List of Publications (2019 - 2012)

( 2019   -   2018   -   2017   -   2016   -   2015   -   2014   -   2013   -   2012 )

2019

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).

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).

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).

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).

Brüggemann H, Poehlein A, Brzuszkiewicz E, Scavenius C, Enghild JJ, Al-Zeer MA, Brinkmann V, Jensen A, Söderquist B (2019) Staphylococcus saccharolyticus isolated from blood cultures and prosthetic joint infections exhibits excessive genome decay. Front Microbiol 10:478 (DOI:10.3389/fmicb.2019.00478).

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).

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).

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).

Chibani CM, Farr A, Klama S, Dietrich S, Liesegang H (2019) Classifying the unclassified: A phage classification method. Viruses 11(2):195 (DOI:10.3390/v11020195).

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).

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).

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).

Große C, Poehlein A, Blank K, Schwarzenberger C, Schleuder G, Herzberg M, Nies DH (2019) The third pillar of metal homeostasis in Cupriavidus metallidurans CH34: preferences are controlled by extracytoplasmic function sigma factors. Metallomics 11(2):291-316 (DOI:10.1039/C8MT00299A).

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).

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).

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).

Langer SG, Gabris C, Einfalt D, Wemheuer B, Kazda M, Bengelsdorf FR (2019) Different response of bacteria, archaea and fungi to process parameters in nine full-scale anaerobic digesters. Microb Biotechnol 12(6):1210-1225 (DOI:10.1111/1751-7915.13409).

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).

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).

Lurgi M, Thomas T, Wemheuer B, Webster NS, Montoya JM (2019) Modularity and predicted functions of the global sponge-microbiome network. Nat Commun 10(1):992 (DOI:10.1038/s41467-019-08925-4).

Nordmann B, Schilling T, Hoppert M, Hertel R (2019) Complete genome sequence of the virus isolate vB_BthM-Goe5 infecting Bacillus thuringiensis. Arch Virol 164(5):1485-1488 (DOI:10.1007/s00705-019-04187-z).

Ozkan J, Willcox M, Wemheuer B, Wilcsek G, Coroneo M, Thomas T (2019) Biogeography of the human ocular microbiota. Ocul Surf 17(1):111-118 (DOI:10.1016/j.jtos.2018.11.005).

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).

Pohlner M, Dlugosch L, Wemheuer B, Mills H, Engelen B, Reese BK (2019) The majority of active Rhodobacteraceae in marine sediments belong to uncultured genera: a molecular approach to link their distribution to environmental conditions. Front Microbiol 10:659 (DOI:10.3389/fmicb.2019.00659).

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).

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).

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).

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).

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).

Song W, Wemheuer B, Zhang S, Steensen K, Thomas T (2019) MetaCHIP: community-level horizontal gene transfer identification through the combination of best-match and phylogenetic approaches. Microbiome 7(1):36 (DOI:10.1186/s40168-019-0649-y).

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).

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).

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).

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).

Wemheuer B, Thomas T, Wemheuer F (2019) Fungal endophyte communities of three agricultural important grass species differ in their response towards management regimes. Microorganisms 7(2):37 (DOI:10.3390/microorganisms7020037).

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).

Wilkes Walburn J, Wemheuer B, Thomas T, Copeland E, O'Connor W, Booth M, Fielder S, Egan S (2019) Diet and diet-associated bacteria shape early microbiome development in Yellowtail Kingfish (Seriola lalandi). Microb Biotechnol 12(2):275-288 (DOI:10.1111/1751-7915.13323).

Willms IM, Kamran A, Aßmann NF, Krone D, Bolz SH, Fiedler F, Nacke H (2019) Discovery of novel antibiotic resistance determinants in forest and grassland soil metagenomes. Front Microbiol 10:460 (DOI:10.3389/fmicb.2019.00460).

Yücel O, Borgert SR, Poehlein A, Niermann K, Philipp B (2019) The 7α-hydroxysteroid dehydratase Hsh2 is essential for anaerobic degradation of the steroid skeleton of 7α-hydroxyl bile salts in the novel denitrifying bacterium Azoarcus sp. strain Aa7. Environ Microbiol 21(2):800-813 (DOI:10.1111/1462-2920.14508).

Zhang S, Song W, Wemheuer B, Reveillaud J, Webster N, Thomas T (2019) Comparative genomics reveals ecological and evolutionary insights into sponge-associated Thaumarchaeota. mSystems 4(4):288 (DOI:10.1128/mSystems.00288-19).

2018

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).

Amiri Moghaddam J, Crüsemann M, Alanjar M, Harms H, Céspedes AD-C, Blom J, Poehlein A, Ziemert N, König GM, Schäberle TF (2018) Analysis of the genome and metabolome of marine myxobacteria reveals high potential for biosynthesis of novel specialized metabolites. Sci Rep 8:16600 (DOI:10.1038/s41598-018-34954-y).

Bakenhus I, Voget S, Poehlein A, Brinkhoff T, Daniel R, Simon M (2018) Genome sequence of Planktotalea frisia type strain (SH6-1^T), 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).

Bengelsdorf FR, Beck MH, Erz C, Hoffmeister S, Karl MM, Riegler P, Wirth S, Poehlein A, Weuster-Botz D, Dürre P (2018) Bacterial anaerobic synthesis gas (syngas) and CO₂+H₂ fermentation. Adv Appl Microbiol 103:143-221 (DOI:10.1016/bs.aambs.2018.01.002).

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).

Brüggemann H, Jensen A, Nazipi S, Aslan H, Meyer RL, Poehlein A, Brzuszkiewicz E, Al-Zeer MA, Brinkmann V, Söderquist B (2018) Pan-genome analysis of the genus Finegoldia identifies two distinct clades, strain-specific heterogeneity, and putative virulence factors. Sci Rep 8:266 (DOI:10.1038/s41598-017-18661-8).

Brüggemann H, Migliorini LB, Oliveira de Sales R, Mariko Koga PC, de Souza AV, Jensen A, Poehlein A, Brzuszkiewicz E, Doi AM, Pasternak J, Martino MDV, Severino P (2018) Comparative genomics of non-outbreak Pseudomonas aeruginosa strains underlines genome plasticity and geographic relatedness of the global clone ST235. Genome Biol Evol 10(7):1852-1857 (DOI:10.1093/gbe/evy139).

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).

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).

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).

Erler S, Lewkowski O, Poehlein A, Forsgren E (2018) The curious case of Achromobacter eurydice, a Gram-variable pleomorphic bacterium associated with European Foulbrood disease in honeybees. Microb Ecol 75(1):1-6 (DOI:10.1007/s00248-017-1007-x).

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).

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).

Köbke S, Senbayram M, Pfeiffer B, Nacke H, Dittert K (2018) Post-harvest N₂O and CO₂ emissions related to plant residue incorporation of oilseed rape and barley straw depend on soil NO₃^- content. Soil Till Res 179:105-113 (DOI:10.1016/j.still.2018.01.013).

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).

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).

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).

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).

Ozkan J, Coroneo M, Willcox M, Wemheuer B, Thomas T (2018) Identification and visualization of a distinct microbiome in ocular surface conjunctival tissue. Invest Ophthalmol Vis Sci 59(10):4268-4276 (DOI:10.1167/iovs.18-24651).

Poehlein A, Hollensteiner J, Granzow S, Wemheuer B, Vidal S, Wemheuer F (2018) First insights into the draft genome sequence of the endophyte Paenibacillus sp. strain GM1FR, isolated from Festuca rubra. Genome Announc 6(4):e01516 (DOI:10.1128/genomeA.01516-17).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

Schilling T, Hoppert M, Hertel R (2018) Genomic analysis of the recent viral isolate vB_BthP-Goe4 reveals increased diversity of φ29-Like Phages. Viruses 10(11):624 (DOI:10.3390/v10110624).

Schilling T, Dietrich S, Hoppert M, Hertel R (2018) A CRISPR-Cas9-based toolkit for fast and precise in vivo genetic engineering of Bacillus subtilis phages. Viruses 10(5):241 (DOI:10.3390/v10050241).

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).

Singh N, Herbig E, Hertel R (2018) Enzyme aus der Natur - Reinstwasser als Grundlage für Metagenomik. GIT-Labor 06.03.2018 (abstract)

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).

Ullrich SR, Poehlein A, Levicánc G, Mühling M, Schlömann M (2018) Iron targeted transcriptome study draws attention to novel redox protein candidates involved in ferrous iron oxidation in “Ferrovum” sp. JA12. Res Microbiol 169(20):618-627 (DOI:10.1016/j.resmic.2018.05.009).

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).

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).

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).

2017

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

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).

Bengelsdorf F, Poehlein A, Flitsch SK, Linder S, Schiel-Bengelsdorf B, Stegmann BA, Krabben P, Green E, Zhang Y, Minton N, Dürre P (2017) Host organisms: Clostridium acetobutylicum / Clostridium beijerinckii and related organisms. In: Industrial Biotechnology: Microorganisms; Wittman C & Liao JC (Eds), Part III - Exploiting anaerobic biosynthetic power, Chapter 9 (DOI:10.1002/9783527807796.ch9).

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).

Chibani CM, Poehlein A, Roth O, Liesegang H, Wendling CC (2017) Draft genome sequence of Vibrio splendidus DSM 19640. Genome Announc 5(48):e01368 (DOI:10.1128/genomeA.01368-17).

Dannheim H, Riedel T, Neumann-Schaal M, Bunk B, Schober I, Spröer C, Chibani CM, Gronow S, Liesegang H, Overmann J, Schomburg D (2017) Manual curation and reannotation of the genomes of Clostridium difficile 630Δerm and Clostridium difficile 630. J Med Microbiol 66(3):286-293 (DOI:10.1099/jmm.0.000427).

Davidsson S, Carlsson J, Mölling P, Gashi N, Andren O, Andersson S-O, Brzuszkiewicz E, Poehlein A, Al-Zeer M, Brinkmann V, Scavenius C, Nazipi S, Söderquist B, Brüggemann H (2017) Prevalence of Flp pili-encoding plasmids in Cutibacterium acnes isolates obtained from prostatic tissue. Front Microbiol 8:2241 (DOI:10.3389/fmicb.2017.02241).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

Harms H, Poehlein A, Thürmer A, König GM, Schäberle TF (2017) Draft genome sequence of Zobellia sp. strain OII3, isolated from the coastal zone of the Baltic Sea. Genome Announc 5(36):e00737-17 (DOI:10.1128/genomeA.00737-17).

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).

Hertel R, Meyerjürgens S, Voigt B, Liesegang H, Volland S (2017) Small RNA mediated repression of subtilisin production in Bacillus licheniformis. Sci Rep 7:5699 (DOI:10.1038/s41598-017-05628-y).

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).

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).

Hollensteiner J, Poehlein A, Spröer C, Bunk B, Sheppard AE, Rosentstiel P, Schulenburg H, Liesegang H (2017) Complete genome sequence of the nematicidal Bacillus thuringiensis MYBT18246. Stand Genomic Sci 12:48 (DOI:10.1186/s40793-017-0259-x).

Hollensteiner J, Poehlein A, Spröer C, Bunk B, Sheppard AE, Rosenstiel P, Schulenburg H, Liesegang H (2017) Complete genome sequence of the nematicidal Bacillus thuringiensis MYBT18247. J Biotechnol 260:48-52 (DOI:10.1016/j.jbiotec.2017.09.003).

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).

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).

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).

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).

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).

Muth C, Buchholz M, Schmidt C, Volland S, Meinhardt F (2017) Genetic evidence for a novel competence inhibitor in the industrially important Bacillus licheniformis. AMB Express 7:149 (DOI:10.1186/s13568-017-0447-5).

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

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).

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).

Poehlein A, Najdenski H, Simeonova DD (2017) Draft genome sequence of Flavobacterium succinicans strain DD5b. Genome Announc 5(2):e01492-16 (DOI:10.1128/genomeA.01492-16).

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).

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).

Poehlein A, Najdenski H, Simeonova DD (2017) Draft genome sequence of Klebsiella pneumoniae subsp. pneumoniae ATCC 9621. Genome Announc 5(12):e01718-16 (DOI:10.1128/genomeA.01718-16).

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).

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).

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).

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).

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).

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).

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).

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).

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).

Pohlner M, Degenhardt J, von Hoyningen-Huene AJE, Wemheuer B, Erlmann N, Schnetger B, Badewien TH, Engelen B (2017) The biogeographical distribution of benthic Roseobacter group members along a Pacific transect Is structured by nutrient availability within the sediments and pprimary production in different oceanic provinces. Front Microbiol 8:2550 (DOI:10.3389/fmicb.2017.02550).

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).

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).

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).

Riedel T, Wetzel D, Hofmann JD, Plorin SPEO, Dannheim H, Berges M, Zimmermann O, Bunk B, Schober I, Spröer C, Liesegang H, Jahn D, Overmann J, Groß U, Neumann-Schaal M (2017) High metabolic versatility of different toxigenic and non-toxigenic Clostridioides difficile isolates. Int J Med Microbiol 307(6):311-320 (DOI:10.1016/j.ijmm.2017.05.007).

Schneider D, Wemheuer F, Pfeiffer B, Wemheuer B (2017) Extraction of total DNA and RNA from marine filter samples and generation of a cDNA as universal template for marker gene studies. Methods Mol Biol 1539:13-22 (DOI:10.1007/978-1-4939-6691-2_2).

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).

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).

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).

Song W, Steensen K, Thomas T (2017) HgtSIM: a simulator for horizontal gene transfer (HGT) in microbial communities. PeerJ 5:e4015 (DOI:10.7717/peerj.4015).

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).

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).

Wemheuer B, Wemheuer F (2017) Assessing bacterial and fungal diversity in the plant endosphere. Methods Mol Biol 1539:75-84 (DOI:10.1007/978-1-4939-6691-2_6).

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).

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).

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 ).

Wendling CC, Piecyk A, Refardt D, Chibani C, Hertel R, Liesegang H, Bunk B, Overmann J, Roth O (2017) Tripartite species interaction: eukaryotic hosts suffer more from phage susceptible than from phage resistant bacteria. BMC Evol Biol 17(1):98 (DOI:10.1186/s12862-017-0930-2).

Willms IM, Hoppert M, Hertel R (2017) Characterization of Bacillus subtilis viruses vB_BsuM-Goe2 and vB_BsuM-Goe3. Viruses 9(6):146 (DOI:10.3390/v9060146).

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).

Wu D, Senbayram M, Well R, Brüggemann N, Pfeiffer B, Loick N, Stempfhuber B, Dittert K, Bol R (2017) Nitrification inhibitors mitigate N₂O emissions more effectively under straw-induced conditions favoring denitrification. Soil Biol Biochem 104:197-207 (DOI:10.1016/j.soilbio.2016.10.022).

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).

2016

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).

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).

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).

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. Nat Microbiol 1:16063 (DOI:10.1038/nmicrobiol.2016.63).

Boch S, Allan E, Birkhofer B, Bossdorf O, Blüthgen N, Christ-Breulmann S, Diekötter T, Dormann CF, Gossner MM, Hallmann C, Hemp A, Hölzel N, Jung K, Klaus VH, Klein AM, Kleinebecker T, Lange M, Müller J, Nacke H, Prati D, Renner SC, Rothenwöhrer C, Schall P, Schulze E-D, Socher SA, Tscharntke T, Türke M, Weiner CN, Weisser WW, Westphal C, Wolters V, Wubet T, Fischer M (2016) Extensive und jährlich wechselnde Nutzungs-intensität fördert den Artenreichtum im Grünland. ANLiegen Natur 38/1: (abstract)

Castillo Villamizar GA, Poehlein A (2016) Genome sequence of the acetogenic bacterium Morello milder DSM 14980T. Genome Announc 4(3):e00444-16 (DOI:10.1128/genomeA.00444-16).

Christensen GJ, Scholz CF, Enghild J, Rohde H, Kilian M, Thürmer A, Brzuszkiewicz E, Lomholt HB, Brüggemann H (2016) Antagonism between Staphylococcus epidermis and Propionibacterium acnes and its genomic basis. BMC Genomics 17:152 (DOI:10.1186/s12864-016-2489-5).

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).

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).

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).

Giebel H-A, Klotz F, Voget S, Poehlein A, Grosser K, Teske A, Brinkhoff T (2016) Draft genome sequence of the marine Rhodobacteraceae strain O3.65, cultivated from oil-polluted seawater of the Deepwater Horizon oil spill. Stand Genomic Sci 11(1):81 (DOI:10.1186/s40793-016-0201-7).

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).

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).

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).

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).

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).

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).

Kanukollu S, Voget S, Pohlner M, Vandieken V, Petersen J, Kyrpides NC, Woyke T, Shapiro N, Göker M, Klenk HP, Cypionka H, Engelen B (2016) Genome sequence of Shimia str. SK013, a representative of the Roseobacter group isolated from marine sediment. Stand Genomic Sci 11(1):25 (DOI:10.1186/s40793-016-0143-0).

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).

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).

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. Nat Microbiol 1:16193 (DOI:10.1038/nmicrobiol.2016.193).

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).

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).

Müller WJ, Tlalajoe N, Cason ED, Litthauer D, Reva O, Brzuszkiewicz E, van Heerden E (2016) Whole genome comparison of Thermus sp. NMX2.A1 reveals principle carbon metabolism differences with closest relation Thermus scotoductus SA-01. G3 6(9):2791-2797 (DOI:10.1534/g3.116.032953).

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).

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).

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).

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).

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).

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).

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).

Poehlein A, Seedorf H (2016) Draft genome sequences of Methanobrevibacter curvatus DSM11111, Methanobrevibacter cuticularis DSM11139, Methanobrevibacter filiformis DSM11501, and Methanobrevibacter oralis DSM7256. Genome Announc 4(3):e00617-16 (DOI:10.1128/genomeA.00617-16).

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).

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).

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).

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 82(19):pii:AEM.01719-16 (DOI:10.1128/AEM.01719-16).

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).

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).

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).

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).

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).

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).

Wilms IM, Hertel R (2016) Phage vB BsuP-Goe1: the smallest identifed lytic phage of Bacillus subtilis. FEMS Microbiol Lett 363:fnw208 (DOI:10.1093/femsle/fnw208).

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).

2015

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).

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).

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).

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).

Brüggemann H, Brzuszkiewicz E, Chapeton-Montes D, Plourde L, Speck D, Popoff MR (2015) Genomics of Clostridium tetani. Res Microbiol 166:326-331 (DOI:10.1016/j.resmic.2015.01.002).

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).

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).

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

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).

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).

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).

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).

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).

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).

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).

Gram L, Rasmussen BB, Wemheuer B, Bernbom N, Ng YY, Porsby CH, Breider S, Brinkhoff T (2015) Phaeobacter inhibens from the Roseobacter clade has an environmental niche as a surface colonizer in harbors. Syst Appl Microbiol 38(7):483-493 (DOI:10.1016/j.syapm.2015.07.006).

Hertel R, Volland S, Liesegang H (2015) Conjugative reporter system for the use in Bacillus licheniformis and closely related Bacilli. Lett Appl Microbiol. 60(2):162-167 (DOI:doi.org/10.1111/lam.12352).

Hertel R, Rodríguez DP, Hollensteiner J, Dietrich S, Leimbach A Hoppert M, Liesegang H, Volland S (2015) Genome-based identification of active prophage regions by Next Generation Sequencing in Bacillus licheniformis DSM13. PLOS One 10(3):e0120759 (DOI:10.1371/journal.pone.0120759).

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).

Huja S, Oren Y, Trost E, Brzuszkiewicz E, Biran D, Blom J, Goesmann A, Gottschalk G, Hacker J, Ron EZ, Dobrindt U (2015) Genomic avenue to avian colisepticemia. mBio 6(1):e01681-14 (DOI:10.1128/mBio.01681-14).

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).

Jakobs M, Hoffmann K, Liesegang H, Volland S, Meinhardt F (2015) The two putative comS homologs of the biotechnologically important Bacillus licheniformis do not contribute to competence development. Appl Microbiol Biotechnol 99(5):2255-2266 (DOI:10.1007/s00253-014-6291-5).

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).

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).

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).

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).

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).

Lück C, Brzuszkiewicz E, Rydzewski K, Koshkolda T, Sarnow K, Essig A, Heuner K (2015) Subtyping of the Legionella pneumophila "Ulm" outbreak strain using the CRISPR-Cas system. Int J Med Microbiol 305:828-837 (DOI:10.1016/j.ijmm.2015.08.001).

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).

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).

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).

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).

Neumann AM, Balmonte JP, Berger M, Giebel HA, Arnosti C, Voget S, Simon M, Brinkhoff T, Wietz M (2015) Different utilization of alginate and other algal polysaccharides by marine Alteromonas macleodii ecotypes. Environ Microbiol 17(10):3857-3868 (DOI:10.1111/1462-2920.12862).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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/www.scientific.net/AMR.1130.15).

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).

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).

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).

Voget S, Diaz Valerio SM, 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).

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).

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).

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).

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).

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).

Zautner AE, Goldschmidt AM, Thürmer A, Schuldes J, Bader O, Lugert R, Groß U, Stingl K, Salinas G, Lingner T (2015) SMRT sequencing of the Campylobacter coli BfR-CA-9557 genome sequence reveals unique methylation motifs. BMC Genomics 16:1088 (DOI:10.1186/s12864-015-2317-3).

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).

2014

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).

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

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).

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).

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).

Dietrich S, Wiegand S, Liesegang H (2014) TraV: A genome context sensitive transcriptome browser. PLOS One 9(4):e93677 (DOI:10.1371/journal.pone.0093677).

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).

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).

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).

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).

Jakobs M, Hoffmann K, Grabke A, Neuber S, Liesegang H, Volland S, Meinhardt F (2014) Unravelling the genetic basis for competence development of auxotrophic Bacillus licheniformis 9945A strains. Microbiology 160:2136-2147 (DOI:10.1099/mic.0.079236-0).

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).

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).

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).

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).

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).

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).

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).

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).

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).

Thürmer A (2014) Next Generation Sequencing in der mikrobiellen (Meta)Genomforschung. BIOspektrum 2.14:168-171 (DOI:10.1007/s12268-014-0424-3).

Voget S, Göker M, Brinkhoff T (2014) Genomik: Grundlage zum Verständnis des Erfolgs der Roseobacter-Gruppe. BIOspektrum 3.14:279-282 (DOI:10.1007/s12268-014-0441-2).

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).

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).

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).

2013

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)

Bletz S, Bielaszewska M, Leopold SR, Köck R, Witten A, Schuldes J, Zhang W, Karch H, Mellmann A (2013) Evolution of enterohemorrhagic Escherichia coli O26 based on single-nucleotide polymorphisms. Genome Biol Evol 5(10):1807-1816 (DOI:10.1093/gbe/evt136).

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).

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).

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).

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).

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).

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).

Dogs M, Voget S, Teshima H, Petersen J, Davenport K, Dalnigault H, Chen A, Pati A, Ivanova N, Goodwin LA, Chain P, Detter JC, Standfest S, Rohde M, Gronow S, Kyrpides NC, Woyke T, Simon M (2013) Genome sequence of Phaeobacter inhibens type strain (T5T), a secondary metabolite producing member of the marine Roseobacter clade, and emendation of the species description of Phaeobacter inhibens. Stand Genomic Sci 9(2):142-159 (DOI:10.4056/sigs.4448212).

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).

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).

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).

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).

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).

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).

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).

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).

Luo Q, Hiessl S, Poehlein A, Steinbüchel A (2013) Microbial gutta percha degradation shares common steps with rubber degradation by Nocardia nova SH22a. Appl Environ Microbiol 79(4):1140-1149 (DOI:10.1128/AEM.03016-12).

Mak TN, Schmid M, Brzuszkiewicz E, Zeng G, Meyer R, Sfanos KS, Brinkmann V, Meyer TF, Brüggemann H (2013) Comparative genomics reveals distinct host-interacting traits of three major human-associated propionibacteria. BMC Genomics 14:640 (DOI:10.1186/1471-2164-14-640).

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).

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/www.scientific.net/AMR.825.153).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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/www.scientific.net/AMR.825.149).

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).

Sheppard AE, Poehlein A, Rosenstiel P, Liesegang H, Schulenburg H (2013) Complete genome sequence of Bacillus thuringiensis strain 407 Cry-. Genome Announc 1(1):e00158-12 (DOI:10.1128/genomeA.00158-12).

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).

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).

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).

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).

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).

2012

Berger M, Brock N, Liesegang H, Dogs M, Preuth I, Simon M, Dickschat J, Brinkhoff T (2012) Genetic analysis of the upper phenylacetate catabolic pathway in the production of tropodithietic acid by Phaeobacter gallaeciensis. Appl Environ Microbiol 78(10):3539-51 (DOI:10.1128/AEM.07657-11).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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)

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).

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).

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).

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).

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).

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).

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).

Pallmann P, Schaarschmidt F, Hothorn LA, Fischer C, Nacke H, Priesnitz KU, Schork NJ (2012) Assessing group differences in biodiversity by simultaneously testing a user-defined selection of diversity indices. Mol Ecol Resour 12(6):1068-1078 (DOI:10.1111/1755-0998.12004).

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).

Sass P, Berscheid A, Jansen A, Oedenkoven M, Szekat C, Strittmatter A, Gottschalk G, Bierbaum G (2012) Genome sequence of Staphylococcus aureus VC40, a vancomycin- and daptomycin-resistant strain, to study the genetics of development of resistance to currently applied last-resort antibiotics. J Bacteriol 194(8):2107-2108 (DOI:10.1128/JB.06631-11).

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).

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).

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).

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).

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