Genomic and Applied Microbiology

List of Publications (2020 - 2016)

2020   -   2019   -   2018   -   2017   -   2016 )


2020

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).

Baena Lozada LP, Hoppert M, Hertel R (2020) Phage vB_BmeM-Goe8 infecting Bacillus megaterium DSM319. Arch Virol 165:515–517(doi: 10.1007/s00705-019-04513-5).

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

Egelkamp R, Friedrich I, Hertel R, Daniel R (2020) From sequence to function: a new workflow for nitrilase identification. Appl Microbiol Biotechnol 1-14(doi: 10.1007/s00253-020-10544-9).

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).

Furrer AD, Bömeke M, Hoppert M, Hertel R (2020) Phage vB_BveM-Goe7 represents a new genus in the subfamily Bastillevirinae. Arch Virol (doi: 10.1007/s00705-020-04546-1).

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).

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).

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).

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 (doi: 10.1128/JB.00138-20).

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).

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 (doi: 10.1111/1462-2920.15037).

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).

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).

Rummel PS, Pfeiffer B, Pausch J, Well R, Schneider D, Dittert K (2020) Maize root and shoot litter quality controls short-term CO2 and N2O emissions and bacterial community structure of arable soil. Biogeosciences 17:1181–1198(doi: 10.5194/bg-2019-320).

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).

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).

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).

Stødkilde K, Poehlein A, Brüggemann H (2020) Draft genome sequence of a new Staphylococcal species isolated from human skin. Microbiol Resour Announc 9(6):e01499-19(doi: 10.1128/MRA.01499-19).

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).

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. Environmental Microbiome 15:11(doi: 10.1186/s40793-020-00358-7).

Willms IM, Yuan J, Penone C, Goldmann K, Vogt J, Wubet T, Schöning I, Schrumpf M, Buscot F, Nacke H (2020) Distribution of medically relevant antibiotic resistance genes and mobile genetic elements in soils of temperate forests and grasslands varying in land use. Genes 11(2):150(doi: 10.3390/genes11020150).


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).

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).

Ozkan J, Coroneo M, Willcox M, Wemheuer B, Thomas T (2019) 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).

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 (SH6-1T), 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).

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. Advances in Applied Microbiology 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).

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).

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 (abstract).

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).

Erler S, Lewkowski O, Poehlein A, Forsgren E (2017) 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).

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 4T (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).

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. Nature 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. Nature 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 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 the 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).