöne K, Mittelstädt C, Meißner J, Zschoche N, Collignon M, Kohler C, Friedrich I, Schneider D, Hoppert M, Kuhn R, Schwedt I, Scholz P, Poehlein A, Martienssen M, Ischebeck T, Daniel R, Commichau FM (2022) Characterization of glyphosate-resistant Burkholderia anthina and Burkholderia cenocepacia isolates from a commercial Roundup® solution. Environ Microbiol Rep 14(1):70-84. (doi:10.1111/1758-2229.13022)

421. Hosang L, Canals RC, van der Flier FJ, Hollensteiner J, Daniel R, Flügel A, Odoardi F (2022) The lung microbiome regulates brain autoimmunity. Nature . (doi:10.1038/s41586-022-04427-4)

420. Lu M, Schneider D, Daniel R (2022) Metagenomic screening for lipolytic genes reveals an ecology-clustered distribution pattern. Front Microbiol 851969. (doi:10.3389/fmicb.2022.851969)

419. Murillo T, Schneider D, Fichtel C, Daniel R (2022) Dietary shifts and social interactions drive temporal fluctuations of the gut microbiome from wild redfronted lemurs. ISME COMMUN 2:3. (doi:10.1038/s43705-021-00086-0)

418. Pérez CAR, Janz D, Schneider D, Daniel R, Polle A (2022) Transcriptional landscape of ectomycorrhizal fungi and their host provides insight into N uptake from forest soil. mSystems 7(1):e00957-21. (doi:10.1128/mSystems.00957-21)

417. Rosenbaum FP, Poehlein A, Daniel R, Müller V (2022) Energy-conserving dimethyl sulfoxide reduction in the acetogenic bacterium Moorella thermoacetica. Environ Microbiol . (doi:10.1111/1462-2920.15971)

416. Rudolph K, Schneider D, Fichtel C, Daniel R, Heistermann M, Kappeler PM (2022) Drivers of gut microbiome variation within and between groups of a wild Malagasy primate. Microbiome 10:28. (doi:10.1186/s40168-021-01223-6)

415. Ryadin AR, Janz D, Schneider D, Tjoa A, Irawan B, Daniel R, Polle A (2022) Early effects of fertilizer and herbicide reduction on root-associated biota in oil palm plantations. Agronomy 12(1):199. (doi:10.3390/agronomy12010199)

414. Sadoughi B, Schneider D, Daniel R, Schülke O, Ostner J (2022) Aging gut microbiota of wild macaques are equally diverse, less stable, but progressively personalized. Microbiome 10:95. (doi:10.1186/s40168-022-01283-2)

413. Schöne C, Poehlein A, Jehmlich N, Adlung N, Daniel R, von Bergen M, Scheller S, Rother M (2022) Deconstructing Methanosarcina acetivorans into an acetogenic archaeon. PNAS 119(2):e2113853119. (doi:10.1073/pnas.2113853119)

412. Tebbe DA, Geihser S, Wemheuer B, Daniel R, Schäfer H, Engelen B (2022) Seasonal and zonal succession of bacterial communities in North Sea salt marsh sediments. Microorganisms 10:859. (doi:10.3390/ microorganisms10050859)

411. Varaljay VA, Charles TC, Daniel R (2022) Editorial: Functional Metagenomics for Enzyme Discovery. Front Microbiol 13:956106. (doi:10.3389/fmicb.2022.956106)

410. von Hoyningen‑Huene AJE, Schneider D, Fussmann D, Reimer A, Arp G, Daniel R (2022) DNA‑ and RNA‑based bacterial communities and geochemical zonation under changing sediment porewater dynamics on the Aldabra Atoll. Sci Rep 12:4257. (doi:10.1038/s41598-022-07980-0)

409. Wang S, Schneider D, Hartke TR, Ballauff J, de Melo Moura CC, Schulz G, Li Z, Polle A, Daniel R, Gailing O, Irawan B, Scheu S, Krashevska V (2022) Optimising High-throughput sequencing data analysis, from gene database selection to the analysis of compositional data: A case study on tropical soil nematodes. SSRN preprint . (doi:10.2139/ssrn.4078698)

408. Werner KA, Poehlein A, Schneider D, El-Said K, Wöhrmann M, Linkert I, Hübner T, Brüggemann N, Prost K, Daniel R, Grohmann E (2022) Thermophilic composting of human feces: development of bacterial community composition and antimicrobial resistance gene pool. Front Microbiol 13:824834. (doi:10.3389/fmicb.2022.824834)

407. Werner KA, Schneider D, Poehlein A, Diederich N, Feyen L, Axtmann K, Hübner T, Brüggemann N, Prost K, Daniel R, Grohmann E (2022) Metagenomic insights into the changes of antibiotic resistance and pathogenicity factor pools upon thermophilic composting of human excreta. Front Microbiol 13:826071. (doi:10.3389/fmicb.2022.826071)

406. Alio I, Gudzuhn M, Pérez García P, Danso D, Schoelmerich M, Mamat U, Schaible UE, Steinmann J, Yero D, Gibert I, Kohl TA, Niemann S, Gröschel MI, Haerdter J, Hackl T, Vollstedt CH, Bömeke M, Egelkamp R, Daniel R, Poehlein A, Streit WR (2021) Erratum for "Phenotypic and transcriptomic analysis of seven clinical Stenotrophomonas maltophilia isolates identify a small set of shared and commonly regulated genes involved in biofilm lifestyle". Appl Environ Microbiol 87(18):e0130421. (doi:10.1128/AEM.01304-21)

405. Aloo BN, Mbega ER, Makumba BA, HertelR, Daniel R (2021) Molecular identification and in vitro plant growth-promoting activities of culturable potato (Solanum tuberosum L.) rhizobacteria in Tanzania. Potato Res 64:67–95. (doi:10.1007/s11540-020-09465-x)

404. Ballauff J, Schneider D, Edy N, Irawan B, Daniel R, Polle A (2021) Shifts in root and soil chemistry drive the assembly of belowground fungal communities in tropical land-use systems. Soil Biol Biochem 154:108140. (doi:10.1016/j.soilbio.2021.108140)

403. Benda M, Woelfel S, Faßhauer P, Gunka K, Klumpp S, Poehlein A, Kálalová D, Šanderová H, Daniel R, Krásný L, Stülke J (2021) Quasi-essentiality of RNase Y in Bacillus subtilis is caused by its critical role in the control of mRNA homeostasis. Nucleic Acids Res 49(12):7088-7102. (doi:10.1093/nar/gkab528)

402. Borges LMS, Pfeiffer B, Pandur S, Toubarro D, Tanase A-M, Chiciudean I, Menzel MN, Hoppert M, Daniel R, Simões N, Altermark B (2021) A picture is worth a thousand words: novel photographic evidence on the anatomy of the digestive system of three shipworm species (Bivalvia, Teredinidae). Zoomorphol 140:469-485. (doi:10.1007/s00435-021-00540-6)

401. Chea L, Pfeiffer B, Schneider D, Daniel R, Pawelzik E, Naumann M (2021) Morphological and metabolite responses of potatoes under various phosphorus levels and their amelioration by plant growth-promoting rhizobacteria. Int J Mol Sci 22:5162. (doi:10.3390/ijms22105162)

400. Clausing S, Likulunga LE, Janz D, Feng HY, Schneider D, Daniel R, Krüger J, Lang F, Polle A (2021) Impact of nitrogen and phosphorus addition on resident soil and root mycobiomes in beech forests. Biol Fertil Soils 57:1031–1052. (doi:10.1007/s00374-021-01593-x)

399. Eze MO, Hose GC, George SC, Daniel R (2021) Diversity and metagenome analysis of a hydrocarbon‑degrading bacterial consortium from asphalt lakes located in Wietze, Germany. AMB Express 11:89. (doi:10.1186/s13568-021-01250-4)

398. Faßhauer P, Busche T, Kalinowski J, Mäder U, Poehlein A, Daniel R, Stülke J (2021) Functional redundancy and specialization of the conserved cold shock proteins in Bacillus subtilis. Microorganisms 9(7):1434. (doi:10.3390/microorganisms9071434)

397. Friedrich I, Bodenberger B, Neubauer H, Hertel R, Daniel R (2021) Down in the pond: Isolation and characterization of a new Serratia marcescens strain (LVF3) from the surface water near frog’s lettuce (Groenlandia densa). PLoS One 16(11):e0259673. (doi:10.1371/journal.pone.0259673)

396. Friedrich I, Hollensteiner J, Scherf J, Weyergraf J, Klassen A, Poehlein A, Hertel R, Daniel R (2021) Complete genome sequence of Stenotrophomonas indicatrix DAIF1. Microbiol Resour Announc 10(6):e01484-20. (doi:10.1128/MRA.01484-20)

395. Friedrich I, Klassen A, Neubauer H, Schneider D, Hertel R, Daniel R (2021) Living in a puddle of mud: isolation and characterization of two novel Caulobacteraceae strains Brevundimonas pondensis sp. nov. and Brevundimonas goettingensis sp. nov.. Appl Microbiol 1:38-59. (doi:10.3390/applmicrobiol1010005)

394. Göbbels L, Poehlein A, Dumnitch A, Egelkamp R, Kröger C, Haerdter J, Hackl T, Feld A, Weller H, Daniel R, Streit WR, Schoelmerich MC (2021) Cysteine: an overlooked energy and carbon source. Sci Rep 11:2139. (doi:10.1038/s41598-021-81103-z)

393. Guzman J, Sombolestani AS, Poehlein A, Daniel R, Cleenwerck I, Vandamme P, Vilcinskas A (2021) Entomobacter blattae gen. nov., sp. nov., a new member of the Acetobacteraceae isolated from the gut of the cockroach Gromphadorhina portentosa. Int J Syst Evol Microbiol 71(3):. (doi:10.1099/ijsem.0.004666)

392. Harting R, Starke J, Kusch H, Pöggeler S, Maurus I, Schlüter R, Landesfeind M, Bulla I, Nowrousian M, de Jonge R, Stahlhut G, Hoff KJ, Aßhauer KP, Thürmer A, Stanke M, Daniel R, Morgenstern B, Thomma BPHJ, Kronstad JW, Braus-Stromeyer SA, Braus GH (2021) A 20-kb lineage-specific genomic region tames virulence in pathogenic amphidiploid Verticillium longisporum. Mol Plant Pathol 00:1–15. (doi:10.1111/mpp.13071)

391. Hollensteiner J, Friedrich I, Hollstein L, Lamping J-P,Wolf K, Liesegang H, Poehlein A, Hertel R, Daniel R (2021) Complete genome sequence of Kinneretia sp. strain DAIF2, isolated from a freshwater pond. Microbiol Resour Announc 10(8):e00003-21. (doi:10.1128/MRA.00003-21)

390. Khokon AM, Schneider D, Daniel R, Polle A (2021) Soil layers matter: Vertical stratification of root-associated fungal assemblages in temperate forests reveals differences in habitat colonization. Microorganisms 9(10):2131. (doi:10.3390/microorganisms9102131)

389. Krüger L, Herzberg Ch, Rath H, Pedreira T, Ischebeck T, Poehlein A, Gundlach J, Daniel R, Völker U, Mäder U, Stülke J (2021) Essentiality of c-di-AMP in Bacillus subtilis: Bypassing mutations converge in potassium and glutamate homeostasis. PLoS Genetics 17:e1009092. (doi:10.1371/journal.pgen.1009092)

388. Lu M, Daniel R (2021) A novel carboxylesterase derived from a compost metagenome exhibiting high stability and activity towards high salinity. Genes 12:122. (doi:10.3390/ genes12010122)

387. Michalik S, Reder A, Richts B, Faßhauer P, Mäder U, Pedreira T, Poehlein A, van Heel AJ, van Tilburg AY, Altenbuchner J, Klewing A, Reuß DR, Daniel R, Commichau FM, Kuipers OP, Hamoen LW, Völker U, Stülke J (2021) The Bacillus subtilis minimal genome compendium. ACS Synth Biol . (doi:10.1021/acssynbio.1c00339)

386. Moon J, Dönig J, Kramer S, Poehlein A, Daniel R, Müller V (2021) Formate metabolism in the acetogenic bacterium Acetobacterium woodii. Environ Microbiol . (doi:10.1111/1462-2920.15598)

385. Pereyra MM, Díaz MA, Soliz-Santander FF, Poehlein A, Meinhardt F, Daniel R, Dib JR (2021) Screening methods for isolation of biocontrol epiphytic yeasts against Penicillium digitatum in lemons. J Fungi 7(3):166. (doi:10.3390/jof7030166)

384. Perez MF, Saona LA, Farías ME, Poehlein A, Meinhardt F, Daniel R, Dib JR (2021) Assessment of the plasmidome of an extremophilic microbial community from the Diamante Lake, Argentina. Sci Rep 11:21459. (doi:10.1038/s41598-021-00753-1)

383. Petruschke H, Schori C, Canzler S, Riesbeck S, Poehlein A, Daniel R, Frei D, Segessemann T, Zimmerman J, Marinos G, Kaleta C, Jehmlich N, Ahrens CH, von Bergen M (2021) Discovery of novel community-relevant small proteins in a simplified human intestinal microbiome. Microbiome 9:55. (doi:10.1186/s40168-020-00981-z)

382. Richts B, Lentes S, Poehlein A, Daniel R, Commichau FM (2021) A Bacillus subtilis ΔpdxT mutant suppresses vitamin B6 limitation by acquiring mutations enhancing pdxS gene dosage and ammonium assimilation. Environ Microbiol Rep . (doi:10.1111/1758-2229.12936)

381. Rosenbaum FP, Poehlein A, Egelkamp R, Daniel R, Harder S, Schlüter H, Schoelmerich MC (2021) Lactate metabolism in strictly anaerobic microorganisms with a soluble NAD+-dependent l-lactate dehydrogenase. Environ Microbiol 23(8):4661-4672. (doi:10.1111/1462-2920.15657)

380. Schneider D, Zühlke D, Poehlein A, Riedel K, Daniel R (2021) Metagenome-assembled genome sequences from different wastewater treatment stages in Germany. Microbiol Resour Announc 10(27):e00504-21. (doi:10.1128/MRA.00504-21)

379. TrifunoviĆ D, Moon J, Poehlein A, Daniel R, Müller V (2021) Growth of the acetogenic bacterium Acetobacterium woodii on glycerol and dihydroxyacetone. Environ Microbiol . (doi:10.1111/1462-2920.15503)

378. von Hoyningen-Huene AJE, Schlotthauer TJ, Schneider D, Poehlein A, Daniel R (2021) Pontibacillus sp. ALD_SL1 and Psychroflexus sp. ALD_RP9, two novel moderately halophilic bacteria isolated from sediment and water from the Aldabra Atoll, Seychelles. PLoS One 16(8):e0256639. (doi:10.1371/journal.pone.0256639)

377. Wolter LA, Mitulla M, Kalem J, Daniel R, Simon M, Wietz M (2021) CAZymes in Maribacter dokdonensis 62-1 from the Patagonian shelf: Genomics and physiology compared to related flavobacteria and a co-occurring Alteromonas strain. Front Microbiol 12:628055. (doi:10.3389/fmicb.2021.628055)

376. Wolter LA, Wietz M, Ziesche L, Breider S, Leinberger J, Poehlein A, Daniel R, Schulz S, Brinkhoff T (2021) Pseudooceanicola algae sp. nov., isolated from the marine macroalga Fucus spiralis, shows genomic and physiological adaptations for an algae-associated lifestyle. Syst Appl Microbiol 44(1):126166. (doi:10.1016/j.syapm.2020.126166)

375. Alio I, Gudzuhn M, Pérez García P, Danso D, Schoelmerich M, Mamat U, Schaible UE, Steinmann J, Yero D, Gibert I, Kohl TA, Niemann S, Gröschel MI, Haerdter J, Hackl T, Vollstedt CH, Bömeke M, Egelkamp R, Daniel R, Poehlein A, Streit WR (2020) Phenotypic and transcriptomic analysis of seven clinical Stenotrophomonas maltophilia isolates identify a small set of shared and commonly regulated genes involved in biofilm lifestyle. Appl Environ Microbiol 86:e02038-20. (doi:10.1128/AEM.02038-20)

374. Aloo BN, Mbega ER, Makumba BA, Friedrich I, Hertel R, Daniel R (2020) Whole-genome sequences of three plant growth-promoting rhizobacteria isolated from Solanum tuberosum L. rhizosphere in Tanzania. Microbiol Resour Announc 9(20):e00371-20. (doi:10.1128/MRA.00371-20)

373. Ballau ff J, Zemp DC, Schneider D, Irawan B, Daniel R, Polle A (2020) Legacy effects overshadow tree diversity effects on soil fungal communities in oil palm-enrichment plantations. Microorganisms 8(10):E1577. (doi:10.3390/microorganisms8101577)

372. Berkelmann D, Schneider D, Hennings N, Meryandini A, Daniel R (2020) Soil bacterial community structures in relation to different oil palm management practices. Sci Data 7:421. (doi:10.1038/s41597-020-00752-3)

371. Berkelmann D, Schneider D, Meryandini A, Daniel R (2020) Unravelling the effects of tropical land use conversion on the soil microbiome. Environ Microbiome 15:5. (doi:10.1186/s40793-020-0353-3)

370. Egelkamp R, Friedrich I, Hertel R, Daniel R (2020) From sequence to function: a new workflow for nitrilase identification. Appl Microbiol Biotechnol 104:4957–4970. (doi:10.1007/s00253-020-10544-9)

369. Eze MO, Lütgert SA, Neubauer H, Balouri A, Kraft AA, Sieven A, Daniel R, Wemheuer B (2020) Metagenome assembly and metagenome-assembled genome sequences from a historical oil field located in Wietze, Germany. Microbiol Resour Announc 9(21):e00333-20. (doi:10.1128/MRA.00333-20)

368. Flaiz M, Baur T, Brahner S, Poehlein A, Daniel R, Bengelsdorf FR (2020) Caproicibacter fermentans gen. nov., sp. nov., a new caproate- producing bacterium and emended description of the genus Caproiciproducens. Int J Syst Evol Microbiol 70(7):4269–4279. (doi:10.1099/ijsem.0.004283)

367. Friedrich I, Hollensteiner J, Schneider D, Poehlein A, Hertel R, Daniel R (2020) First complete genome sequences of Janthinobacterium lividum EIF1 and EIF2 and their comparative genome analysis. Genome Biol Evol 12(10):1782-1788. (doi:10.1093/gbe/evaa148)

366. Fussmann D, von Hoyningen-Huene A, Reimer A, Schneider D, Babková H, Peticzka R, Maier A, Arp G, Daniel R, Meister P (2020) Authigenic formation of Ca–Mg carbonates in the shallow alkaline Lake Neusiedl, Austria. Biogeosciences 17:2085–2106. (doi:10.5194/bg-17-2085-2020)

365. Grass I, Kubitza C, Krishna VV, Corre MD, Mußhoff O, Pütz P, Drescher J, Rembold K, Ariyanti ES, Barnes AD, Brinkmann N, Brose U, Brümmer B, Buchori D, Daniel R, Darras KFA, Faust H, Fehrmann L, Hein J, Hennings N, Hidayat P, Hölscher D, Jochum M, Knohl A, Kotowska MM, Krashevska V, Kreft H, Leuschner C, Lobite NJS, Panjaitan R, Polle A, Potapov AM, Purnama E, Qaim M, Röll Al, Scheu S, Schneider D, Tjoa A, Tscharntke T, Veldkamp E, Wollni M (2020) Trade-offs between multifunctionality and profit in tropical smallholder landscapes. Nat Commun 11:1186. (doi:10.1038/s41467-020-15013-5)

364. Hollensteiner J, Poehlein A, Kloskowski P, Tammam Ali T, Daniel R (2020) Genome sequence of Komagataeibacter saccharivorans strain JH1, isolated from fruit flies. Microbiol Resour Announc 9(13):e00098-20. (doi:10.1128/MRA.00098-20)

363. Hollensteiner J, Schneider D, Poehlein A, Daniel R (2020) Complete genome of Roseobacter ponti DSM 106830T. Genome Biol Evol 12(7):1013-1018. (doi:10.1093/gbe/evaa114)

362. Klewing A, Koo BM , Krüger L, Poehlein A, Reuß D, Daniel R, Gross CA, Stülke J (2020) Resistance to serine in Bacillus subtilis: identification of the serine transporter YbeC and of a metabolic network that links serine and threonine metabolism. Environ Microbiol 22(8):3937-3949. (doi:10.1111/1462-2920.15179)

361. Krüger L, Herzberg C, Warneke R, Poehlein A, Stautz J, Weiß M, Daniel R, Hänelt I, Stülke J (2020) Two ways to convert a low- to a high-affinity potassium channel: Control of Bacillus subtilis KtrCD by glutamate. J Bacteriol 202(12):e00138-20. (doi:10.1128/JB.00138-20)

360. Müller K, Kubsch N, Marhan S, Mayer-Gruner P, Nassal P, Schneider D, Daniel R, Piepho H-P, Polle A and Kandeler E (2020) Saprotrophic and ectomycorrhizal fungi contribute differentially to organic P mobilization in beech-dominated forest ecosystems. Front For Glob Change 3:47. (doi:10.3389/ffgc.2020.00047)

359. Nacke H, Kirck LL,Schwarz S, Schneider D, Poehlein A, Daniel R (2020) Metagenome sequences of a wastewater treatment plant digester sludge-derived enrichment culture. Microbiol Resour Announc 9(32):e00712-20. (doi:10.1128/MRA.00712-20)

358. Nguyen DQ, Schneider D, Brinkmann N, Song B, Janz D, Schöning I, Daniel R, Pena R, Polle A (2020) Soil and root nutrient chemistry structure root-associated fungal assemblages in temperate forests. Environ Microbiol 22(8):3081-3095. (doi:10.1111/1462-2920.15037)

357. Perez MF, Kurth D, Farías ME, Soria MN, Castillo Villamizar GA, Poehlein A, Daniel R, Dib JR (2020) First report on the plasmidome from a high-altitude lake of the Andean Puna. Front Microbiol 11:1343. (doi:10.3389/fmicb.2020.01343)

356. Poehlein A, Hollensteiner J, Dreyer A, Gavrilova I, Daniel R (2020) Complete genome sequence of Sporomusa termitida DSM 4440T. Microbiol Resour Announc 9(11):e00046-20. (doi:10.1128/MRA.00046-20)

355. Redl S, Poehlein A, Esser C, Bengelsdorf FR, Jensen TØ, Jendresen CB, Tindall BJ, Daniel R, Dürre P, Nielsen AT (2020) Genome-based comparison of all species of the genus Moorella, and status of the species Moorella thermoacetica and Moorella thermoautotrophica. Front Microbiol 10:3070. (doi:10.3389/fmicb.2019.03070)

354. Richts B, Hertel R, Potot S, Poehlein A, Daniel R, Schyns G, Pragai Z, Commichau FM (2020) Complete genome sequence of the prototrophic Bacillus subtilis subsp. subtilis strain SP1. Microbiol Resour Announc 9(32):e00825-20. (doi:10.1128/MRA.00825-20)

353. Salgar-Chaparro SJ, Castillo-Villamizar G, Poehlein A, Daniel R, Machuca LL (2020) Complete genome sequence of Pseudomonas balearica strain EC28, an iron-oxidizing bacterium isolated from corroded steel. Microbiol Resour Announc 9(19):e00275-20. (doi:10.1128/MRA.00275-20)

352. Salgar-Chaparro SJ, Castillo-Villamizar G, Poehlein A, Daniel R, Machuca LL (2020) Draft genome sequence of Enterobacter roggenkampii strain OS53, isolated from corroded pipework at an offshore oil production facility. Microbiol Resour Announc 9(34):e00583-20. (doi:10.1128/MRA.00583-20)

351. Salgar-Chaparro SJ, Castillo-Villamizar G, Poehlein A, Daniel R, Machuca LL (2020) Complete genome sequence of Shewanella chilikensis strain DC57, isolated from corroded seal rings at a floating oil production system in Australia. Microbiol Resour Announc 9(38):e00584-20. (doi:10.1128/MRA.00584-20)

350. Schneider D, Aßmann N, Wicke D, Poehlein A, Daniel R (2020) Metagenomes of wastewater at different treatment stages in Central Germany. Microbiol Resour Announc 9(15):e00201-20. (doi:10.1128/MRA.00201-20)

349. Schneider D, Zühlke D, Petscheleit T, Poehlein A, Riedel K, Daniel R (2020) Complete genome sequence of Escherichia coli GW-AmxH19, isolated from hospital wastewater in Greifswald, Germany. Microbiol Resour Announc 9(21):e00279-20. (doi:10.1128/MRA.00279-20)

348. Schüler MA, Stegmann BA, Poehlein A, Daniel R, Dürre P (2020) Genome sequence analysis of the temperate bacteriophage TBP2 of the solvent producer Clostridium saccharoperbutylacetonicum N1-4 (HMT, ATCC 27021). FEMS Microbiol Lett 367(14):fnaa103. (doi:10.1093/femsle/fnaa103)

347. Tiede J, Diepenbruck M, Gadaub J, Wemheuer B, Daniel R, Scherber C (2020) Seasonal variation in the diet of the serotine bat (Eptesicus serotinus): A high-resolution analysis using DNA metabarcoding. Basic Appl Ecol 49:1-12. (doi:10.1016/j.baae.2020.09.004)

346. Wemheuer F, Berkelmann D, Wemheuer B, Daniel R, Vidal S, Bisseleua Daghela HB, (2020) Agroforestry management systems drive the composition, diversity, and function of fungal and bacterial endophyte communities in Theobroma cacao leaves. Microorganisms 8(3):405. (doi:10.3390/microorganisms8030405)

345. Wemheuer, F., Taylor, J.A., Daniel, R, Johnston E, Meinicke P, Thomas T, Wemheuer B (2020) Tax4Fun2: prediction of habitat-specific functional profiles and functional redundancy based on 16S rRNA gene sequences. Environ Microbiome 15:11. (doi:10.1186/s40793-020-00358-7)

344. Wischer D, Schneider D, Poehlein A, Herrmann F, Oruc H, Meinhardt J, Wagner O, Kharin S, Novikova N, Haag R, Daniel R, Grohmann E (2020) Novel antimicrobial cellulose fleece inhibits growth of human-derived biofilm-forming Staphylococci during the SIRIUS19 simulated space mission. Front Microbiol 11:1626. (doi:10.3389/fmicb.2020.01626)

343. Wübbeler JH, Oppermann-Sanio FB, Ockenfels A, Röttig A, Osthaar-Ebker A, Verbarg S, Poehlein A, Madkour MH, Al-Ansari AM, Almakishah NH, Daniel R, Steinbüchel A (2020) Corrigendum: Sphingomonas jeddahensis sp. nov., isolated from Saudi Arabian desert soil. Int J Syst Evol Microbiol 70(4):2955. (doi:10.1099/ijsem.0.004039)

342. Bakenhus I, Wemheuer B, Akyol P, Giebel HA, Dlugosch L, Daniel R, Simon M (2019) Distinct relationships between fluorescence in situ hybridization and 16S rRNA gene- and amplicon-based sequencing data of bacterioplankton lineages. Syst Appl Microbiol 42(5):126000. (doi:10.1016/j.syapm.2019.06.005)

341. Bengelsdorf FR, Poehlein A, Daniel R, Dürre P (2019) Genome sequence of the caproic acid-producing bacterium Caproiciproducens galactitolivorans BS-1(T) (JCM 30532). Microbiol Resour Announc 8(31):e00346-19. (doi:10.1128/MRA.00346-19)

340. Bischoff V, Bunk B, Meier-Kolthoff JP, Spröer C, Poehlein A, Dogs M, Nguyen M, Petersen J, Daniel R, Overmann J, Göker M, Simon M, Brinkhoff T, Moraru C (2019) Cobaviruses – a new globally distributed phage group infecting Rhodobacteraceae in marine ecosystems. ISME J 13:1404–1421. (doi:10.1038/s41396-019-0362-7)

339. Brinkmann N, Schneider D, Sahner J, Ballauff J, Edy N, Barus H, Irawan B, Budi SW, Qaim M, Daniel R, Polle A (2019) Intensive tropical land use massively shifts soil fungal communities. Sci Rep 9:3403. (doi:10.1038/s41598-019-39829-4)

338. Castillo Villamizar GA, Funkner K, Nacke H, Foerster K, Daniel R (2019) Functional metagenomics reveals a new catalytic domain, the metallo-β-lactamase superfamily domain, associated with phytase activity. mSphere 4(3):e00167-19. (doi:10.1128/mSphere.00167-19)

337. Castillo Villamizar GA, Nacke H, Boehning M, Herz K, Daniel R (2019) Functional metagenomics reveals an overlooked diversity and novel features of soil-derived bacterial phosphatases and phytases. mBio 10:e01966-18. (doi:10.1128/mBio.01966-18)

336. Castillo Villamizar GA, Nacke H, Griese L, Tabernero L, Funkner K, Daniel R (2019) Characteristics of the first protein tyrosine phosphatase with phytase activity from a soil metagenome. Genes 10:101. (doi:10.3390/genes10020101)

335. Dinter T, Geihser S, Gube M, Daniel R, Kuzyakov Y (2019) Impact of sea level change on coastal soil organic matter, priming effects and prokaryotic community assembly. FEMS Microbiol Ecol 95(1):fiz129. (doi:10.1093/femsec/fiz129)

334. Dukunde A, Schneider D, Schmidt M, Veldkamp E , Daniel R (2019) Tree species shape soil bacterial community structure and function in temperate deciduous forests. Front Microbiol 10:1519. (doi:10.3389/fmicb.2019.01519)

333. Egelkamp R, Zimmermann T, Schneider D, Hertel R, Daniel R (2019) Impact of nitriles on bacterial communities. Front Env Sci 7:103. (doi:10.3389/fenvs.2019.00103)

332. Gundlach J, Krüger L, Herzberg C, Turdiev A, Poehlein A, Tascón I, Weiß M, Hertel D, Daniel R, Hänelt I, Lee VT, Stülke J (2019) Sustained sensing in potassium homeostasis: Cyclic di-AMP controls potassium uptake by KimA at the levels of expression and activity. J Biol Chem 294(24):9605-9614. (doi:10.1074/jbc.RA119.008774)

331. Hackenschmidt S, Bracharz F, Daniel R, Thürmer A, Bruder S, Kabisch J (2019) Effects of a high-cultivation temperature on the physiology of three different Yarrowia lipolytica strains. FEMS Yeast Res 19(7): foz068. (doi:10.1093/femsyr/foz068)

330. Hollensteiner J, Poehlein A, Daniel R (2019) Complete genome sequence of Marinobacter sp. strain JH2, isolated from seawater of the Kiel Fjord. Microbiol Resour Announc 8(30):e00596-19. (doi:10.1128/MRA.00596-19)

329. Lu M, Dukunde A, Daniel R (2019) Biochemical profiles of two thermostable and organic solvent-tolerant esterases derived from a compost metagenome. Appl Microbiol Biotechnol 103:3421-3437. (doi:10.1007/s00253-019-09695-1)

328. Lüneberg K, Schneider D, Brinkmann N, Siebe C, Daniel R (2019) Land use change and water quality use for Irrigation alters drylands soil fungal community in the Mezquital Valley, Mexico. Front Microbiol 10:1220. (doi:10.3389/fmicb.2019.01220)

327. Pinter N, Hach CA, Hampel M, Rekhter D, Zienkiewicz K, Feussner I, Poehlein A, Daniel R, Finkernagel F, Heimel K (2019) Signal peptide peptidase activity connects the unfolded protein response to plant defense suppression by Ustilago maydis. PLoS Pathogens 15:e1007734. (doi:10.1371/journal.ppat.1007734)

326. Pratama R, Schneider D, Böer T, Daniel R (2019) First insights into bacterial gastrointestinal tract communities of the Eurasian Beaver (Castor fiber). Front Microbiol 10:1646. (doi:10.3389/fmicb.2019.01646)

325. Reuß DR, Faßhauer P, Mroch PJ, Ul-Haq I, Koo BM, Poehlein A, Gross CA, Daniel R, Brantl S, Stülke J (2019) Topoisomerase IV can functionally replace all type 1A topoisomerases in Bacillus subtilis. Nucleic Acids Res 47(10):5231–5242. (doi:10.1093/nar/gkz260)

324. Rudolph K , Fichtel C, Schneider D, Heistermann M, Koch F, Daniel R, Kappeler PM (2019) One size fits all? Relationships among group size, health, and ecology indicate a lack of an optimal group size in a wild lemur population. Behav Ecol Sociobiol 73:132. (doi:10.1007/s00265-019-2746-0)

323. Schröter K, Wemheuer B, Pena R, Schöning I, Ehbrecht M, Schall P, Ammer C, Daniel R, Polle A (2019) Assembly processes of trophic guilds in the root mycobiome of temperate forests. Mol Ecol 28:348-364. (doi:10.1111/mec.14887)

322. Schulz G, Schneider D, Brinkmann N, Edy N, Daniel R, Polle A, Scheu S, Krashevska V (2019) Changes in trophic groups of protists with conversion of rainforest into rubber and oil palm plantations. Front Microbiol 10:240. (doi:10.3389/fmicb.2019.00240)

321. Steinert G, Wemheuer B, Janussen D, Erpenbeck D, Daniel R, Simon M, Brinkhoff T, Schupp PJ (2019) Prokaryotic diversity and community patterns in Antarctic continental shelf sponges. Front Mar Sci 6:297. (doi:10.3389/fmars.2019.00297)

320. von Hoyningen-Huene AJE, Schneider D, Fussmann D, Reimer A, Arp G, Daniel R (2019) Bacterial succession along a sediment porewater gradient at Lake Neusiedl in Austria. Sci Data 6:163. (doi:10.1038/s41597-019-0172-9)

319. Wemheuer F, von Hoyningen-Huene AJE, Pohlner M, Degenhardt J, Engelen B, Daniel R, Wemheuer B (2019) Primary production in the water column as major structuring element of the biogeographical distribution and function of Archaea in deep-sea sediments of the Central Pacific Ocean. Archaea 2019:ID 3717239. (doi:10.1155/2019/3717239)

318. Wemheuer F, Wemheuer B, Daniel R, Vidal S (2019) Deciphering bacterial and fungal endophyte communities in leaves of two maple trees with green islands. Sci Rep 9:14183. (doi:10.1038/s41598-019-50540-2)

317. Wicke D, Schulz LM, Lentes S, Scholz P, Poehlein A, Gibhardt J, Daniel R, Ischebeck T, Commichau FM (2019) Identification of the first glyphosate transporter by genomic adaptation. Environ Microbiol 21(4):1287-1305. (doi:10.1111/1462-2920.14534)

316. Amiri Moghaddam J, Poehlein A, Fisch K, Alanjary M, Daniel R, König GM, Schäberle TF (2018) Draft genome sequences of the obligatory marine myxobacterial strains Enhygromyxa salina SWB005 and SWB007. Genome Announc 6(17):e00324-18. (doi:10.1128/genomeA.00324-18)

315. Bakenhus I, Voget S, Poehlein A, Brinkhoff T, Daniel R, Simon M (2018) Genome sequence of Planktotalea frisia type strain (SH6-1T), a representative of the Roseobacter group isolated from the North Sea during a phytoplankton bloom. Stand Genomic Sci 13:7. (doi:10.1186/s40793-018-0311-5)

314. Berkelmann D, Schneider D, Engelhaupt M, Heinemann M, Christel S, Wijayanti M, Meryandini A, Daniel R (2018) How rainforest conversion to agricultural systems in Sumatra (Indonesia) affects active soil bacterial communities. Front Microbiol 9:2381. (doi:10.3389/fmicb.2018.02381)

313. Daniel R, Simon M, Wemheuer B (2018) Editorial: Molecular ecology and genetic diversity of the Roseobacter clade. Front Microbiol 9:1185. (doi:10.3389/fmicb.2018.01185)

312. Dib JR, Perez MF, Schuldes J, Poehlein A, Wagenknecht M, Farías ME, Meinhardt F, Daniel R (2018) Complete genome sequences of pLMA1 and pLMA7, two large linear plasmids of Micrococcus strains isolated from a high-altitude lake in Argentina. Genome Announc 6(8):e00010-18. (doi:10.1128/genomeA.00010-18)

311. Djukic M, Erler S, Leimbach A, Grossar D, Charrière J-D, Gauthier L, Hartken D, Dietrich S, Nacke H, Daniel R, Poehlein A (2018) Comparative genomics and description of putative virulence factors of Melissococcus plutonius, the causative agent of European foulbrood disease in honey bees. Genes 9:419. (doi:10.3390/genes9080419)

310. Groß U, Brzuszkiewicz E, Gunka K, Starke J, Riedel T, Bunk B, Spröer C, Wetzel D, Poehlein A, Chibani C, Bohne W, Overmann J, Zimmermann O, Daniel R, Liesegang H (2018) Comparative genome and phenotypic analysis of three Clostridioides difficile strains isolated from a single patient provide insight into multiple infection of C. difficile. BMC Genomics 19:1. (doi:10.1186/s12864-017-4368-0)

309. Hollensteiner J, Poehlein A, Granzow S, Liesegang H, Daniel R, Vidal S, Wemheuer F (2018) Draft genome sequence of the endophyte Bacillus mycoides strain GM5LP isolated from Lolium perenne. Genome Announc 6(4):e01517. (doi:10.1128/genomeA.01517-17)

308. Kremp F, Poehlein A, Daniel R, Müller V (2018) Methanol metabolism in the acetogenic bacterium Acetobacterium woodii. Environ Microbiol 20(12):4369-4384. (doi:10.1111/1462-2920.14356)

307. Lüneberg K, Schneider D, Siebe C, Daniel R (2018) Drylands soil bacterial community is affected by land use change and different irrigation practices in the Mezquital Valley, Mexico. Sci Rep 8:1413. (doi:10.1038/s41598-018-19743-x)

306. Meinert C, Schürmann M, Domeyer JE, Poehlein A, Daniel R, Steinbüchel A (2018) The unexpected function of a Flavin-dependent oxidoreductase (Fox) from Variovorax paradoxus TBEA6. FEMS Microbiol Lett 365(6):fny011. (doi:10.1093/femsle/fny011)

305. Nasfi Z, Poehlein A, Harms H, Goralski E, Fisch KM, Daniel R, König GM, Schäberle TF, Bachoual R (2018) Draft genome sequence of Bacillus sp. strain M21, isolated from the arid area of Matmata, Tunisia. Genome Announc 6(17):e00323-18. (doi:10.1128/genomeA.00323-18)

304. Poehlein A, Böer T, Steensen K, Daniel R (2018) Draft genome sequence of the hydrogenogenic carboxydotroph Moorella stamsii DSM 26271. Genome Announc 6(18):e00345-18. (doi:10.1128/genomeA.00345-18)

303. Poehlein A, Bolz S, Fischer B, Daniel R (2018) First insight into the genome sequence of Clostridium vincentii DSM 10228, isolated from sediment of the McMurdo Ice Shelf, Antarctica. Genome Announc 6(16):e00334-18. (doi:10.1128/genomeA.00334-18)

302. Poehlein A, Bremekamp R, Lutz VT, Schulz LM, Daniel R (2018) Draft genome sequence of the butanoic acid-producing bacterium Clostridium luticellarii DSM 29923, used for strong aromatic Chinese liquor production. Genome Announc 6(18):e00377-18. (doi:10.1128/genomeA.00377-18)

301. Poehlein A, Hettwer E, Mohnike L, Daniel R (2018) First insights into the genome sequence of Clostridium thermopalmarium DSM 5974, a butyrate-producing bacterium isolated from palm wine. Genome Announc 6(17):e00338-18. (doi:10.1128/genomeA.00338-18)

300. Poehlein A, Heym D, Quitzke V, Fersch J, Daniel R, Rother M (2018) Complete genome sequence of the Methanococcus maripaludis type strain JJ (DSM 2067), a model for selenoprotein synthesis in Archaea. Genome Announc 6(14):e00237-18. (doi:10.1128/genomeA.00237-18)

299. Poehlein A, Keyl A, Milsch JC, Daniel R (2018) Draft genome sequence of the thermophilic acetogen Moorella humiferrea DSM 23265. Genome Announc 6(17):e00357-18. (doi:10.1128/genomeA.00357-18)

298. Poehlein A, Neubauer H, Niemeyer P, Daniel R (2018) First insight into the genome sequence of Clostridium liquoris DSM 100320, a butyrate- and ethanol-producing bacterium. Genome Announc 6(18):e00376-18. (doi:10.1128/genomeA.00376-18)

297. Poehlein A, Schneider D, Soh M, Daniel R, Seedorf H (2018) Comparative genomic analysis of members of the genera Methanosphaera and Methanobrevibacter reveals distinct clades with specific potential metabolic functions. Archaea 2018:Article ID 7609847. (doi:10.1155/2018/7609847)

296. Reuß DR, Rath H, Thürmer A, Benda M, Daniel R, Völker U, Mäder U, Commichau FM, Stülke J (2018) Changes of DNA topology affect the global transcription landscape and allow rapid growth of a Bacillus subtilis mutant lacking carbon catabolite repression. Metab Eng 45:171-179. (doi:10.1016/j.ymben.2017.12.004)

295. Sann C, Wemheuer F, Beaurepaire A, Daniel R, Erler S, Vidal S (2018) Preliminary investigation of species diversity of rice hopper parasitoids in Southeast Asia. Insects 9:19. (doi:10.3390/insects9010019)

294. Schilling T, Hoppert M, Daniel R, Hertel R (2018) Complete genome sequence of vB_BveP-Goe6, a virus infecting Bacillus velezensis FZB42. Genome Announc 6(8):e00008-18. (doi:10.1128/genomeA.00008-18)

293. Seugendo M, Janssen I, Lang V, Hasibuan I, Bohne W, Cooper P, Daniel R, Gunka K, Kusumawati RL, Mshana SE, von Müller L, Okamo B, Ortlepp JR, Overmann J, Riedel T, Rupnik M, Zimmermann O, Groß U (2018) Prevalence and strain characterization of Clostridioides (Clostridium) difficile in representative regions of Germany, Ghana, Tanzania and Indonesia - a comparative multi-Center cross-sectional study. Front Microbiol 9:1843. (doi:10.3389/fmicb.2018.01843)

292. Streit W, Chow J. Jaeger K-E, Katzke N, Koch R, Borchert M, Bj’rnvad M, Roggenbuck M, Lippold F, Golyshin P, Golyshina O, Tran H, Ferrer M, Daniel R, Hollensteiner J (2018) A metagenomic collection of novel and highly efficient biocatalysts for industrial biotechnology. Impact 5:82-84. (doi:10.21820/23987073.2018.5.82)

291. Wemheuer F, Hollensteiner J, Poehlein A, Liesegang H, Daniel R, Wemheuer B (2018) Draft genome sequence of the endophyte Bacillus mycoides strain GM6LP isolated from Lolium perenne. Genome Announc 6(5):e00011. (doi:10.1128/genomeA.00011-18)

290. Wemheuer F, Wemheuer B, Hollensteiner J, Daniel R, Poehlein A (2018) Draft genome sequence of the endophyte Paenibacillus sp. strain GM2FR isolated from Festuca rubra. Genome Announc 6(6):e00017. (doi:10.1128/genomeA.00017-18)

289. Zhang Q, Poehlein A, Hollensteiner J, Daniel R (2018) Draft genome sequence of Komagataeibacter maltaceti LMG 1529T, a vinegar-producing acetic acid bacterium isolated from malt vinegar brewery acetifiers. Genome Announc 6(16):e00330-18. (doi:10.1128/genomeA.00330-18)

288. Ammer C, Schall P, Gossner MM, Heinrichs S, Boch S, Prati D, Jung K, Baumgartner V, Blaser S, Böhm S, Buscot F, Daniel R, Goldmann K, Kaiser K, Kahl T, Lange M, Müller J, Overmann J, Renner S C, Schulze E-D, Sikorski J, Tschapka M, Türke M, Weisser WW, Wemheuer B, Wubet T, Fischer M (2017) Waldbewirtschaftung und Biodiversität: Vielfalt ist gefragt. Allgemeine Forstzeitschrift/Der Wald 72(17):20-25.

287. Barnes AD, Allen K, Kreft H, Corre MD, Jochum M, Veldkamp E, Clough Y, Daniel R, Darras K, Denmead LH, Haneda NF, Hertel D, Knohl A, Kotowska MM, Kurniawan S, Meijide A, Rembold K, Prabowo WE, Schneider D, Tscharntke T, Brose U (2017) Direct and cascading impacts of tropical land-use change on multitrophic biodiversity. Nat Ecol Evol 1:1511-1519. (doi:10.1038/s41559-017-0275-7)

286. Braun C, Thürmer A, Daniel R, Schultz AK, Bulla I, Schirrmeier H, Mayer D, Neubert A, Czerny CP (2017) Genetic variability of myxoma virus genomes. J Virol 91(4):pii: e01570-16. (doi:10.1128/JVI.01570-16)

285. Dogs M, Wemheuer B, Wolter L, Bergen N, Daniel R, Simon M, Brinkhoff T (2017) Rhodobacteraceae on the marine brown alga Fucus spiralis are abundant and show physiological adaptation to an epiphytic lifestyle. Syst Appl Microbiol 40(6):370-382. (doi:10.1016/j.syapm.2017.05.006)

284. Dormeyer M, Lübke AL, Müller P, Lentes S, Reuß DR, Thürmer A, Stülke J, Daniel R, Brantl S, Commichau FM (2017) Hierarchical mutational events compensate for glutamate auxotrophy of a Bacillus subtilis gltC mutant. Environ Microbiol Rep 9(3):279-289. (doi:10.1111/1758-2229.12531)

283. Dukunde A, Schneider D, Lu M, Brady S, Daniel R (2017) A novel, versatile family IV carboxylesterase exhibits high stability and activity in a broad pH spectrum. Biotechnol Lett 39(4):577-587. (doi:10.1007/s10529-016-2282-1)

282. Ebert M, Laass S, Thürmer A, Roselius L, Eckweiler D, Daniel R, Härtig E and Jahn D (2017) FnrL and three Dnr regulators are used for the metabolic adaptation to low oxygen tension in Dinoroseobacter shibae. Front Microbiol 8:642. (doi:10.3389/fmicb.2017.00642)

281. Egelkamp R, Schneider D, Hertel R, Daniel R (2017) Nitrile-degrading bacteria isolated from compost. Front Env Sci 5:56. (doi:10.3389/fenvs.2017.00056)

280. Gabris C, Poehlein A, Bengelsdorf FR, Daniel R, Dürre P (2017) Genome sequence of Enterococcus faecalis strain CG_E. Genome Announc 5(2):e01488-16. (doi:10.1128/genomeA.01488-16)

279. Gabris C, Poehlein A, Bengelsdorf FR, Daniel R, Dürre P (2017) Genome sequence of Lactobacillus sunkii strain CG_D. Genome Announc 5(2):e01487-16. (doi:10.1128/genomeA.01487-16)

278. Granzow S, Kaiser K, Wemheuer B, Pfeiffer B, Daniel R, Vidal S Wemheuer F (2017) The effects of cropping regimes on fungal and bacterial communities of wheat and faba bean in a greenhouse pot experiment differ between plant species and compartment. Front Microbiol 8:902. (doi:10.3389/fmicb.2017.00902)

277. Gundlach J, Herzberg C, Hertel D, Thürmer A, Daniel R, Link H, Stülke J (2017) Adaptation of Bacillus subtilis to life at extreme potassium limitation. mBio 8(4):e00861-17. (doi:10.1128/mBio.00861-17)

276. Gundlach J, Herzberg C, Kaever V, Gunka K, Hoffmann T, Weiß M, Gibhardt J, Thürmer A, Hertel D, Daniel R, Bremer E, Commichau FM, Stülke J (2017) Control of potassium homeostasis is an essential function of the second messenger cyclic di-AMP in Bacillus subtilis. Sci Signal 10(475):eaal3011. (doi:10.1126/scisignal.aal3011)

275. Hehemann J-H, Truong LV, Unfried F, Welsch N, Kabisch J, Heiden SE, Junker S, Becher D, Thürmer A, Daniel R, Amann R and Schweder T (2017) Aquatic adaptation of a laterally acquired pectin degradation pathway in marine Gammaproteobacteria. Environ Microbiol 19(6):2320-2333. (doi:10.1111/1462-2920.13726)

274. Hollensteiner J, Poehlein A, Daniel R, Liesegang H, Vidal S, Wemheuer F (2017) Draft genome sequence of Bacillus pumilus strain GM3FR, an endophyte isolated from aerial plant tissues of Festuca rubra L. Genome Announc 5(13):e00085-17. (doi:10.1128/genomeA.00085-17)

273. Hollensteiner J, Wemheuer F, Harting R, Kolarzyk A, Verlerio-Diaz S, Poehlein A, Brzuszkiewicz E, Nesemann K, Braus-Stromeyer S, Braus G, Daniel R, Liesegang H (2017) Bacillus thuringiensis and Bacillus weihenstephanensis inhibit the growth of phytopathogenic Verticillium species. Front Microbiol 7:2171. (doi:10.3389/fmicb.2016.02171)

272. Humphreys JR, Daniel R, Poehlein A (2017) Insights into the genome of the anaerobic acetogen Sporomusa silvacetica DSM 10669. Genome Announc 5(38):e00983-17. (doi:10.1128/genomeA.00983-17)

271. Humphreys JR, Daniel R, Poehlein A (2017) Genome sequence of the homoacetogenic, Gramn-negative, endospore-forming bacterium Sporomusa acidovorans DSM 3132. Genome Announc 5(38):e00981-17. (doi:10.1128/genomeA.00981-17)

270. Jag V, Poehlein A, Bengelsdorf FR, Daniel R, Dürre P (2017) Genome sequencing and description of Oerskovia enterophila VJag, an agar- and cellulose-degrading bacterium. Stand Genomic Sci 12:30. (doi:10.1186/s40793-017-0244-4)

269. Karl MM, Poehlein A, Bengelsdorf FR, Daniel R, Dürre P (2017) Complete genome sequence of the autotrophic acetogen Clostridium formicaceticum DSM 92T using nanopore and Illumina sequencing data. Genome Announc 5(21):e00423-17. (doi:10.1128/genomeA.00423-17)

268. Leimbach A, Poehlein A, Vollmers J, Görlich D, Daniel R, Dobrindt U (2017) No evidence for a bovine mastitis Escherichia coli pathotype. BMC Genomics 18:359. (doi:10.1186/s12864-017-3739-x)

267. Nacke H, Daniel R, Poehlein A (2017) Genome sequence of creatinine-fermenting Tissierella creatinophila strain KRE 4T (DSM 6911). Genome Announc 5(12):e00051-17. (doi:10.1128/genomeA.00051-17)

266. Nacke H, Schöning I, Schindler M, Schrumpf M, Daniel R, Nicol GW, Prosser JI (2017) Links between seawater flooding, soil ammonia oxidiser communities and their response to changes in salinity. FEMS Microbiol Ecol 93:11. (doi:10.1093/femsec/fix144)

265. Peters B, Mientus M, Kostner D, Daniel R, Liebl W, Ehrenreich A (2017) Expression of membrane-bound dehydrogenases from a mother of vinegar metagenome in Gluconobacter oxydans. Appl Microbiol Biotechnol 101(21):7901-7912. (doi:10.1007/s00253-017-8479-y)

264. Poehlein A, Anbalagan A, Nagel A, Daniel R (2017) First insight into the genome sequence of Clostridium thermobutyricum DSM 4928, a butyrate-producing moderate thermophile. Genome Announc 5(20):e00367-17. (doi:10.1128/genomeA.00367-17)

263. Poehlein A, Berg A, Welsing G, Daniel R (2017) First insights into the genome sequence of the alkaliphilic thermotolerant bacterium Clostridium thermoalcaliphilum JW/YL23-2(T). Genome Announc 5(20):e00368-17. (doi:10.1128/genomeA.00368-17)

262. Poehlein A, Daniel R, Seedorf H (2017) The draft genome of the non-host-associated Methanobrevibacter arboriphilus strain DH1 encodes a large repertoire of adhesin-like proteins. Archaea 2017:Article ID 4097425. (doi:10.1155/2017/4097425)

261. Poehlein A, Daniel R, Thürmer A, Bollinger A, Thies S, Katzke N, Jaeger KE (2017) First insights into the genome sequence of Pseudomonas oleovorans DSM 1045. Genome Announc 5(32):e00774-17. (doi:10.1128/genomeA.00774-17)

260. Poehlein A, Funkner K, Schüler MA, Daniel R (2017) First insights into the genome sequence of the cellulolytic bacterium Clostridium hungatei DSM 14427. Genome Announc 5(20):e00363-17. (doi:10.1128/genomeA.00363-17)

259. Poehlein A, Galperin MY, Andreesen JR, Daniel R (2017) Genome sequence of uric acid-fermenting Eubacterium angustum DSM 1989T (MK-1). Genome Announc 5(2):e01439-16. (doi:10.1128/genomeA.01439-16)

258. Poehlein A, Gippert AL, Bierenbroodspot MJ, Daniel R (2017) First insights into the genome sequence of Clostridium oryzae DSM 28571, isolated from the soil of a Japanese rice field. Genome Announc 5(24):e00539-17. (doi:10.1128/genomeA.00539-17)

257. Poehlein A, Höche N, Mehr A, Daniel R (2017) First insights into the genome of the Cr(VI)-reducing bacterium Clostridium chromiireducens DSM 23318. Genome Announc 5(22):e00420-17. (doi:10.1128/genomeA.00420-17)

256. Poehlein A, Montoya Solano JD, Flitsch SK, Krabben P, Winzer K, Reid SJ, Jones DT, Green E, Minton NP, Daniel R, Dürre P (2017) Microbial solvent formation revisited by comparative genome analysis. Biotechnol Biofuels 10:58. (doi:10.1186/s13068-017-0742-z)

255. Poehlein A, Wübbeler JH, Daniel R, Steinbüchel A (2017) Draft genome sequences of Sphingomonas mucosissima DSM 17494 and Sphingomonas dokdonensis DSM 21029. Genome Announc 5(35):e00889-17. (doi:10.1128/genomeA.00889-17)

254. Poehlein A, Yutin N, Daniel R, Galperin MY (2017) Proposal for the reclassification of obligately purine-fermenting bacteria Clostridium acidurici (Barker 1938) and Clostridium purinilyticum (Dürre et al. 1981) as Gottschalkia acidurici gen. nov. comb. nov. and Gottschalkia purinilytica comb. nov. and of Eubacterium angustum (Beuscher and Andreesen 1985) as Andreesenia angusta gen. nov. comb. nov. in the family Gottschalkiaceae fam. nov.. Int J Syst Evol Microbiol 67(8):2711-2719. (doi:10.1099/ijsem.0.002008)

253. Ponnudurai R, Sayavedra L, Kleiner M, Heiden SE, Thürmer A, Felbeck H, Schlüter R, Sievert SM, Daniel R, Schweder T, Markert S (2017) Genome sequence of the sulfur-oxidizing Bathymodiolus thermophilus gill endosymbiont. Stand Genomic Sci 12:50. (doi:10.1186/s40793-017-0266-y)

252. Reuß DR, Altenbuchner J, Mäder U, Rath H, Ischebeck T, Sappa PK, Thürmer A, Guerin C, Nicolas P, Steil L, Zhu B, Feussner I, Klumpp S, Daniel R, Commichau FM, Völker U, Stülke J (2017) Large-scale reduction of the Bacillus subtilis genome: Consequences for the transcriptional network, resource allocation, and metabolism. Genome Res 27(2):289-299. (doi:10.1101/gr.215293.116)

251. Reyes C, Schneider D, Thürmer A, Kulkarni A, Lipka M, Sztejrenszus SY, Böttcher ME, Daniel R, Friedrich MW (2017) Potentially active iron, sulfur and sulfate reducing bacteria in Skagerrak and Bothnian Bay sediments. Geomicrobiol J 34(10):840-850. (doi:10.1080/01490451.2017.1281360)

250. Schneider D, Thürmer A, Gollnow K, Lugert R, Gunka K, Groß U, Daniel R (2017) Gut bacterial communities of diarrheic patients with indications of Clostridioides difficile infection. Sci. Data 4:170152. (doi:10.6084/m9.figshare.c.3877591.v1)

249. Simon C, Daniel R (2017) Construction of small-insert and large-insert metagenomic libraries. Methods Mol Biol 1539:1-12. (doi:10.1007/978-1-4939-6691-2_1)

248. Simons NK, Lewinsohn T, Blüthgen N, Buscot F, Boch S, Daniel R, Gossner MM, Jung K, Kaiser K, Müller J, Prati D, Renner SC, Socher SA, Sonnemann I, Weiner CN, Werner M, Wubet T, Wurst S, Weisser WW (2017) Contrasting effects of grassland management modes on species-abundance distributions of multiple groups. Agriculture, Ecosystems & Environment 237:143-153. (doi:10.1016/j.agee.2016.12.022)

247. Villamizar GA, Nacke H, Daniel R (2017) Function-based metagenomic library screening and heterologous expression strategy for genes encoding phosphatase activity. Methods Mol Biol 1539:249-260. (doi:10.1007/978-1-4939-6691-2_16)

246. Villamizar GAC, Daniel R, Poehlein A (2017) First insights into the genome sequence of the strictly anaerobic homoacetogenic Sporomusa sphaeroides strain E (DSM 2875). Genome Announc 5(12):e00037-17. (doi:10.1128/genomeA.00037-17)

245. Wemheuer B, Wemheuer F, Meier D, Billerbeck S, Giebel H-A, Simon M, Scherber C, Daniel R (2017) Linking compositional and functional predictions to decipher the biogeochemical significance in DFAA turnover of abundant bacterioplankton lineages in the North Sea. Microorganisms 5(4):68. (doi:10.3390/microorganisms5040068 )

244. Wemheuer F, Hollensteiner J, Poehlein A, Granzow S, Daniel R, Vidal S, Wemheuer B (2017) Draft genome sequence of Pseudomonas putida strain GM4FR, an endophytic bacterium isolated from Festuca rubra L. Genome Announc 5(13):e00086-17. (doi:10.1128/genomeA.00086-17)

243. Wemheuer F, Kaiser K, Karlovsky P, Daniel R, Vidal S, Wemheuer B (2017) Bacterial endophyte communities of three agricultural important grass species differ in their response towards management regimes. Sci Rep 7:40914. (doi:10.1038/srep40914)

242. Wöhlbrand L, Wemheuer B, Feenders C, Ruppersberg HS, Hinrichs C, Blasius B, Daniel R, Rabus R (2017) Complementary metaproteomic approaches to assess the bacterioplankton response towards a phytoplankton spring bloom in the southern North Sea. Front Microbiol 8:442. (doi:10.3389/fmicb.2017.00442)

241. Wübbeler JH, Oppermann-Sanio FB, Ockenfels A, Röttig A, Osthaar-Ebker A, Verbarg S, Poehlein A, Madkour MH, Al-Ansari AM, Almakishah NH, Daniel R, Steinbüchel A (2017) Sphingomonas jeddahensis sp. nov., isolated from Saudi Arabian desert soil. Int J Syst Evol Microbiol 67(10):4057-4063. (doi:10.1099/ijsem.0.002249)

240. Beck MH, Poehlein A, Bengelsdorf FR, Schiel-Bengelsdorf B, Daniel R, Dürre P (2016) Draft genome sequence of the strict anaerobe Clostridium neopropionicum X4 (DSM 3847T). Genome Announc 4(2):e00209-16. (doi:10.1128/genomeA.00209-16)

239. Bengelsdorf FR, Poehlein A, Linder S, Erz C, Hummel T, Hoffmeister S, Daniel R, Dürre P (2016) Industrial acetogenic biocatalysts: a comparative metabolic and genomic analysis. Front Microbiol 7:1036. (doi:10.3389/fmicb.2016.01036)

238. Bengelsdorf FR, Poehlein A, Schiel-Bengelsdorf B, Daniel R, Dürre P (2016) Genome sequence of the acetogenic bacterium Butyribacterium methylotrophicum DSM 3468T. Genome Announc 4(6):e01338-16. (doi:10.1128/genomeA.01338-16)

237. Billerbeck S, Wemheuer B, Voget S, Poehlein A, Giebel H-A, Brinkhoff T, Gram L, Jeffrey WH, Daniel R, Simon M (2016) Biogeography and environmental genomics of the Roseobacter-affiliated pelagic CHAB-I-5 lineage. Nature Microbiol 1:16063. (doi:10.1038/nmicrobiol.2016.63)

236. Clough Y, Krishna VV, Corre MD, Darras K, Denmead LH, Meijide A, Moser S, Musshoff O, Steinebach S, Veldkamp E, Allen K, Barnes AD, Breidenbach N, Brose U, Buchori D, Daniel R, Finkeldey R, Harahap I, Hertel D, Holtkamp AM, Hörandl E, Irawan B, Jaya IN, Jochum M, Klarner B, Knohl A, Kotowska MM, Krashevska V, Kreft H, Kurniawan S, Leuschner C, Maraun M, Melati DN, Opfermann N, Pérez-Cruzado C, Prabowo WE, Rembold K, Rizali A, Rubiana R, Schneider D, Tjitrosoedirdjo SS, Tjoa A, Tscharntke T, Scheu S (2016) Land-use choices follow profitability at the expense of ecological functions in Indonesian smallholder landscapes. Nat. Commun. 7:13137. (doi:10.1038/ncomms13137)

235. Domik D, Thürmer A, Weise T, Brandt W, Daniel R, Piechulla B (2016) A terpene synthase is involved in the synthesis of the volatile organic compound sodorifen of Serrate plymuthica 4Rx13. Front Microbiol 7:737. (doi:10.3389/fmicb.2016.00737)

234. Flüchter S, Poehlein A, Schiel-Bengelsdorf B, Daniel R, Dürre P (2016) Genome sequence of the Poly-3-hydroxybutyrate producer Clostridium acetireducens DSM 10703. Genome Announc 4(6):e01399-16. (doi:10.1128/genomeA.01399-16)

233. Güllert S, Fischer MA, Turaev D, Nöbauer B, Ilmberger N, Wemheuer B, Alawi M, Rattei T, Daniel R, Schmitz RA, Grundhoff A, Streit WR (2016) 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. Biotechnol Biofuels 9:121. (doi:10.1186/s13068-016-0534-x)

232. Haack FS, Poehlein A, Kröger C, Voigt CA, Piepenbring M, Bode HB, Daniel R, Schäfer W and Streit WR (2016) Molecular keys to the Janthinobacterium and Duganella spp. interaction with the plant pathogen Fusarium graminearum. Front Microbiol 7:1668. (doi:10.3389/fmicb.2016.01668)

231. Hofmeyer T, Hackenschmidt S, Nadler F, Thürmer A, Daniel R, Kabisch J (2016) Draft genome sequence of Cutaneotrichosporon curvets DSM 101032 (formerly Cryptococcus curvets), an oleaginous yeast producing polyunsaturated fatty acids. Genome Announc 4(3):e00362-16. (doi:10.1128/genomeA.00362-16)

230. Jag V, Poehlein A, Bengelsdorf FR, Daniel R, Dürre P (2016) Genome sequence of the facultative anaerobe Oerskovia enterophila DFA-19 (DSM 43852T). Genome Announc 4(5):e00973-16. (doi:10.1128/genomeA.00973-16)

229. Kaiser K, Wemheuer B, Korolkow V , Wemheuer F, Nacke H, Schöning I, Schrumpf M, Daniel R (2016) Driving forces of soil bacterial community structure, diversity, and function in temperate grasslands and forests. Sci Rep 6:33696. (doi:10.1038/srep33696)

228. Kanukollu S, Wemheuer B, Herber J, Billerbeck S, Lucas J, Daniel R, Simon M, Cypionka H, Engelen B (2016) Distinct compositions of free-living, particle-associated and benthic communities of the Roseobacter group in the North Sea. FEMS Microbiol Ecol 92(1):fiv137. (doi:10.1093/femsec/fiv145)

227. Khairy H, Meinert C, Wübbeler JH, Poehlein A, Daniel R, Voigt B, Riedel K, Steinbüchel A (2016) Genome and proteome analysis of Rhodococcus erythropolis MI2: Elucidation of the 4,4´-dithiodibutyric acid catabolism. PLoS ONE 11(12):e0167539. (doi:10.1371/journal.pone.0167539)

226. Knapp A, Voget S, Gao R, Zaburannyi N, Krysciak D, Breuer M, Hauer B, Streit WR, Müller R, Daniel R, Jaeger KE (2016) Mutations improving production and secretion of extracellular lipase by Burkholderia glumae PG1. Appl Microbiol Biotechnol 100(3):1265-1273. (doi:10.1007/s00253-015-7041-z)

225. König S, Gros O, Heiden SE, Hinzke T, Thürmer A, Poehlein A, Meyer S, Vatin M, Mbéguié-A-Mbéguié D, Tocny J, Ponnudurai R, Daniel R, Becher D, Schweder T, Markert S (2016) Nitrogen fixation in a chemoautotrophic lucinid symbiosis. Nature Microbiol 1:16193. (doi:10.1038/nmicrobiol.2016.193)

224. Leimbach A, Poehlein A, Witten A, Wellnitz O, Shpigel N, Petzl W, Zerbe H, Daniel R, Dobrindt U (2016) Whole-genome draft sequences of six commensal fecal and six mastitis-associated Escherichia coli strains of bovine origin. Genome Announc 4(4):e00753-16. (doi:10.1128/genomeA.00753-16)

223. Mühling M, Poehlein A, Stuhr A, Voitel M, Daniel R and Schlömann M (2016) Reconstruction of the metabolic potential of acidophilic Sideroxydans strains from the metagenome of an microaerophilic enrichment culture of acidophilic iron-oxidizing bacteria from a pilot plant for the treatment of acid mine drainage reveals metabolic versatility and adaptation to life at low pH. Front Microbiol 7:2082. (doi:10.3389/fmicb.2016.02082)

222. Nacke H, Goldmann K, Schöning I, Pfeiffer B, Kaiser K, Castillo-Villamizar GA, Schrumpf M, Buscot F, Daniel R, Wubet T (2016) Fine spatial scale variation of soil microbial communities under European beech and Norway spruce. Front Microbiol 7:2067. (doi:10.3389/fmicb.2016.02067)

221. Osterholz H, Singer G, Wemheuer B, Daniel R, Simon M, Niggemann J, Dittmar T (2016) Deciphering associations between dissolved organic molecules and bacterial communities in a pelagic marine system. ISME J 10:1717–1730. (doi:10.1038/ismej.2015.231)

220. Poehlein A, Bengelsdorf FR, Schiel-Bengelsdorf B, Daniel R, Dürre P (2016) Genome sequence of the acetogenic bacterium Acetobacterium wieringae DSM 1911T. Genome Announc 4(6):e01430-16. (doi:10.1128/genomeA.01430-16)

219. Poehlein A, Freese H, Daniel R, Simeonova DD (2016) Genome sequence of Shigella sp. strain DD12, isolated from homogenized guts of starved Daphnia magna. Stand Genomic Sci 11(1):14. (doi:10.1186/s40793-015-0129-3)

218. Poehlein A, Friedrich I, Krüger L, Daniel R (2016) First insights into the genome of the moderately thermophilic bacterium Clostridium tepidiprofundi SG 508T. Genome Announc 4(3):e00379-16. (doi:10.1128/genomeA.00379-16)

217. Poehlein A, Mucek K, Enders M, Pankok F, Daniel R (2016) First insights into the genome sequence of the halophilic archaean Halalkalicoccus paucihalophilus (DSM 24557). Genome Announc 4(3):e00382-16 . (doi:10.1128/genomeA.00382-16)

216. Poehlein A, Schilling T, Bhaskar Sathya Narayanan U, Daniel R (2016) First insights into the draft genome of Clostridium colicanis DSM 13634, isolated from canine feces. Genome Announc 4(3):e00385-16. (doi:10.1128/genomeA.00385-16)

215. Poehlein A, Schlien K, Chowdhury NP, Gottschalk G, Buckel W, Daniel R (2016) Complete genome sequence of the amino acid-fermenting Clostridium propionicum X2 (DSM 1682). Genome Announc 4(2):e00294-16. (doi:10.1128/genomeA.00294-16)

214. Preisitsch M, Heiden SE, Beerbaum M, Niedermeyer TH J , Schneefeld M, Herrmann J, Kumpfmüller J, Thürmer A, Neidhardt I, Wiesner C, Daniel R , Müller R, Bange F-Z, Schmieder P, Schweder T, Mundt S (2016) Effects of halide ions on the carbamidocyclophane biosynthesis in Nostoc sp. CAVN2. Mar Drugs 14(1):21. (doi:10.3390/md14010021)

213. Reuß DR, Thürmer A, Daniel R, Quax WJ, Stülke J (2016) Complete genome sequence of Bacillus subtilis subsp. subtilis strain ∆6. Genome Announc 4(4):e00759-16. (doi:10.1128/genomeA.00759-16)

212. Röttig A, Strittmatter CS, Schauer J, Hiessl S, Poehlein A, Daniel R, Steinbüchel A (2016) Genome analysis of the oleaginous Streptomyces strain G25 and characterization of its wax ester synthase/acyl coenzyme A:diacylglycerol acyltransferase (WS/DGAT). Appl Environ Microbiol pii:AEM.01719-16. (doi:10.1128/AEM.01719-16)

211. Thies S, Rausch SC, Kovacic F, Schmidt-Thaler A, Wilhelm S, Rosenau F, Daniel R, Streit W, Pietruszka J, Jaeger KE (2016) Metagenomic discovery of novel enzymes and biosurfactants in a slaughterhouse biofilm microbial community. Sci Rep 6:27035. (doi:10.1038/srep27035)

210. Tiede J, Wemheuer B, Traugott M, Daniel R, Tscharntke T, Ebeling A, Scherber C (2016) Trophic and non-trophic interactions in a biodiversity experiment assessed by Next-Generation Sequencing. PLOS One 11(2):e0148781. (doi:10.1371/journal.pone.0148781)

209. Uhlig R, Poehlein A, Fischer RJ, Daniel R, Bahl H (2016) Genome sequence of the autotrophic acetogen Clostridium magnum DSM 2767. Genome Announc 4(3):e00464-16. (doi:10.1128/genomeA.00464-16)

208. Ullrich SR, González C, Poehlein A, Tischler JS, Daniel R, Schlömann M, Holmes DS and Mühling M (2016) Gene loss and horizontal gene transfer contributed to the genome evolution of the extreme acidophile “Ferrovum”. Front Microbiol 7:797. (doi:10.3389/fmicb.2016.00797)

207. Ullrich SR, Poehlein A, Tischler JS, González C, Ossandon FJ, Daniel R, Holmes DS, Schumann M, Mühling M (2016) Genome analysis of the biotechnologically relevant acidophilic iron oxidising strain JA12 indicates phylogenetic and metabolic diversity within the novel genus “Ferrovum”. PLOS One 11(1):e0146832. (doi:10.1371/journal.pone.0146832)

206. Wemheuer F, Wemheuer B, Kretzschmar D, Pfeiffer B, Herzog S, Daniel R, Vidal S (2016) Impact of grassland management regimes on bacterial endophyte diversity differs with grass species. Lett Appl Microbiol 62(4):323-329. (doi:10.1111/lam.12551)

205. Wüst PK, Nacke H, Kaiser K, Marhan S, Sikorski J, Kandeler E, Daniel R, Overmann J (2016) Estimates of soil bacterial ribosome content and diversity in soils are significantly affected by different nucleic acid extraction methods. Appl Environ Microbiol 82(9):2595-607. (doi:10.1128/AEM.00019-16)

204. Aßhauer KP, Wemheuer B, Daniel R, Meinicke P (2015) Tax4Fun: predicting functional profiles from metagenomic 16S rRNA data. Bioinformatics 31:2882-2884. (doi:10.1093/bioinformatics/btv287)

203. Beck MH, Poehlein A, Bengelsdorf FR, Schiel-Bengelsdorf B, Daniel R, Dürre P (2015) Draft genome sequence of the strict anaerobe Clostridium homopropionicum LuHBu1 (DSM 5847). Genome Announc 3(5):e01112-15. (doi:10.1128/genomeA.01112-15)

202. Bengelsdorf FR, Poehlein A, Esser C, Schiel-Bengelsdorf B, Daniel R, Dürre P (2015) Complete genome sequence of the acetogenic bacterium Moorella thermoacetica DSM 2955T. Genome Announc 3(5):e01157-15. (doi:10.1128/genomeA.01157-15)

201. Bengelsdorf FR, Poehlein A, Schiel-Bengelsdorf B, Daniel R, Dürre P (2015) Genome sequence of the acetogenic bacterium Oxobacter pfennigii DSM 3222T. Genome Announc 3(6):e01408-15. (doi:10.1128/genomeA.01408-15)

200. Burghartz M, Bunk B, Spröer C, Voget S, Daniel R, Overmann J, Jahn M (2015) Complete genome sequence of the urethral catheter isolate Myroides sp. A21. Genome Announc 3(2):e00068-15. (doi:10.1128/genomeA.00068-15)

199. Commichau FM, Alzinger A, Sande R, Bretzel W, Reuß DR, Dormeyer M, Chevreux B, Schuldes J, Daniel R, Akeroyd M, Wyss M, Hohmann HP, Prágai Z (2015) Engineering Bacillus subtilis for the conversion of the antimetabolite 4-hydroxy-L-threonine to pyridoxine. Metab Eng 29:196-207. (doi:10.1016/j.ymben.2015.03.007)

198. Daniel R (2015) Mikrobielle Genomforschung - Schlüsseltechnologie der Lebenswissenschaften. BIOspektrum 21(1):28-29. (doi:10.1007/s12268-015-0530-x)

197. Dib JR, Angelov A, Liebl W, Döbber J, Voget S, Schuldes J, Gorriti M, Farías ME, Meinhardt F, Daniel R (2015) Complete genome sequence of the linear plasmid pJD12 hosted by Micrococcus sp. D12, isolated from a high-altitude volcanic lake in Argentina. Genome Announc 3(3):e00627-15. (doi:10.1128/genomeA.00627-15)

196. Djukic M, Daniel R, Poehlein A (2015) First insights into the genome of Fructobacillus sp. EFB-N1, isolated from honey bee larva infected with European foulbrood. Genome Announc 3(4):e00868-15. (doi:10.1128/genomeA.00868-15)

195. Djukic M, Poehlein A, Strauß J, Tann FJ, Leimbach A, Hoppert M, Daniel R (2015) High quality draft genome of Lactobacillus kunkeei EFB6, isolated from a German European foulbrood outbreak of honeybees. Stand Genomic Sci 10(1):16. (doi:10.1186/1944-3277-10-16)

194. Eidam C, Poehlein A, Leimbach A, Michael GB, Kadlec K, Liesegang H, Daniel R, Sweeney MT, Murray R, Watt J, Schwarz S (2015) Analysis and comparative genomics of ICEMh1, a novel integrative and conjugative element (ICE) of Mannheimia hemolytica. J Antimicrob Chemother 70(1):93-97. (doi:10.1093/jac/dku361)

193. Eisen S, Poehlein A, Johnson DB, Daniel R, Schlömann M, Mühling M (2015) Genome sequence of the acidophilic ferrous iron-oxidizing isolate Acidithrix ferrooxidans strain Py-F3, the proposed type strain of the novel actinobacterial genus Acidithrix. Genome Announc 3(2):e00382-15. (doi:10.1128/genomeA.00382-15)

192. Eisen S, Poehlein A, Johnson DB, Daniel R, Schlömann M, Mühling M (2015) Genome sequence of the acidophilic iron oxidizer Ferrimicrobium acidiphilum strain T23T. Genome Announc 3(2):e00383-15. (doi:10.1128/genomeA.00383-15)

191. Gao R, Krysciak D, Petersen K, Utpatel C, Knapp A, Schmeisser C, Daniel R, Voget S, Jaeger KE, Streit WR (2015) Genome-wide RNA sequencing analysis of quorum sensing-controlled regulons in the plant-associated Burkholderia glumae strain PG1. Appl Environ Microbiol 81(23):7993-8007. (doi:10.1128/AEM.01043-15)

190. Herzog S, Wemheuer F, Wemheuer B, Daniel R (2015) Effects of fertilization and sampling time on composition and diversity of entire and active bacterial communities in German grassland soils. PLOS One 10(3):e0145575. (doi:10.1371/journal.pone.0145575)

189. Ionescu D, Spitzer S, Reimer A, Schneider D, Daniel R, Reitner J, de Beer D, Arp G (2015) Calcium dynamics in microbialite-forming exopolymer-rich mats on the atoll of Kiritimati, Republic of Kiribati, Central Pacific. Geobiology 13:170-180. (doi:10.1111/gbi.12120)

188. Kostner D, Luchterhand B, Junker A, Volland S, Daniel R, Büchs J, Liebl W, Ehrenreich A (2015) The consequence of an additional NADH-dehydrogenase paralog on the growth of Gluconobacter oxydans DSM3504. Appl Microbiol Biotechnol 99(1):375-386. (doi:10.1007/s00253-014-6069-9)

187. Kubiak AM, Poehlein A, Budd P, Kuehne SA, Winzer K, Theys J, Lambin P, Daniel R, Minton NP (2015) Complete genome sequence of the nonpathogenic soil-dwelling bacterium Clostridium sporogenes strain NCIMB 10696. Genome Announc 3(4):e00942-15. (doi:10.1128/genomeA.00942-15)

186. Lang K, Schuldes J, Klingl A, Poehlein A, Daniel R, Brune A (2015) Comparative genome analysis of "Candidatus Methanoplasma termitum" indicates a new mode of energy metabolism in the seventh order of methanogens. Appl Environ Microbiol 81(4):1338-1352. (doi:10.1128/AEM.03389-14)

185. Leimbach A, Poehlein A, Witten A, Scheutz F, Schukken Y, Daniel R, Dobrindt U (2015) Complete genome sequences of Escherichia coli strains 1303 and ECC-1470 isolated from bovine mastitis. Genome Announc 3(2):e00182-15. (doi:10.1128/genomeA.00182-15)

184. Leis B, Heinze S, Angelov A, Pham VT, Thürmer A, Jebbar M, Golyshin PN, Streit WR, Daniel R, Liebl W (2015) Functional screening of hydrolytic activities reveals an extremely thermostable cellulase from a deep-sea archaeon. Front Bioeng Biotechnol 3:95. (doi:10.3389/fbioe.2015.00095)

183. Masri L, Branca A, Sheppard AE, Papkou A, Laehnemann D, Guenther PS, Prahl S, Saebelfeld M, Hollensteiner J, Liesegang H, Brzuszkiewicz E, Daniel R, Michiels NK, Schulte RD, Kurtz J, Rosenstiel P, Telschow A, Bornberg-Bauer E, Schulenburg H (2015) Host-pathogen coevolution: the selective advantage of Bacillus thuringiensis virulence and its cry toxin genes. PLoS Biol 13:e1002169. (doi:10.1371/journal.pbio.1002169)

182. Nacke H, Daniel R (2015) Approaches in metagenome research - progress and challenges. In: Encyclopedia of Metagenomics. SpringerReference (Ed: Nelson, K.). Springer-Verlag Berlin Heidelberg SpringerReference_363415. (doi:10.1007/978-1-4899-7478-5_790)

181. Nesemann K, Braus-Stromeyer SA, Thuermer A, Daniel R, Braus GH (2015) Draft genome sequence of the beneficial rhizobacterium Pseudomonas fluorescens DSM 8569, a natural isolate of oilseed rape (Brassica napus). Genome Announc 3(2):e00137-15. (doi:10.1128/genomeA.00137-15)

180. Nesemann K, Braus-Stromeyer SA, Thuermer A, Daniel R, Mavrodi DV, Thomashow LS, Weller DM, Braus GH (2015) Draft genome sequence of the phenazine-producing Pseudomonas fluorescens strain 2-79. Genome Announc 3(2):e00130-15. (doi:10.1128/genomeA.00130-15)

179. Petzsch P, Poehlein A, Johnson DB, Daniel R, Schlömann M, Mühling M (2015) Genome sequence of the acidophilic sulfate-reducing Peptococcaceae strain CEB3. Genome Announc 3(4):e00886-15. (doi:10.1128/genomeA.00886-15)

178. Petzsch P, Poehlein A, Johnson DB, Daniel R, Schlömann M, Mühling M (2015) Genome sequence of the moderately acidophilic sulfate-reducing firmicute Desulfosporosinus acididurans (strain M1T). Genome Announc 3(4):e00881-15. (doi:10.1128/genomeA.00881-15)

177. Poehlein A, Bandera A, Horne D, Maier J, Pawlowicz D, Siebert V, Daniel R (2015) First insights into the genome of the N-methylhydantoin-degrading Clostridium sp. strain FS41 (DSM 6877). Genome Announc 3(2):e00394-15. (doi:10.1128/genomeA.00394-15)

176. Poehlein A, Bengelsdorf FR, Esser C, Schiel-Bengelsdorf B, Daniel R, Dürre P (2015) Complete genome sequence of the type strain of the acetogenic bacterium Moorella thermoacetica DSM 521T. Genome Announc 3(5):e01159-15. (doi:10.1128/genomeA.01159-15)

175. Poehlein A, Bengelsdorf FR, Schiel-Bengelsdorf B, Daniel R, Dürre P (2015) Draft genome sequence of purine-degrading Gottschalkia purinilyticum (formerly Clostridium purinilyticum WA1 (DSM 1384). Genome Announc 3(5):e01088-15. (doi:10.1128/genomeA.01088-15)

174. Poehlein A, Bengelsdorf FR, Schiel-Bengelsdorf B, Gottschalk G, Daniel R, Dürre P (2015) Complete genome sequence of Rnf- and cytochrome-containing autotrophic acetogen Clostridium aceticum DSM 1496. Genome Announc 3(4):e00786-15. (doi:10.1128/genomeA.00786-15)

173. Poehlein A, Cebulla M, Ilg MM, Bengelsdorf FR, Schiel-Bengelsdorf B, Whited G, Andreesen JR, Gottschalk G, Daniel R, Dürre P (2015) The complete genome sequence of Clostridium aceticum: a missing link between Rnf- and Cytochrome-containing autotrophic acetogens. mBio 6(5):e01168-15. (doi:10.1128/mBio.01168-15)

172. Poehlein A, Daniel R, Simeonova D (2015) Genome sequence of Pedobacter glucosidilyticus DD6b, isolated from zooplankton Daphnia magna. Stand Genomic Sci 10(1):100. (doi:10.1186/s40793-015-0086-x)

171. Poehlein A, Grosse-Honebrink A, Zhang Y, Minton NP, Daniel R (2015) Complete genome sequence of the nitrogen-fixing and solvent-producing Clostridium pasteurianum DSM 525. Genome Announc 3(1):e01591-14. (doi:10.1128/genomeA.01591-14)

170. Poehlein A, Montoya Solano JD, Bengelsdorf FR, Schiel-Bengelsdorf B, Daniel R, Dürre P (2015) Draft genome sequence of purine-degrading Clostridium cylindrosporum HC-1 (DSM 605). Genome Announc 3(4):e00917-15. (doi:10.1128/genomeA.00917-15)

169. Poehlein A, Riegel K, König SM, Leimbach A, Daniel R, Dürre P (2015) Genome sequence of Clostridium sporogenes DSM 795T, an amino acid-degrading, nontoxic surrogate of neurotoxin-producing Clostridium botulinum. Stand Genomic Sci 10(2):40. (doi:10.1186/s40793-015-0016-y)

168. Reuß DR, Schuldes J, Daniel R, Altenbuchner J (2015) Complete genome sequence of Bacillus subtilis subsp. subtilis strain 3NA. Genome Announc 3(2):e00084-15. (doi:10.1128/genomeA.00084-15)

167. Riedel T, Bunk B, Thürmer A, Spröer C, Brzuszkiewicz E, Abt B, Gronow S, Liesegang H, Daniel R, Overmann J (2015) Genome resequencing of the virulent and multidrug-resistant reference strain Clostridium difficile 630. Genome Announc 3(2):e00276-15. (doi:10.1128/genomeA.00276-15)

166. Riedel T, Bunk B, Wittmann J, Thürmer A, Spröer C, Gronow S, Liesegang H, Daniel R, Overmann J (2015) Complete genome sequence of the Clostridium difficile type strain DSM 1296T. Genome Announc 3(5):e01186-15. (doi:10.1128/genomeA.01186-15)

165. Rotta C, Poehlein A, Schwarz K, McClure P, Daniel R, Minton NP (2015) Closed genome sequence of Clostridium pasteurianum ATCC 6013. Genome Announc 3(1):e01596-14. (doi:10.1128/genomeA.01596-14)

164. Schneider D, Engelhaupt M, Allen K, Kurniawan S, Krashevska V, Heinemann M, Nacke H, Wijayanti M, Meryandini A, Corre MD, Scheu S, Daniel R (2015) Impact of lowland rainforest transformation on diversity and composition of soil prokaryotic communities in Sumatra (Indonesia). Front Microbiol 6:01339. (doi:10.3389/fmicb.2015.01339)

163. Schneider D, Reimer A, Hahlbrock A, Arp G, Daniel R (2015) Metagenomic and metatranscriptomic analyses of bacterial communities derived from a calcifying karst water creek biofilm and tufa. Geomicrobiol J 32:316-331. (doi:10.1080/01490451.2014.907376)

162. Ullrich SR, Poehlein A, Daniel R, Tischler JS, Vogel S, Schlömann M, Mühling M (2015) Comparative genomics underlines the functional and taxonomic diversity of novel “Ferrovum” related iron oxidizing bacteria. Advanced Materials Research 1130:15-18. (doi:10.4028/

161. Ullrich SR, Poehlein A, Voget S, Hoppert M, Daniel R, Leimbach A, Tischler JS, Schlömann M, Mühling M (2015) 10:56 (2015) Permanent draft genome sequence of Acidiphilium sp. JA12-A1. Stand Genomic Sci 10(2):56. (doi:10.1186/s40793-015-0040-y)

160. Valera MJ, Poehlein A, Torija MJ, Haack FS, Daniel R, Streit WR, Mateo E, Mas A (2015) Draft Genome sequence of Komagataeibacter europaeus CECT 8546, a cellulose-producing strain of vinegar elaborated by the traditional method. Genome Announc 3(5):e01231-15. (doi:10.1128/genomeA.01231-15)

159. Voget S, Billerbeck S, Simon M, Daniel R (2015) Closed genome sequence of Octadecabacter temperatus SB1, the first mesophilic species of the genus Octadecabacter. Genome Announc 3(5):e01051-15. (doi:10.1128/genomeA.01051-15)

158. Voget S, Bruns H, Wagner-Döbler I, Schulz S, Daniel R (2015) Draft genome sequence of Roseovarius tolerans EL-164, a producer of N-acylated alanine methyl esters and N-acylhomoserine lactones. Genome Announc 3(5):e01096-15. (doi:10.1128/genomeA.01096-15)

157. Voget S, Knapp A, Poehlein A, Vollstedt C, Streit W, Daniel R, Jaeger KE (2015) Complete genome sequence of the lipase producing strain Burkholderia glumae PG1. J Biotechnol 204:3-4. (doi:10.1016/j.jbiotec.2015.03.022)

156. Voget S, Valerio SMD, von Hoyningen-Huene AJE, Nattramilarasu PK, Vollheyde K, Xiao S, Daniel R (2015) Genome sequence of Jannaschia aquimarina GSW-M26, a member of the Roseobacter clade. Genome Announc 3(2):e00353-15. (doi:10.1128/genomeA.00353-15)

155. Voget S, Wemheuer B, Brinkhoff T, Vollmers J, Dietrich S, Giebel H.-A., Beardsley C, Sardemann C, Bakenhus I, Billerbeck S, Daniel R, Simon M (2015) Adaptation of an abundant Roseobacter RCA organism to pelagic systems revealed by genomic and transcriptomic analyses. ISME J 9(2):371-384. (doi:10.1038/ismej.2014.134)

154. Wemheuer B, Wemheuer F, Hollensteiner J, Meyer F-D, Voget S, Daniel R (2015) The green impact: bacterioplankton response towards a phytoplankton spring bloom in the southern North Sea assessed by comparative metagenomic and metatranscriptomic approaches. Front Microbiol 6:805. (doi:10.3389/fmicb.2015.00805)

153. Wietz M, Wemheuer B, Simon H, Giebel HA, Seibt MA, Daniel R, Brinkhoff T, Simon M (2015) Bacterial community dynamics during polysaccharide degradation at contrasting sites in the Southern and Atlantic Oceans. Environ Microbiol 17(10):3822-3831. (doi:10.1111/1462-2920.12842)

152. Wübbeler JH, Hiessl S, Meinert C, Poehlein A, Schuldes J, Daniel R, Steinbüchel A (2015) The genome of Variovorax paradoxus strain TBEA6 provides new understandings for the catabolism of 3,3'-thiodipropionic acid and hence the production of polythioesters. J Biotechnol 209:85-95. (doi:10.1016/j.jbiotec.2015.06.390)

151. Zischka M, Künne CT, Blom J, Wobser D, Sakιnç T, Schmidt-Hohagen K, Dabrowski PW, Nitsche A, Hübner J, Hain T, Chakraborty T, Linke B, Goesmann A, Voget S, Daniel R, Schomburg D, Hauck R, Hafez HM, Tielen P, Jahn D, Solheim M, Sadowy E, Larsen J, Jensen LB, Ruiz-Garbajosa P, Quiñones Pérez D, Mikalsen T, Bender J, Steglich M, Nübel U, Witte W, Werner G (2015) Comprehensive molecular, genomic and phenotypic analysis of a major clone of Enterococcus faecalis MLST ST40. BMC Genomics 16:175. (doi:10.1186/s12864-015-1367-x)

150. Allan E, Bossdorf O, Dormann CF, Prati D, Gossner MM, Tscharntke T, Blüthgen N, Bellach M, Birkhofer K, Boch S, Böhm S, Börschig C, Chatzinotas A, Christ S, Daniel R, Diekötter T, Fischer C, Friedl T, Glaser K, Hallmann C, Hodac L, Hölzel N, Jung K, Klein AM, Klaus VH, Kleinebecker T, Krauss J, Lange M, Morrisu EK, Müller J, Nacke H, Pašalic E, Rillig MC, Rothenwöhrer C, Schall P, Scherber C, Schulze W, Socher SA, Steckel J, Steffan-Dewenter I, Türke M, Weiner CN, Werner M, Westphal C, Wolters V, Wubet T, Gockel S, Gorke M, Hemp A, Renner SC, Schöning I, Pfeiffer S, König-Ries B, Buscot F, Linsenmair KE, Schulze E-D, Weisser WW, Fischer M (2014) Interannual variation in land-use intensity enhances grassland multidiversity. PNAS 111(1):308-313. (doi:10.1073/pnas.1312213111)

149. Brady S and Daniel R (2014) Glacier Metagenomics. In: Encyclopedia of Metagenomics: SpringerReference (Ed: Nelson, K.). Springer-Verlag Berlin Heidelberg .

148. Brandt U, Hiessl S, Schuldes J, Thürmer A, Wübbeler JH, Daniel R, Steinbüchel A (2014) Genome-guided insights into the versatile metabolic capabilities of the mercaptosuccinate-utilizing β-proteobacterium Variovorax paradoxes strain B4. Environ Microbiol 16(11):3370-3386. (doi:10.1111/1462-2920.12340)

147. Broszat M, Nacke H, Blasi R, Siebe C , Huebner J, Daniel R, Grohmann E (2014) Wastewater irrigation increases abundance of potentially harmful Gammaproteobacteria in soils from Mezquital Valley, Mexico. Appl Environ Microbiol 80:5282-5291. (doi:10.1128/AEM.01295-14)

146. Curson ARJ, Burns OJ, Voget S, Daniel R, Todd JD, McInnis K, Wexler M, Johnston AWB (2014) Screening of metagenomic and genomic libraries reveals three classes of bacterial enzymes that overcome the toxicity of acrylate. PLOS One 9(5):e97660. (doi:10.1371/journal.pone.0097660)

145. Djukic M, Brzuszkiewicz E, Fünfhaus A, Voss J, Gollnow K, Poppinga L, Liesegang H, Garcia-Gonzalez E, Genersch E, Daniel R (2014) How to kill the honey bee larva: genomic potential and virulence mechanisms of Paenibacillus larvae. PLOS One 9(3):e90914. (doi:10.1371/journal.pone.0090914)

144. Handtke S, Volland S, Methling K, Albrecht D, Becher D, Nehls J, Bongaerts J, Maurer K-H, Lalk M, Liesegang H, Voigt B, Daniel R, Hecker H (2014) Cell physiology of the biotechnological relevant bacterium Bacillus pumilus – an omics-based approach. J Biotechnol 192(A):204-214. (doi:10.1016/j.jbiotec.2014.08.028)

143. Hess V, Poehlein A, Weghoff MC, Daniel R, Müller V (2014) A genome-guided analysis of energy conservation in the thermophilic, cytochrome-free acetogenic bacterium Thermoanaerobacter kivui. BMC Genomics 15:1139. (doi:10.1186/1471-2164-15-1139)

142. 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 (2014) 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 9:e106707. (doi:10.1371/journal.pone.0106707)

141. Jousset A, Schuldes J, Keel C, Maurhofer M, Daniel R, Scheu S, Thürmer A (2014) Full-genome sequence of the plant growth-promoting bacterium Pseudomonas protegens CHA0. Genome Announc 2(2):e00322-14. (doi:10.1128/genomeA.00322-14)

140. Luo Q, Hiessl S, Poehlein A, Daniel R, Steinbüchel A (2014) Insights into the microbial degradation of rubber and gutta-percha by analysis of the complete genome of Nocardia nova SH22a. Appl Environ Microbiol 80(13):3895-3907. (doi:10.1128/AEM.00473-14)

139. Nacke H, Fischer C, Thürmer A, Meinicke P, Daniel R (2014) Land use type significantly affects microbial gene transcription in soil. Microb Ecol 67:919–930. (doi:10.1007/s00248-014-0377-6)

138. Poehlein A, Alghaithi HS, Chandran L, Chibani CM, Davydova E, Dhamotharan K, Ge W, Gutierrez-Gutierrez DA, Jagirdar A, Khonsari B, Nair KPPR, Daniel R (2014) First insights into the genome of the amino acid-metabolizing bacterium Clostridium litorale DSM 5388. Genome Announc 2(4):e00754-14. (doi:10.1128/genomeA.00754-14)

137. Poehlein A, Andreesen JR, Daniel R (2014) Complete genome sequence of amino acid-utilizing Eubacterium acidaminophilum al-2 (DSM 3953). Genome Announc 2(3):e00573-14. (doi:10.1128/genomeA.00573-14)

136. Poehlein A, Freese HM, Daniel R, Simeonova DD (2014) Draft genome sequence of Serratia sp. strain DD3, ssolated from the guts of Daphnia magna. Genome Announc 2(5):e00903-14. (doi:10.1128/genomeA.00903-14)

135. Poehlein A, Krabben P, Dürre P, Daniel R (2014) Complete genome sequence of the solvent producer Clostridium saccharoperbutylacetonicum strain DSM 14923. Genome Announc 2(5):e01056-14. (doi:10.1128/genomeA.01056-14)

134. Röske I, Sabra W, Nacke H, Daniel R, Zeng AP, Antranikian G, Sahm K (2014) Microbial community composition and dynamics in high-temperature biogas reactors using industrial bioethanol waste as substrate. Appl Microbiol Biotechnol 98(21):9095-9106. (doi:10.1007/s00253-014-5906-1)

133. Sood S, Steinmetz H, Beims H, Mohr KI, Stadler M, Djukic M, von der Ohe W, Steinert M, Daniel R, Müller R. (2014) Paenilarvins: Iturin family lipopeptides from the honey bee pathogen Paenibacillus larvae. Chembiochem 15:1947-1955. (doi:10.1002/cbic.201402139)

132. Weise T, Thürmer A, Brady S, Kai M, Daniel R, Gottschalk G, Piechulla B (2014) VOC emission of various Serratia species and isolates and genome analysis of Serratia plymuthica 4Rx13. FEMS Microbiol Lett 352(1):45-53. (doi:10.1111/1574-6968.12359)

131. Wemheuer B, Güllert S, Billerbeck S, Giebel H-A, Voget S, Simon M, Daniel R (2014) Impact of a phytoplankton bloom on the diversity of the active bacterial community in the southern North Sea as revealed by metatranscriptomic approaches. FEMS Microbiology Ecology 87:378-389. (doi:10.1111/1574-6941.12230)

130. Wübbeler JH, Hiessl S, Schuldes J, Thürmer A, Daniel R, Steinbüchel A (2014) Unraveling the complete genome sequence of Advenella mimigardefordensis strain DPN7T and novel insights in the catabolism of the xenobiotic polythioester-precursor 3,3'-dithiodipropionate. Microbiol 160(Pt 7):1401-1416. (doi:10.1099/mic.0.078279-0)

129. Berlemont R, Spee O, Delsaute M, Lara Y, Schuldes J, Simon C, Power P, Daniel R, Galleni M (2013) Novel organic solvent-tolerant esterase isolated by metagenomics: insights into the lipase/esterase classification. Revista Argentina de Microbiología 45:3-12. (abstract)

128. Blumenberg M, Arp G, Reitner J, Schneider D, Daniel R, Thiel V (2013) Bacteriohopanepolyols in a stratified cyanobacterial mat from Kiritimati (Christmas Island, Kiribati). Org Geochem 55:55-62. (doi:10.1016/j.orggeochem.2012.11.004)

127. Bruns H, Thiel V, Voget S, Patzelt D, Daniel R, Wagner-Döbler I, Schulz S (2013) N-Acylated alanine methyl esters (NAMEs) from Roseovarius tolerans, structural analogs of quorum-sensing autoinducers, N-acylhomoserine lactones. Chemistry & Biodiversity 10(9):1559-1573. (doi:10.1002/cbdv.201300210)

126. Brzuszkiewicz E, Schulz T, Rydzewski K, Daniel R, Gillmaier N, Dittmann C, Holland G, Schunder E, Lautner M, Eisenreich W, Lück C, Heuner K (2013) Legionella oakridgensis ATCC 33761 genome sequence and phenotypic characterization reveals its replication capacity in amoebae. Int J Med Microbiol 303(8):514-528. (doi:10.1016/j.ijmm.2013.07.003)

125. Cesarz S, Fender A-C, Beyer F, Valtanen K, Pfeiffer B, Gansert D, Hertel D, Polle A, Daniel R, Christoph Leuschner C, Scheu S (2013) Roots from beech (Fagus sylvatica L.) and ash (Fraxinus excelsior L.) differentially affect soil microorganisms and carbon dynamics. Soil Biol Biochem 61:23-32. (doi:10.1016/j.soilbio.2013.02.003)

124. Dib JR, Schuldes J, Thürmer A, Farias ME, Daniel R, Meinhardt F (2013) First complete sequence of a giant linear plasmid from a Micrococcus strain isolated from an extremely high-altitude lake. Genome Announc 1(6):e00885-13. (doi:10.1128/genomeA.00885-13)

123. Dib JR, Schuldes J, Thürmer A, Farias ME, Daniel R, Meinhardt F (2013) Complete genome sequence of pAP13, a large linear plasmid of a Brevibacterium strain isolated from a saline lake at 4,200 meters above sea level in Argentina. Genome Announc 1(6):e00878-13. (doi:10.1128/genomeA.00878-13)

122. Eidam C, Poehlein A, Brenner Michael G, Kadlec K, Liesegang H, Brzuszkiewicz E, Daniel R, Sweeney MT, Murray RC, Watts JL, Schwarz S (2013) Complete genome sequence of Mannheimia haemolytica strain 42548 from a case of bovine respiratory disease. Genome Announc 1(3):e00318-13. (doi:10.1128/genomeA.00318-13)

121. Fraunholz M, Bernhardt J, Schuldes J, Daniel R, Hecker M, Sinhad B (2013) Complete genome sequence of Staphylococcus aureus 6850, a highly cytotoxic and clinically virulent Methicillin-sensitive strain with distant relatedness to prototype strains. Genome Announc 1(5):e00775-13. (doi:10.1128/genomeA.00775-13)

120. Giebel H-G, Kalhoefer D, Gahl-Janssen R, Choo Y-J, Lee K, Cho J-C, Tindall BJ, Rhiel E, Beardsley C, Aydogmus ÖO, Voget S, Daniel R, Simon M, Brinkhoff T (2013) Planktomarina temperata gen. nov., sp. nov., belonging to the globally distributed RCA cluster of the marine Roseobacter clade, isolated from the German Wadden Sea. Int J Syst Evol Microbiol 63:4207–4217. (doi:10.1099/ijs.0.053249-0)

119. Hornung C, Poehlein A, Haack FS, Schmidt M, Dierking K, Pohlen A, Schulenburg H, Blokesch M, Plener L, Jung K, Bonge A, Krohn-Molt I, Utpatel C, Timmermann G, Spieck E, Pommerening-Röser A, Bode E, Bode HB, Daniel R, Schmeisser C, Streit WR (2013) The Janthinobacterium sp. HH01 genome encodes a homologue of the V. cholerae CqsA and L. pneumophila LqsA autoinducer synthases. PLOS ONE 8(2):e55045. (doi:10.1371/journal.pone.0055045)

118. Kabisch J, Thürmer A, Hübel T, Popper L, Daniel R, Schweder T (2013) Characterization and optimization of Bacillus subtilis ATCC 6051 as an expression host. J Biotechnol 163(2):97-104. (doi:10.1016/j.jbiotec.2012.06.034)

117. Klingenberg H, Martinjak R, Glöckner FO, Daniel R, Lingner T, Meinicke P (2013) Dinucleotide distance histograms for fast detection of rRNA in metatranscriptomic sequences. OASIcs 34:80-89. (doi:10.4230/OASIcs.GCB.2013.80)

116. Krohn-Molt I, Wemheuer B, Alaw Mi, Poehlein A, Güllert S, Schmeisser C, Pommerening-Röser A, Grundhoff A, Daniel R, Hanelt D, Streit WR (2013) Metagenome survey of a multispecies and algae-associated biofilm reveals key elements of bacterial-algae interactions in photobioreactors. Appl Environ Microbiol 79(20):6196-6206. (doi:10.1128/AEM.01641-13)

115. Kuenne C, Billion A, Mraheil MA, Strittmatter A, Daniel R, Goesmann A, Barbuddhe S, Hain T, Chakraborty T (2013) Reassessment of the Listeria monocytogenes pan-genome reveals dynamic integration hotspots and mobile genetic elements as major components of the accessory genome. BMC Genomics 14:47. (doi:10.1186/1471-2164-14-47)

114. Mientus M, Brady S, Angelov A, Zimmermann P, Wemheuer B, Schuldes J, Daniel R, Liebl W (2013) Thermostable xylanase and β-glucanase derived from the metagenome of the Avachinsky Crater in Kamchatka (Russia) . Current Biotechnology 2:284-293. (doi:10.2174/2211550102999131128150257)

113. Mosler S, Poehlein A, Voget S, Daniel R, Kipry J, Schlömann M, Mühling M (2013) Predicting the metabolic potential of the novel iron oxidising bacterium “Ferrovum” sp. JA12 using comparative genomics. Advanced Materials Research 825:153-156. (doi:10.4028/

112. Pfeiffer B, Fender A-C, Lasota S, Hertel D, Jungkunst HF, Daniel R (2013) Leaf litter is the main driver for changes in bacterial community structures in the rhizosphere of ash and beech. Applied Soil Ecology 72:150-160. (doi:10.1016/j.apsoil.2013.06.008)

111. Poehlein A, Daniel R, Schink B, Simeonova DD (2013) Life based on phosphite: a genome-guided analysis of Desulfotignum phosphitoxidans. BMC Genomics 14:753. (doi:10.1186/1471-2164-14-753)

110. Poehlein A, Daniel R, Simeonova DD (2013) Draft Genome Sequence of Desulfotignum phosphitoxidans DSM 13687 Strain FiPS-3. Genome Announc 1(3):e00227-13. (doi:10.1128/genomeA.00227-13)

109. Poehlein A, Deutzmann JS, Daniel R, Simeonova DD (2013) Draft genome sequence of the methanotrophic Gammaproteobacterium Methyloglobulus morosus DSM 22980 strain KoM1. Genome Announc 1:e01078-13. (doi:10.1128/genomeA.01078-13)

108. Poehlein A, Gottschalk G, Daniel R (2013) First insights into the genome of the Gram-negative, endospore-forming organism Sporomusa ovata strain H1 DSM 2662. Genome Announc 1(5):e00734-13. (doi:10.1128/genomeA.00734-13)

107. Poehlein A, Hartwich K, Krabben P, Ehrenreich A, Liebl W, Dürre P, Gottschalk G, Daniel R (2013) Complete genome sequence of the solvent producer Clostridium saccharobutylicum NCP262 (DSM 13864). Genome Announc 1(6):e00997-13. (doi:10.1128/genomeA.00997-13)

106. Poehlein A, Zverlov VV, Daniel R, Schwarz WH, Liebl W (2013) Complete genome sequence of Clostridium stercorarium subsp. stercorarium strain DSM 8532, a thermophilic degrader of plant cell wall fibers. Genome Announc 1(2):e00073-13. (doi:10.1128/genomeA.00073-13)

105. Rachinger M, Bauch M, Strittmatter A, Bongaerts J, Evers S, Maurer KH, Daniel R, Liebl W, Liesegang H, Ehrenreich A (2013) Size unlimited markerless deletions by a transconjugative plasmid-system in Bacillus licheniformis. J Biotechnol 167(4):365–369. (doi:10.1016/j.jbiotec.2013.07.026)

104. Rachinger M, Volland S, Meinhardt F, Daniel R, Liesegang H. (2013) First insights into the completely annotated genome sequence of Bacillus licheniformis strain 9945A. Genome Announc 1(4):e00525-13. (doi:10.1128/genomeA.00525-13)

103. Sahm K, John P, Nacke H, Wemheuer B, Grote R, Daniel R, Antranikian G (2013) High abundance of heterotrophic prokaryotes in hydrothermal springs of the Azores as revealed by a network of 16S rRNA gene-based methods. Extremophiles 17:649-662. (doi:10.1007/s00792-013-0548-2)

102. Schlömann M, Kipry J, Mosler S, Poehlein A, Keller A, Janneck E, Erler B, Tominski C, Jaffer Jwair R, Gelhaar N, Seifert J, Daniel R, Mühling M (2013) Physiological, genomic, and proteomic characterization of new “Ferrovum” strains obtained from a pilot plant for mine-water treatment. Advanced Materials Research 825:149-152. (doi:10.4028/

101. Schneider D, Arp G, Reimer A, Reitner J,Daniel R (2013) Phylogenetic analysis of a microbialite-forming microbial mat from a hypersaline lake of the Kiritimati Atoll, Central Pacific. PLOS ONE 8(6):e66662. (doi:10.1371/journal.pone.0066662)

100. Vollmers J, Voget S, Dietrich S, Gollnow K, Smits M, Meyer K, Brinkhoff T, Simon M, Daniel R (2013) Poles apart: arctic and antarctic Octadecabacter strains share high genome plasticity and a new type of xanthorhodopsin. PLoS One 8(5):e63422. (doi:10.1371/journal.pone.0063422)

99. Wemheuer B, Taube R, Akyol P, Wemheuer F, Daniel R (2013) Microbial diversity and biochemical potential encoded by thermal spring metagenomes derived from the Kamchatka peninsula. Archaea 2013: Article ID 136714. (doi:10.1155/2013/136714)

98. Wiegand S, Dietrich S, Hertel R, Bongaerts J, Evers S, Volland S, Daniel R, Liesegang H (2013) RNA-Seq of Bacillus licheniformis: active regulatory RNA features expressed within a productive fermentation. BMC Genomics 14:667. (doi:10.1186/1471-2164-14-667)

97. Wiegand S, Rabausch U, Chow J, Daniel R, Streit WR, Liesegang H (2013) Complete genome sequence of Geobacillus sp. strain GHH01, a thermophilic lipase-secreting bacterium. Genome Announc 1(2):e00092-13. (doi:10.1128/genomeA.00092-13)

96. Wiegand S, Voigt B, Albrecht D, Bongaerts J, Evers S, Hecker M, Daniel R, Liesegang H (2013) Fermentation stage-dependent adaptations of Bacillus licheniformis during enzyme production. Microb Cell Fact 12:120. (doi:10.1186/1475-2859-12-120)

95. Birkhofer K, Schöning I, Alt F, Herold N, Klarner B, Maraun M, Marhan S, Oelmann Y, Wubet T, Yurkov A, Begerow D, Berner D, Buscot F, Daniel R, Diekötter T, Ehnes RB, Erdmann G, Fischer C, Foesel B, Groh J, Gutknecht J, Kandeler E, Lang C, Lohaus G, Meyer A, Nacke H, Näther A, Overmann J, Polle A, Pollierer MM, Scheu S, Schloter M, Schulze ED, Schulze W, Weinert J, Weisser WW, Wolters V, Schrumpf M (2012) General relationships between abiotic soil properties and soil biota across spatial scales and different land-use types. PLoS One 7(8):e43292. (doi:10.1371/journal.pone.0043292)

94. Brinkhoff T, Fischer D, Vollmers J, Voget S, Beardsley C, Thole S, Mussmann M, Kunze B, Wagner-Döbler I, Daniel R, Simon M (2012) Biogeography and phylogenetic diversity of a cluster of exclusively marine myxobacteria. ISME J 6(6):1260-1272. (doi:10.1038/ismej.2011.190)

93. Brzuszkiewicz E, Waschkowitz T, Wiezer A, Daniel R (2012) The complete genome sequence of the B12-producing Shimwellia blattae strain DSM 4481 isolated from a cockroach. J Bacteriol 194(16):4436. (doi:10.1128/JB.00829-12)

92. Danielsen L, Thürmer A, Meinicke P, Buée M, Morin E, Martin F, Pilate G, Daniel R, Polle A, Reich M (2012) Fungal soil communities in a young transgenic poplar plantation form a rich reservoir for fungal root communities. Ecol Evol 2(8):1935-1948. (doi:10.1002/ece3.305)

91. Djukic M, Becker D, Poehlein A, Voget S, Daniel R (2012) Genome sequence of Paenibacillus alvei DSM 29, a secondary invader during european foulbrood outbreaks. J Bacteriol 194(22):6365. (doi:10.1128/JB.01698-12)

90. Fender AC, Pfeiffer B, Gansert D, Leuschner C, Daniel R, Jungkunst HF (2012) The inhibiting effect of nitrate fertilisation on methane uptake of a temperate forest soil is influenced by labile carbon. Biol Fertil Soils 48:621-31. (doi:10.1007/s00374-011-0660-3)

89. Gardebrecht A, Markert S, Sievert SM, Felbeck H, Thürmer A, Albrecht D, Wollherr A, Kabisch J, Le Bris N, Lehmann R, Daniel R, Liesegang H, Hecker M, Schweder T (2012) Physiological homogeneity among the endosymbionts of Riftia pachyptila and Tevnia jerichonana revealed by proteogenomics. ISME J 6(4):766-776. (doi:10.1038/ismej.2011.137)

88. Hartwich K, Poehlein A, Daniel R (2012) The purine-utilizing bacterium Clostridium acidurici 9a: A genome-guided metabolic reconsideration. PLoS ONE 7(12):e51662. (doi:10.1371/journal.pone.0051662)

87. Hiessl S, Schuldes J, Thürmer A, Halbsguth T, Bröker D, Angelov A, Liebl W, Daniel R, Steinbüchel A (2012) Involvement of two latex clearing proteins during rubber degradation and insights into the further degradation pathway revealed by the genome sequence of Gordonia polyisoprenivorans strain VH2. Appl Environ Microbiol 78:2874-87. (doi:10.1128/AEM.07969-11)

86. Kemmling A, Pfeiffer B, Daniel R, Hoppert M (2012) Bacterial diversity in biological soil crusts from extrazonal mountain dry steppes in northern Mongolia. Erforsch. biol. Ress. Mongolei 12:437-449. (abstract)

85. Krüger D, Kapturska D, Fischer C, Daniel R, Wubet T (2012) Diversity measures in environmental sequences are highly dependent on alignment quality — data from ITS and new LSU primers targeting basidiomycetes. PLoS One 7(2):e32139. (doi:10.1371/journal.pone.0032139)

84. Michael GB, Kadlec K, Sweeney MT, Brzuszkiewicz E, Liesegang H, Daniel R, Murray RW, Watts JL, Schwarz S (2012) ICEPmu1, an integrative conjugative element (ICE) of Pasteurella multocida: structure and transfer. J Antimicrob Chemother 67(1):91-100. (doi:10.1093/jac/dkr411)

83. Michael GB, Kadlec K, Sweeney MT, Brzuszkiewicz E, Liesegang H, Daniel R, Murray RW, Watts JL, Schwarz S (2012) ICEPmu1, an integrative conjugative element (ICE) of Pasteurella multocida: analysis of the regions that comprise 12 antimicrobial resistance genes. J Antimicrob Chemother 67(1):84-90. (doi:10.1093/jac/dkr406)

82. Mühling M, Mosler S, Poehlein A, Voget S, Daniel R, Kipry J, Schlömann M (2012) Genomanalyse eines neuartigen bergbaurelevanten Eisenoxidierers. Chemie Ingenieur Technik 84(8):1255-1257. (doi:10.1002/cite.201250135)

81. Nacke H, Engelhaupt M, Brady S, Fischer C, Tautzt J, Daniel R (2012) Identification and characterization of novel cellulolytic and hemicellulolytic genes and enzymes derived from German grassland soil metagenomes. Biotechnol Lett 34(4):663-75. (doi:10.1007/s10529-011-0830-2)

80. Niewerth H, Schuldes J, Parschat K, Kiefer P, Vorholt JA, Daniel R, Fetzner S (2012) Complete genome sequence and metabolic potential of the quinaldine-degrading bacterium Arthrobacter sp. Rue61a. BMC Genomics 13(1):534. (doi:10.1186/1471-2164-13-534)

79. Oehler D, Poehlein A, Leimbach A, Müller N, Daniel R, Gottschalk G, Schink B (2012) Genome-guided analysis of physiological and morphological traits of the fermentative acetate oxidizer Thermacetogenium phaeum. BMC Genomics 13:723. (doi:10.1186/1471-2164-13-723)

78. Poehlein A, Schmidt S, Kaster A-C, Goenrich M, Vollmers J, Thürmer A, Bertsch J, Schuchmann K, Voigt B, Hecker M, Daniel R, Thauer RK, Gottschalk G, Müller V (2012) An ancient pathway combining carbon dioxide fixation with the generation and utilization of a sodium ion gradient for ATP synthesis. PLoS One 7(3):e33439. (doi:10.1371/journal.pone.0033439)

77. Schuldes J, Orbegoso MR, Schmeisser C, Krishnan H, Daniel R, Streit W (2012) Complete genome sequence of the broad-host-range strain Sinorhizobium fredii USDA257. J Bacteriol 194(16):4483. (doi:10.1128/JB.00966-12)

76. Spang A, Poehlein A, Offre P, Zumbrägel S, Haider S, Rychlik N, Nowka B, Schmeisser C, Lebedeva EV, Rattei T, Böhm C, Schmid M, Galushko A, Hatzenpichler R, Weinmaier T, Daniel R, Schleper C, Spieck E, Streit W, Wagner M (2012) The genome of the ammonia-oxidizing Candidatus Nitrososphaera gargensis: Insights into metabolic versatility and environmental adaptations. Environ Microbiol 14(12):3122-3145. (doi:10.1111/j.1462-2920.2012.02893.x)

75. Thole S, Kalhoefer D, Voget S, Berger M, Engelhardt T, Liesegang H, Wollherr A, Kjelleberg S, Daniel R, Simon M, Thomas T, Brinkhoff T (2012) Phaeobacter gallaeciensis genomes from globally opposite locations reveal high similarity of adaptation to surface life. ISME J 6(12):2229-2244. (doi:10.1038/ismej.2012.62)

74. Wemheuer B, Wemheuer F, Daniel R (2012) RNA-based assessment of diversity and composition of active archaeal communities in the German Bight. Archaea 2012: Article ID 695826. (doi:10.1155/2012/695826)

73. Wrede C, Brady S, Rockstroh S, Dreier A, Kokoschka S, Heinzelmann SM, Heller C, Reitner J, Taviani M, Daniel R, Hoppert M (2012) Aerobic and anaerobic methane oxidation in terrestrial mud volcanoes in the Northern Apennines. Sedim Geol 263-264:210-219. (doi:10.1016/j.sedgeo.2011.06.004)

72. Becker K, Mutter W, Daniel R, Rudack C, Peschel A, Pieper DH (2011) Bakterielle Untermieter in der menschlichen Nase. GENOMXPRESS 1.11:8-10. (abstract)

71. Bijtenhoorn P, Mayerhofer H, Müller-Dieckmann J, Utpatel C, Schipper C, Hornung C, Szesny M, Grond S, Thürmer A, Brzuszkiewicz E, Daniel R, Dierking K, Schulenburg H, Streit WR (2011) A novel metagenomic short-chain dehydrogenase/reductase attenuates Pseudomonas aeruginosa biofilm formation and virulence on Caenorhabditis elegans. PLoS ONE 6(10):e26278. (doi:10.1371/journal.pone.0026278)

70. Bletz S, Schuldes J, Brzuszkiewicz E, Daniel R, Gottschalk G, Karch H, Mellmann A (2011) Evolutionary events in enterohemorrhagic Escherichia coli (EHEC) O26:H11. Int J Med Microbiol 301:(Supplement 47):115.

69. Brzuszkiewicz E, Thürmer A, Schuldes J, Leimbach A, Liesegang H, Meyer FD, Boelter J, Petersen H, Gottschalk G, Daniel R (2011) Genome sequence analyses of two isolates from the recent Escherichia coli outbreak in Germany reveal the emergence of a new pathotype: Entero-Aggregative-Haemorrhagic Escherichia coli (EAHEC). Arch Microbiol 193(12):883-891. (doi:10.1007/s00203-011-0725-6)

68. Brzuszkiewicz E, Weiner J, Wollherr A, Thürmer A, Hüpeden J, Lomholt HB, Kilian M, Gottschalk G, Daniel R, Mollenkopf H-J, Meyer TF, Brüggemann H (2011) Comparative genomics and transcriptomics of Propionibacterium acnes. PLoS ONE 6:e21581. (doi:10.1371/journal.pone.0021581)

67. Daniel R (2011) Soil-based metagenomics. In: Handbook of Molecular Microbial Ecology II: Metagenomics in Different Habitats. de Bruijn FJ (ed.), pp. 83-92. John Wiley & Sons, Inc. .

66. Djukic M, Poehlein A, Thürmer A, Daniel R (2011) Genome sequence of Brevibacillus laterosporus LMG 15441, a pathogen of invertebrates. J Bacteriol 193(19):5535-5536. (doi:10.1128/JB.05696-11)

65. Gounder K, Brzuszkiewicz E, Liesegang H, Wolherr A, Daniel R, Gottschalk G, Reva O, Kumwenda B, Srivastava M, Bricio C, Berenguer J, van Heerden E, Litthauer D (2011) Sequence of the hyperplastic genome of the naturally competent Thermus scotoductus SA-01. BMC Genomics 12(1):577. (doi:10.1186/1471-2164-12-577)

64. Hoff KH, Tech M, Lingner T, Daniel R, Morgenstern B, Meinicke P (2011) Gene prediction in metagenomic fragments with Orphelia: a large scale machine learning approach. In: Handbook of Molecular Microbial Ecology I: Metagenomics and Complementary Approaches, pp. 359-368. de Bruijn FJ (ed.), John Wiley & Sons, Inc . (doi:10.1186/1471-2105-9-217)

63. Kadlec K, Brenner Michael G, Sweeney MT, Brzuszkiewicz E, Liesegang H, Daniel R, Watts JL, Schwarz S (2011) Molecular basis of macrolide, triamilide and lincosamide resistance in Pasteurella multocida from bovine respiratory disease. Antimicrob Ag Chemoth 55:2475-2477. (doi:10.1128/AAC.00092-11)

62. Kalhoefer D, Thole S, Voget S, Lehmann R, Liesegang H, Wollher A, Daniel R, Simon M, Brinkhoff T (2011) Comparative genome analysis and genome-guided physiological analysis of Roseobacter litoralis. BMC Genomics 12:324. (doi:10.1186/1471-2164-12-324)

61. Markert S, Gardebrecht A, Felbeck H, Sievert SM, Klose J, Becher D, Albrecht D, Thürmer A, Daniel R, Kleiner M, Hecker M, Schweder T (2011) Status quo in physiological proteomics of the uncultured Riftia pachyptila endosymbiont. Proteomics 11:3106-3117. (doi:10.1002/pmic.201100059)

60. Nacke H, Thürmer A, Wollherr A, Will C, Hodac L, Herold N, Schöning I, Schrumpf M, Daniel R (2011) Pyrosequencing-based assessment of bacterial community structure along different management types in German forest and grassland soils. PLoS One 6(2):e17000. (doi:10.1371/journal.pone.0017000)

59. Nacke H, Will C, Herzog S, Nowka B, Engelhaupt M, Daniel R (2011) Identification of novel lipolytic genes and gene families by screening of metagenomic libraries derived from soil samples of the German Biodiversity Exploratories. FEMS Microbiol Ecol 78(1):188-201. (doi:10.1111/j.1574-6941.2011.01088.x)

58. Poehlein A, Kusian B, Friedrich B, Daniel R, Bowien B (2011) Complete genome sequence of the type strain Cupriavidus necator N-1. J Bacteriol 193(18):5017. (doi:10.1128/JB.05660-11)

57. Rechnitzer H, Brzuszkiewicz E, Strittmatter A, Liesegang H, Lysnyansky I, Daniel R, Gottschalk G, and Rottem S (2011) Genomic features and insights into the biology of Mycoplasma fermentans. Microbiology 157:760-773. (doi:10.1099/mic.0.043208-0)

56. Simon C, Daniel R (2011) Metagenome analyses: past and future trends. Appl Environ Microbiol 77(4):1153–1161. (doi:10.1128/AEM.02345-10)

55. Voget S, Klippel B, Daniel R, Antranikian G (2011) Complete genome sequence of Carnobacterium sp. 17-4. J Bacteriol 193:3403-3404. (doi:10.1128/JB.05113-11)

54. Volland S, Rachinger M, Strittmatter A, Daniel R, Gottschalk G, Meyer O (2011) Complete genome sequences of the chemolithoautotrophic strains Oligotropha carboxidovorans OM4 and OM5. J Bacteriol 193:5043. (doi:10.1128/JB.05619-11)

53. Angelov A, Liebl S, Ballschmiter M, Bömeke M, Lehmann R, Liesegang H, Daniel R, Liebl W (2010) Genome sequence of the polysaccharide-degrading, thermophilic anaerobe Spirochaeta thermophila DSM 6192. J Bacteriol 192:6492-6493. (doi:10.1128/JB.01023-10)

52. Farnbacher M, Jahns T, Willrodt D, Daniel R, Haas R, Goesmann R, Kurtz S, Rieder G (2010) Sequencing, annotation, and comparative genome analysis of the gerbil-adapted Helicobacter pylori strain HPB8. BMC Genomics 11:335. (doi:10.1186/1471-2164-11-335)

51. Kuenne C, Voget S, Pischimarov J, Oehm S, Goesmann A, Daniel R, Hain T, Chakraborty T (2010) Comparative analysis of plasmids in the genus Listeria. PLoS ONE 5(9):e12511. (doi:10.1371/journal.pone.0012511)

50. Leimbach A, Brzuszkiewicz E, Thürmer A, Daniel R, Gottschalk G, Dobrindt U (2010) Elucidation of the complete genome sequence of Escherichia coli acute bovine mastitis isolate 1303: implications for host-pathogen interactions. Reprod Dom Anim 45: (Supplement 1):29.

49. Schreiber F, Gumrich P, Daniel R, Meinicke P (2010) Treephyler: fast taxonomic profiling of metagenomes. Bioinformatics 26:960-961. (doi:10.1093/bioinformatics/btq070)

48. Simon C, Daniel R (2010) Construction of small-insert and large-insert metagenomic libraries. Methods Mol Biol 668:39-50. (doi:10.1007/978-1-60761-823-2_2)

47. Streit RW, Daniel R (2010) Metagenomics: Methods and Protocols (Methods in Molecular Biology, Vol. 668), W. Streit, R. Daniel (eds.), Humana Press, Springer Verlag. .

46. Wagenknecht M, Dib JR, Thürmer A, Daniel R, Farias ME, Meinhardt F (2010) Structural peculiarities of the linear megaplasmid, pLMA1, from Micrococcus luteus interfere with pyrosequencing reads assembly. Biotechnol Lett 32(12):1853-1862. (doi:10.1007/s10529-010-0357-y)

45. Wagner-Döbler I, Baumgart B, Brinkhoff T, Buchholz I, Bunk B, Cypionka H, Daniel R, Drepper T, Gerdts G, Hahnke S, Han C, Jahn D, Kalhoefer D, Kiss H, Klenk HP, Kyrpides N, Liebl W, Liesegang H, Meincke L, Petersen J, Piekarski T, Pommerenke C, Pradella S, Pukall R, Rabus R, Stackebrandt E, Thole S, Thompson S, Tielen P, Tomasch J, von Jan M, Wanphrut N, Wichels A, Zech H, Simon M (2010) The complete genome sequence of the algal symbiont Dinoroseobacter shibae - a hitchhiker`s guide to life in the sea. ISME J 4:61-77. (doi:10.1038/ismej.2009.94)

44. Will C, Nacke H, Thürmer A, Daniel R (2010) Charakterisierung und Nutzung der bakteriellen Diversität in Bodenmetagenomen. GENOMXPRESS 1.10:9-11. (abstract)

43. Will C, Thürmer A, Wollherr A, Nacke H, Herold N, Schrumpf M, Gutknecht J, Wubet T, Buscot F, Daniel R (2010) Horizon-specific bacterial community composition of German grassland soils as revealed by pyrosequencing-based analysis of 16S rRNA genes. Appl Environ Microbiol 76:6751-6759. (abstract)

42. Zdziarski J, Brzuszkiewicz E, Wullt B, Liesegang H, Biran D, Voigt B, Grönberg-Hernandez J, Hecker M, Ron E, Daniel R, Gottschalk G, Hacker J, Svanborg C, Dobrindt U (2010) Host imprints on bacterial genomes - rapid, divergent evolution in individual patients. PLoS Pathogens 6(8):e1001078. (abstract)

41. Simon C, Daniel R (2009) Mikrobielles Leben im Eis: Funktionelle und phylogenetische Charakterisierung des Gletschereis-Metagenoms. GENOMXPRESS 1.09:4-6. (abstract)

40. Simon C, Daniel R (2009) Achievements and new knowledge unraveled by metagenomic approaches. Appl Microbiol Biotechnol 85:265-276. (doi:10.1007/s00253-009-2233-z)

39. Simon C, Herath J, Rockstroh S, Daniel R (2009) Rapid identification of genes encoding DNA polymerases by function-based screening of metagenomic libraries derived from glacial ice. Appl Environ Microbiol 75:2964-2968. (doi:10.1128/AEM.02644-08)

38. Simon C, Wiezer A, Strittmatter A, Daniel R (2009) Phylogenetic diversity and metabolic potential revealed in a glacier ice metagenome. Appl Environ Microbiol 75:7519-7526. (doi:10.1128/AEM.00946-09)

37. Steele HL, Jaeger K-E, Daniel R, Streit WR (2009) Advances in recovery of novel biocatalysts from metagenomes. J Mol Microbiol Biotechnol 16:25-37. (doi:10.1159/000142892)

36. Waschkowitz T, Rockstroh S, Daniel R (2009) Isolation and characterization of metalloproteases with a novel domain structure by construction and screening of metagenomic libraries. Appl Environ Microbiol 75:2506-2516. (doi:10.1128/AEM.02136-08)

35. Hoff KJ, Tech M, Lingner T, Daniel R, Morgenstern B, Meinicke P (2008) Gene prediction on metagenomic fragments: a large scale machine learning approach. BMC Bioinf 9:217. (doi:10.1186/1471-2105-9-217)

34. Petersen M, Daniel R (2006) Purification and characterization of an extracellular lipase from Clostridium tetanomorphum. World J Microbiol Biotechnol 22:431-435. (doi:10.1007/s11274-005-9052-x)

33. Schwarz S, Waschkowitz T, Daniel R (2006) Enhancement of gene detection frequencies by combining DNA-based stable-isotope probing with the construction of metagenomic DNA libraries. World J Microbiol Biotechnol 22:363-368. (doi:10.1007/s11274-005-9042-z)

32. Daniel R (2005) The metagenomics of soil. Nat Rev Microbiol 3:470-478. (doi:10.1038/nrmicro1160)

31. Hoster F, Schmitz JE, Daniel R (2005) Enrichment of chitinolytic microorganisms: isolation and characterization of a chitinase exhibiting antifungal activity against phytopathogenic fungi from a novel Streptomyces strain. Appl Microbiol Biotechnol 66:434-442. (doi:10.1007/s00253-004-1664-9)

30. Streit W, Jaeger K-E, Daniel R (2005) Umweltgenomik (Metagenomik) als nahezu unerschöpfliche Quelle für neue Biokatalysatoren, Stoffwechselwege und Wirkstoffe. GENOMXPRESS Sept 05:32-33.

29. Andres S, Wiezer A, Bendfeldt H, Waschkowitz T, Toeche-Mittler C, Daniel R (2004) Insights into the genome of the enteric bacterium Escherichia blattae: cobalamin (B12) biosynthesis, B12-dependent reactions, and inactivation of the gene region encoding B12-dependent glycerol dehydratase by a new Mu-like prophage. J Mol Microbiol Biotechnol 8:150-168. (doi:10.1159/000085788)

28. Daniel R (2004) The soil metagenome - a rich resource for the discovery of novel natural products. Curr Opin Biotechnol 15(3):199-204. (doi:10.1016/j.copbio.2004.04.005)

27. Daniel R, Streit W (2004) Metagenomik, mehr als nur die Suche nach neuen Biokatalysatoren und Wirkstoffen. Biospektrum 10:39-41. (abstract)

26. Streit WR, Daniel R, Jaeger K-E (2004) Prospecting for biocatalysts and drugs in the genomes of non-cultured microorganisms. Curr Opin Biotechnol 15:285-290. (doi:10.1016/j.copbio.2004.05.006)

25. Sun J, Daniel R, Wagner-Döbler I, Zeng A-P (2004) Is autoinducer-2a universal signal for interspecies communication: a comparative genomic and phylogenetic analysis of the synthesis and signal transduction pathways. BMC Evol Biol 4:36. (doi:10.1186/1471-2148-4-36)

24. Daniel R (2003) Die mikrobielle Diversität als Quelle für neuartige Biokatalysatoren: Konstruktion und Durchmusterung von Metagenombanken. Biospektrum 9:605-606. (abstract)

23. Knietsch A , Waschkowitz T, Bowien S, Henne A, Daniel R (2003) Construction and screening of metagenomic libraries derived from enrichment cultures: generation of a gene bank for genes conferring alcohol oxidoreductase activity on Escherichia coli. Appl Environ Microbiol 69:1408-1416. (doi:10.1128/aem.69.3.1408-1416.2003)

22. Knietsch A, Bowien S, Whited G, Gottschalk G, Daniel R (2003) Identification and characterization of coenzyme B12-dependent glycerol and diol dehydratases from metagenomic DNA libraries derived from enrichment cultures. Appl Environ Microbiol 69:3048-3060. (doi:10.1128/aem.69.6.3048-3060.2003)

21. Knietsch A, Waschkowitz T, Bowien S, Henne A, Daniel R (2003) Metagenomes of complex microbial consortia derived from different soils as sources for novel genes conferring formation of carbonyls from short-chain polyols on Escherichia coli. J Mol Microbiol Biotechnol 5:46-56. (doi:10.1159/000068724)

20. Daniel R (2002) Construction of environmental libraries for functional screening of enzyme acitivity. In: Directed molecular evolution of proteins. Johnson K, Brakmann S (eds.), Wiley-VCH Verlag, Weinheim pp. 63-78.

19. Daniel R, Schmitz RA, Streit W (2002) Aus Wattenmeer und Wüstensand - Mikrobielle Diversität als Quelle für neuartige Biokatalysatoren und Wirkstoffe. Georgia Augusta 1:111-115. (abstract)

18. Hoster F, Daniel R, Gottschalk G (2001) Isolation of a new Thermoanaerobacterium thermosaccharolyticum strain (FH1) producing a thermostable dextranase. J Gen Appl Microbiol 47:187-192. (doi:10.2323/jgam.47.187)

17. Majernik A, Gottschalk G, Daniel R (2001) Screening of environmental DNA libraries for the presence of genes conferring Na+ (Li+)/H+ antiporter activity on Escherichia coli: characterization of the recovered genes and the corresponding gene products. J Bacteriol 183:6645-6653. (doi:10.1128/JB.183.22.6645-6653.2001)

16. Schmitz RA, Daniel R, Deppenmeier U, Gottschalk G (2001) (2001) The anaerobic way of life. In: The Prokaryotes, 3rd edition, Balows B, Trüper HG, Dworkin M, Harder W, Schleifer KH (eds.), Springer Verlag, New York .

15. Seifert C, Bowien S, Gottschalk G, Daniel R (2001) Identification and expression of the genes and purification and characterization of the gene products involved in reactivation of coenzyme B12-dependent glycerol dehydratase of Citrobacter freundii. Eur J Biochem 268:2369-2378. (doi:10.1046/j.1432-1327.2001.02123.x)

14. Henne A, Schmitz RA., Bömeke M, Gottschalk G, Daniel R (2000) Screening of environmental DNA libraries for the presence of genes lipolytic activity on Escherichia coli. Appl Environ Microbiol 66:3113-3116. (doi:10.1128/AEM.66.7.3113-3116.2000)

13. Daniel R, Warnecke F, Potekhina JS, Gottschalk G (1999) Identification of the syntrophic partners in a coculture coupling anaerobic methanol oxidation to Fe(III) reduction. FEMS Microbiol Lett 180:197-203. (doi:10.1111/j.1574-6968.1999.tb08796.x)

12. Henne A, Daniel R, Schmitz RA, Gottschalk G (1999) Construction of environmental DNA libraries in Escherichia coli and screening for the presence of genes conferring utilization of 4-hydroxybutyrate. Appl Environ Microbiol 65:3901-3907. (abstract)

11. Daniel R, Bobik TA, Gottschalk G (1998) Biochemistry of coenzyme B12-dependent glycerol and diol dehydratases and organization of the encoding genes. FEMS Microbiol Rev 22:553-566. (doi:10.1111/j.1574-6976.1998.tb00387.x)

10. Macis L, Daniel R, Gottschalk G (1998) Properties and sequence of the coenzyme B12-dependent glycerol dehydratase of Clostridium pasteurianum. FEMS Microbiol Lett 164:21-28. (doi:10.1111/j.1574-6968.1998.tb13062.x)

9. Luers F, Seyfried M, Daniel R, Gottschalk G (1997) Glycerol conversion to 1,3-propanediol by Clostridium pasteurianum: cloning and expression of the gene encoding 1,3-propanediol dehydrogenase. FEMS Microbiol Lett 154:337-345. (doi:10.1016/S0378-1097(97)00351-0)

8. Seyfried M, Daniel R, Gottschalk G (1996) Cloning, sequencing and overexpression of the genes encoding coenzyme B12-dependent glycerol dehydratase of Citrobacter freundii. J Bacteriol 178:5793-5796. (doi:10.1128/jb.178.19.5793-5796.1996)

7. Daniel R, Boenigk R, Gottschalk G (1995) Purification of 1,3-propanediol dehydrogenase from Citrobacter freundii and cloning, sequencing and overexpression of the corresponding gene in Escherichia coli. J Bacteriol 177:2151-2156. (doi:10.1128/jb.177.8.2151-2156.1995)

6. Daniel R, Seyfried M, Gottschalk G (1995) Cloning, sequencing and overexpression of the genes encoding coenzyme B12-dependent glycerol dehydratase of Citrobacter freundii. BioFactors 5:207.

5. Daniel R, Stuertz K, Gottschalk G (1995) Biochemical and molecular characterization of the oxidative branch of glycerol utilization by Citrobacter freundii. J Bacteriol 177:4392-4401. (doi:10.1128/jb.177.15.4392-4401.1995)

4. Forster A, Daniel R, Müller V (1995) The Na+-translocating ATPase of Acetobacterium woodii is a F1FO-type enzyme as deduced from the primary structure of its γ, β and ε subunits. Biochim Biophys Acta 1229(3):393-397. (doi:10.1016/0005-2728(95)00037-J)

3. Daniel R (1994) Glycerinvergärung durch Citrobacter freundii: Sequenzierung und Charakterisierung des dpa Regulons. Cuvillier Verlag, Göttingen, Germany .

2. Daniel R, Gottschalk G (1994) Physiology and genetics of the anaerobes. Proceedings of the 6th European Congress on Biotechnology Part 1:333-335.

1. Daniel R, Gottschalk G (1992) Growth temperature-dependent activity of glycerol dehydratase in Escherichia coli expressing the Citrobacter freundii dha regulon. FEMS Microbiol Lett 100:281-286. (doi:10.1111/j.1574-6968.1992.tb14053.x)