List of Publications (2026 - 2022)
( 2026 - 2025 - 2024 - 2023 - 2022 )
2026
Brüggemann H, Schultz LH, Poehlein A & Söderquist B (2026) Genomic and phenotypic diversity among taxonomically ambiguous clinical Corynebacterium isolates. BMC Microbiol (DOI:10.1186/s12866-025-04619-8).
Pena R, Ammerschubert S, Müller M, Schneider D, Daniel R, Gailing O, Polle A (2026) Nitrogen mediates root–fungal effects on European beech biomass but not adaptability to the environment. J Appl Ecol e70241 (DOI:10.1111/1365-2664.70241).
Waschinger LM, Poehlein A, Daniel R, Rosenbaum FP, Müller V (2026) A cytochrome c-containing periplasmic nitrate reductase in the acetogen Sporomusa ovata. Environ Microbiol 28(1):e70228 (DOI:10.1111/1462-2920.70228).
2025
Berkelmann D, Suhl LL, Schneider D, Meryandini A, Daniel R (2025) Soil bacterial community composition of different tropical land use systems in Jambi province, Indonesia. Microbiol Resour Announc 14:e0101824 (DOI:10.1128/mra.01018-24).
Böer T, Rosenbaum FP, Eysell L, Müller V, Daniel R, Poehlein A (2025) Isolation and characterization of Sporomusa carbonis sp. nov.: a carboxydotrophic hydrogenogen in the genus of Sporomusa isolated from a charcoal-burning pile. Int J Syst Evol Microbiol 75:006677 (DOI:10.1099/ijsem.0.006677).
Chacón FI, Sineli PE, Guiñazú SB, Alvarez FM, Poehlein A, Daniel R, Dib JR (2025) Unveiling the potential of native Blueberry-derived yeasts as biocontrol agents against Botrytis cinerea and Alternaria alternata. Biol Control 209:105870 (DOI:10.1016/j.biocontrol.2025.105870).
Cui T, Kushmaro A, Barak H, Poehlein A, Daniel R, Mägert HJ (2025) Enhanced discovery of bacterial laccase-like multicopper oxidase through computer simulation and metagenomic analysis of industrial wastewater. FEBS Open Bio 15(7):1090-1102 (DOI:10.1002/2211-5463.70037).
Daniel R (2025) Kleinstes archaeelles Genom: extrem reduziert und vom Wirt abhängig. BIOspektrum 31:734 (DOI:10.1007/s12268-025-2601-y).
Diaz Garcia E, Boy D, Kilian Salas S, Andrino A, Sauheitl L, Poehlein A, Guggenberger G, Horn MA, Boy J (2025) Adaptation and resistance of soil prokaryotic communities to drought intensi cation in old- growth forests and pastures of southwestern Amazonia. Front Plant Sci 16:1684321 (DOI:10.3389/fpls.2025.1684321).
Floccari VA, Feddersen H, Jakin Lazar J, Grosboillot V, Munk A, Kempen P, Hertel R, Accetto T, Kovács AT, Bramkamp M, Dragoš A (2025) Lysogenic control of Bacillus subtilis morphology and fitness by Spbetavirus phi3T. Commun Biol 8:1238 (DOI:10.1038/s42003-025-08672-x).
Friedrich I, Klassen A, Poehlein A, Hertel R, Daniel R (2025) Complete genome sequence of Schlesneria sp. strain DSM 10557, isolated from the leachate of an industrial compost heap. Microbiol Resour Announc 14:e01070-24 (DOI:10.1128/mra.01070-24).
Kohm K, v. Clanner A, Hertel R, Commichau FM (2025) Closely related and yet special – how SPβ family phages control lysis-lysogeny decisions. Trends Microbiol 33(4):387 (DOI:10.1016/j.tim.2024.11.007).
Perez MF, Chacón FI, Sineli PE, Poehlein A, Daniel R, Dib JR (2025) Impact of postharvest management practices on the microbiome of blueberry from Tucumán, Argentina. J Agriculture Food Res 21:101915 (DOI:10.1016/j.jafr.2025.101915).
Poehlein A, Zeldes B, Flaiz M, Böer T, Lüschen A, Höfele F, Baur KS, Molitor B, Kröly C, Wang M, Zhang Q, Fan Y, Chao W, Daniel R, Li F, Basen M, Müller V, Angenent LT, Sousa DZ, Bengelsdorf FR (2025) Advanced aspects of acetogens. Bior Technol 427:131913 (DOI:10.1016/j.biortech.2024.131913).
Preuss L, Alawi M, Dumnitch A, Trinh L, Maison W, Burmeister N, Poehlein A, Daniel R, Vollstedt C, Streit WR (2025) Polyethylene terephthalate (PET) primary degradation products affect c-di-GMP-, cAMP-signaling, and quorum sensing (QS) in Vibrio gazogenes DSM 21264. Microbiol Spectr 9:e0018125 (DOI:10.1128/spectrum.00181-25).
Rasuk MC, Irazoqui JM, Perez MF, Pereyra MM, Sineli PE, Poehlein A, Daniel R, Dib JR (2025) Insights into the lemon (Citrus limon) epiphytic microbiome: impact of the biocontrol yeast Clavispora lusitaniae 146. BMC Res Notes 18:11 (DOI:10.1186/s13104-024-07064-4).
Rasuk MC, Palladini A, Moyano A, Díaz V, Giudice A, Castillo G, Abraham S, Rull J, Poehlein A, Daniel R, Dib JR (2025) Dominance of Zygosaccharomyces and shifts in bacterial pathways: Effects of antimicrobials on composition and diversity of the Ceratitis capitata bacterial and fungal microbiome. PLoS One 20(11):e0335811 (DOI:10.1371/journal.pone.0335811).
Schilling T, Biedendieck R, Moran-Torres R, Saaranen MJ, Ruddock LW, Daniel R, van Dijl JM (2025) Toward antibody production in genome-minimized Bacillus subtilis strains. ACS Synth Biol 14:740-755 (DOI:10.1021/acssynbio.4c00688).
Stefanic P, Stare E, Floccari VA, Kovac J, Hertel R, Rocha U, Kovács ÁT, Mandić-Mulec I, Strube ML, Dragoš A (2025) Ecology of prophage-like elements in Bacillus subtilis at global and local geographical scales. Cell Rep 44:115197 (DOI:10.1016/j.celrep.2024.115197).
Tebbe DA, Yong J, Smykala M, Kuczynski L, Guedán ML, Lõhmus K, Pieck D, Poehlein A, Schäfer H, Könneke M, Moorthi SD, Engelen B (2025) Microbial metacommunity of salt marshes rebuilds along an elevational gradient after initial disturbance. Sci Rep 15: 27178 (DOI: 10.1038/s41598-025-12995-4).
Zeldes B, Mittelstedt S, Baum C, Shakirova A, Poehlein A, Daniel R, Basen M (2025) Sugar-inducible promoters for manipulation of core metabolic pathways in the thermophilic acetogen Thermoanaerobacter kivui. Appl Environ Microbiol 20:e0164125 (DOI:10.1128/aem.01641-25).
2024
Adenaya A, Spriahailo D, Berger M, Noster J, Milke F, Schulz C, Reinthaler T, Poehlein A, Wurl O, Ribas-Ribas M, Hamprecht A, Brinkhoff T (2024) Occurrence of antibiotic-resistant bacteria in the sea surface microlayer of coastal waters in the southern North Sea. Ecotoxicol Environ Saf 287:117259 (DOI:10.1016/j.ecoenv.2024.117259).
Baum C, Zeldes B, Poehlein A, Daniel R, Müller V, Basen M (2024) The energy-converting hydrogenase Ech2 is important for the growth of the thermophilic acetogen Thermoanaerobacter kivui on ferredoxin-dependent substrates. Microbiol Spectr 22:e0338023 (DOI:10.1128/spectrum.03380-23).
Bjerg CSB, Poehlein A, Bömeke M, Himmelbach A, Schramm A, Brüggemann H (2024) Increased biofilm formation in dual-strain compared to single-strain communities of Cutibacterium acnes. Sci Rep 14:14547 (DOI:10.1038/s41598-024-65348-y).
Böer T, Bengelsdorf FR, Daniel R, Poehlein A (2024) Complete genome sequences of Blautia hydrogenotrophica DSM 10507T isolated from human feces and Blautia coccoides DSM 935T isolated from mouse feces. Microbiol Resour Announc 13(4):e00016-24 (DOI:10.1128/mra.00016-24).
Böer T, Schüler MA, Lüschen A, Eysell L, Dröge J, Heinemann M, Engelhardt L, Basen M, Daniel R, Poehlein A (2024) Isolation and characterization of novel acetogenic strains of the genera Terrisporobacter and Acetoanaerobium. Front Microbiol 15:1426882 (DOI:10.3389/fmicb.2024.1426882).
Böer T, Lüschen A, Daniel R, Poehlein A (2024) Complete genome sequence of Sporomusa sphaeroides DSM 2875T isolated from mud of the Leine river and Sporomusa ovata DSM 2662T isolated from sugar beet leaf silage. Microbiol Resour Announc 13(9):e0037224 (DOI:10.1128/mra.00372-24).
Böer T, Engelhardt L, Lüschen A, Eysell L, Yoshida H, Schneider D, Angenent LT, Basen M, Daniel R, Poehlein A (2024) Isolation and characterization of novel acetogenic Moorella strains for employment as potential thermophilic biocatalysts. FEMS Microbiol Ecol 100(9):fiae109 (DOI:10.1093/femsec/fiae109).
Flaiz M, Poehlein A, Wilhelm W, Mook A, Daniel R, Dürre P, Bengelsdorf FR (2024) Refining and illuminating acetogenic Eubacterium strains for reclassification and metabolic engineering. Microb Cell Fact 23:24 (DOI:10.1186/s12934-024-02301-8).
Funkner K, Poehlein A, Jehmlich N, Egelkamp R, Daniel R, von Bergen M, Rother M0 (2024) Proteomic and transcriptomic analysis of selenium utilization in Methanococcus maripaludis. mSystems 9:e01338-23 (DOI:10.1128/mSystems.01338-23).
Goehlich H, Roth O, Sieber M, Chibani CM, Poehlein A, Rajkov J, Liesegang H, Wendling CC (2024) Suboptimal environmental conditions prolong phage epidemics in bacterial populations. Mol Ecol 33:e17050 (DOI:10.1111/mec.17050).
Hahnke S, Berger M, Schlingloff A, Athale I, Wolf J, Neumann-Schaal M, Adenaya A, Poehlein A, Daniel R, Petersen J, Brinkhoff T (2024) Roseobacter fucihabitans sp. nov., isolated from the brown alga Fucus spiralis. Int J Syst Evol Microbiol 74(6):006403 (DOI:10.1099/ijsem.0.006403).
Hoang D, Flanagan K, Ding Q, Cazeault NR, Li H, Diaz-Valerio S, Rus F, Darfour EA, Kass E, Petersson KH, Nielsen MK, Liesegang H, Ostroff GR, Aroian RV (2024) Bacillus thuringiensis Cry14A family proteins as novel anthelmintics against gastrointestinal nematode parasites. PloS Negl Trop Dis 18(10):e0012611 (DOI:10.1371/journal.pntd.0012611).
Holert J, Borker A, Nübel LL, Daniel R, Poehlein A, Philipp B (2024) Bacteria use a catabolic patchwork pathway of apparently recent origin for degradation of the synthetic buffer compound TRIS. ISME J 18(1):wrad023 (DOI:10.1093/ismejo/wrad023).
Krüger L, Gaskell-Mew L, Graham S, Shirran S, Hertel R, White MF (2024) Reversible conjugation of a CBASS nucleotide cyclase regulates bacterial immune response to phage infection. Nat Microbiol 9:1579-1592 (DOI:10.1038/s41564-024-01670-5).
Moon J, Poehlein A, Daniel R, Müller V (2024) Redirecting electron flow in Acetobacterium woodii enables growth on CO and improves growth on formate. Nat Commun 15:5424 (DOI:10.1038/s41467-024-49680-5).
Protasov E, Reeh H, Liu P, Poehlein A, Platt K, Heimerl T, Hervé V, Daniel R, Brune A (2024) Genome reduction in novel, obligately methyl-reducing Methanosarcinales isolated from arthropod guts (Methanolapillus gen. nov. and Methanimicrococcus). FEMS Microbiol Ecol 100(9):fiae111 (DOI:10.1093/femsec/fiae111).
Ravagnan G, Lesemann J, Müller M-F, Poehlein A, Daniel R, Noack S, Kabisch J, Schmid J (2024) Genome reduction in Paenibacillus polymyxa DSM 365 for chassis development. Front Bioeng Biotechnol 12:1378873 (DOI:10.3389/fbioe.2024.1378873).
Ravagnan G, Lesemann J, Müller MF, Poehlein A, Daniel R, Noack S, Kabisch J, Schmid J (2024) Corrigendum: Genome reduction in Paenibacillus polymyxa DSM 365 for chassis development. Front Bioeng Biotechnol 12:1451723 (DOI:10.3389/fbioe.2024.1451723).
Regalado L, Appelhans MS, Poehlein A, Himmelbach A, Schmidt AR (2024) Plastome phylogenomics and new fossil evidence from Dominican amber shed light on the evolutionary history of the Neotropical fern genus Pecluma. AM J Botany 111(10):e16410 (DOI:10.1002/ajb2.16410).
Riedel R, Commichau FM, Benndorf D, Hertel R, Holzer K, Hoelzle LE, Mardoukhi MSY, Noack LE, Martienssen M (2024) Biodegradation of selected aminophosphonates by the bacterial isolate Ochrobactrum sp. BTU1. Microbiol Res 280:127600 (DOI:10.1016/j.micres.2024.127600).
Rosiak M, Hosang L, Hollensteiner J, Gregor KM, Beythien G, Hülskötter K, Schreiner T, Lockow S, Pätz-Warncke C, Felmy F, Daniel R, Flügel A, Baumgärtner W, Odoardi F (2024) Role of the lung microbiome in SARS-CoV-2 infection – The effect of intranasal antibiotic treatment on the type I interferon response and microglial morphology in the CNS. Tierarztl Prax Ausg K Kleintiere Heimtiere 52:201 (DOI:10.1055/s-0044-1787354).
Schüler MA, Schneider D, Poehlein A, Daniel R (2024) Culture-independent detection of low-abundant Clostridioides difficile in environmental DNA via PCR. Appl Environ Microbiol 9:e01278-23 (DOI:10.1128/aem.01278-23).
Schüler MA, Daniel R, Poehlein A (2024) Novel insights into phage biology of the pathogen Clostridioides difficile based on the active virome. Front Microbiol 15:1374708 (DOI:10.3389/fmicb.2024.1374708).
Schüler MA, Riedel T, Overmann J, Daniel R, Poehlein A (2024) Comparative genome analyses of clinical and non-clinical Clostridioides difficile strains. Front Microbiol 15:1404491 (DOI:10.3389/fmicb.2024.1404491).
Schüler MA, Poehlein A, Daniel R (2024) Detektions-PCR und Amplikon- Sequenzierung: ein Power-Paar. BIOspektrum 30:533-535 (DOI:10.1007/s12268-024-2282-y).
Trischler R, Rustler SM, Poehlein A, Daniel R, Breitenbach M, Helfrich EJN, Müller V (2024) 3-Hydroxypropionate production from myo-inositol by the gut acetogen Blautia schinkii. Environ Microbiol 26(9):e16692 (DOI:10.1111/1462-2920.16692).
Wang S, Schneider D, Hartke TR, Ballauff J, de Melo Moura CC, Schulz G, Li Z, Polle A, Daniel R, Gailing O, Irawan B, Scheu S, Krashevska V (2024) Optimising highthroughput sequencing data analysis, from gene database selection to the analysis of compositional data: a case study on tropical soil nematodes. Front Ecol Evol 12:1168288 (DOI:10.3389/fevo.2024.1168288).
Wenzel A, Westphal C, Ballauff J, Berkelmann D, Brambach F, Buchori D, Camarretta N, Corre MD, Daniel R, Darras K, Erasmi S, Formaglio G, Hölscher D, Iddris NA, Irawan B, Knohl A, Kotowska MM, Krashevska V, Kreft H, Mulyani Y, Muβhoff O, Paterno GB, Polle A, Potapov A, Röll A, Scheu S, Schlund M, Schneider D, Sibhatu KT, Stiegler C, Sundawati L, Tjoa A, Tscharntke T, Veldkamp E, Waite PA, Wollni M, Zemp DC, Grass I (2024) Balancing economic and ecological functions in smallholder and industrial oil palm plantations. PNAS 121(17):e2307220121 (DOI:10.1073/pnas.2307220121).
Wicke D, Neumann P, Gößringer M, Chernev A, Davydov S, Poehlein A, Daniel R, Urlaub H, Hartmann RK, Ficner R, Stülke J (2024) The previously uncharacterized RnpM (YlxR) protein modulates the activity of ribonuclease P in Bacillus subtilis in vitro. Nucleic Acids Res 52:1404-1419 (DOI:10.1093/nar/gkad1171).
2023
Alberti L, König P, Zeidler S, Poehlein A, Daniel R, Averhoff B, Müller V (2023) Identification and characterization of a novel pathway for aldopentose degradation in Acinetobacter baumannii. Appl Environ Microbiol 25(11):2416-2430 (DOI:10.1111/1462-2920.16471).
Anzà S, Schneider D, Daniel R, Heistermann M, Sangmaneedet S, Ostner J, Schülke O (2023) The long-term gut bacterial signature of a wild primate is associated with a timing effect of pre- and postnatal maternal glucocorticoid levels. Microbiome 11(1):165 (DOI:10.1186/s40168-023-01596-w).
Böer T, Bengelsdorf FR, Bömeke M, Daniel R, Poehlein A (2023) Genome-based metabolic and phylogenomic analysis of three Terrisporobacter species. PLoS One 18(10):e0290128 (DOI:10.1371/journal.pone.0290128).
Burrascano S, Chianucci F, Trentanovi G, Kepfer-Rojas S, Sitzia T, et al. (2023) Where are we now with European forest multi-taxon biodiversity and where can we head to?. Biol Conserv 284:110176 (DOI:10.1016/j.biocon.2023.110176).
Castillo Villamizar GA, Nacke H, Daniel R (2023) Functional metagenomics approach for the discovery of novel genes encoding phosphatase activity. Methods Mol Biol 2555:103-114 (DOI:10.1007/978-1-0716-2795-2_7).
Chibani CM, Hertel R, Neumann-Schaal M, Goehlich H, Wagner K, Bunk B, Spröer C, Overmann J, Hoppert M, Marten M, Roth O, Liesegang H, Wendling CC (2023) Vibrio syngnathi sp.nov., a fish pathogen, isolated from the Kiel fjord. Int J Syst Evol Microbiol 73(6):005951 (DOI:10.1099/ijsem.0.005951).
Commichau FM, Hertel R, Stülke J (2023) Projekt im Wandel: von iGEM zu neuen Ufern. BIOspektrum 29:698
Friedrich I, Hertel R (2023) Isolation of a host-confined phage metagenome allows the detection of phages both capable and incapable of plaque formation. Methods Mol Biol 2555:195-203 (DOI:10.1007/978-1-0716-2795-2_14).
Friedrich I, Kuritsyn A, Hertel R, Daniel R (2023) Luteibacter flocculans sp. nov., isolated from a eutrophic pond and isolation and characterization of Luteibacter phage vB_LflM‐Pluto. Microorganisms 11:307 (DOI:10.3390/microorganisms11020307).
Friedrich I, Neubauer H, Kuritsyn A, Bodenberger B, Tskhay F, Hartmann S, Poehlein A, Bömeke M, Hoppert M, Schneider D, Hertel R, Daniel R (2023) Brevundimonas and Serratia as host systems for assessing associated environmental viromes and phage diversity by complementary approaches. Front Microbiol 14:1095850 (DOI:10.3389/fmicb.2023.1095850).
Guzman J, Won M, Poehlein A, Sombolestani AS, Mayorga-Ch D, Laureys D, Clippeleer J, Kämpfer P, Daniel R, Vilcinskas A, Vandamme P, Kwon SW (2023) Aristophania vespae gen. nov., sp. nov., isolated from wasps, is related to Bombella and Oecophyllibacter, isolated from bees and ants. Int J Syst Evol Microbiol 73(2):005699 (DOI:10.1099/ijsem.0.005699).
Guzman J, Poehlein A, Daniel R, Kämpfer P, Vilcinskas A (2023) Vagococcus luciliae sp. nov., isolated from the common green bottle fly Lucilia sericata. Int J Syst Evol Microbiol 73(3):005787 (DOI:10.1099/ijsem.0.005787).
Guzman J, Raval D, Hauck D, Titz A, Poehlein A, Degenkolb T, Daniel R, Vilcinskas A (2023) The resuscitation-promoting factor (Rpf) from Micrococcus luteus and its putative reaction product 1,6-anhydro-MurNAc increase culturability of environmental bacteria. Access Microbiol 5:000647.v4 (DOI:10.1099/acmi.0.000647.v4).
Heffner T, Brami SA, Mendes LW, Kaupper T, Hannula ES, Poehlein A, Horn MA, Ho A (2023) Interkingdom interaction: the soil isopod Porcellio scaber stimulates the methane-driven bacterial and fungal interaction. ISME COMMUN 3(1):62 (DOI:10.1038/s43705-023-00271-3).
Hollensteiner J, Wemheuer F, Schneider D, Pfeiffer B, Wemheuer B (2023) Extraction of total DNA and RNA from marine filter samples and generation of a universal cDNA as universal template for marker gene studies. Methods Mol Biol 2555:13-21 (DOI:10.1007/978-1-0716-2795-2_2).
Hollensteiner J, Schneider D, Poehlein A, Himmelbach A, Daniel R (2023) Metagenome-assembled genomes from particle-associated microbial communities in the mesopelagic zone of the Pacific Ocean. Microbiol Resour Announc 12(12):e0061423 (DOI:10.1128/MRA.00614-23).
Hollensteiner J, Schneider D, Poehlein A, Brinkhoff T, Daniel R (2023) Pan-genome analysis of six Paracoccus type strain genomes reveal lifestyle traits. PLoS One 18(12):e0287947 (DOI:10.1371/journal.pone.0287947).
Iddris NA-A, Formaglio G, Paul C, von Groß V, Chen G, Angulo-Rubiano A, Berkelmann D, Brambach F, Darras KFA, Krashevska V , Potapov A, Wenzel A, Irawan B, Damris M, Daniel R, Grass I, Kreft H, Scheu S, Tscharntke T, Tjoa A, Veldkamp E, Corre MD (2023) Mechanical weeding enhances ecosystem multifunctionality and profit in industrial oil palm. Nat Sustain 6:683-695 (DOI:10.1038/s41893-023-01076-x).
Jensen MG, Svraka L, Baez E, Lund M, Poehlein A, Brüggemann H (2023) Species- and strain-level diversity of Corynebacteria isolated from human facial skin. BMC Microbiol 23:366 (DOI: 10.1186/s12866-023-03129-9).
Kohm K, Lutz VT, Friedrich I, Hertel R (2023) CRISPR-Cas9 shaped viral metagenomes associated with Bacillus subtilis. Methods Mol Biol 2555:205-212 (DOI:10.1007/978-1-0716-2795-2_15).
Kohm K, Jalomo-Khayrova E, Krüger A, Basu S, Steinchen W, Bange G, Frunzke J, Hertel R, Commichau FM, Czech L (2023) Structural and functional characterization of MrpR, the master repressor of the Bacillus subtilis prophage SPβ. Nucleic Acids Res 51(17):9452-9474 (DOI:10.1093/nar/gkad675).
König P, Wilhelm A, Schaudinn C, Poehlein A, Daniel R, Widera M, Averhoff B, Müller V (2023) The VBNC state: a fundamental survival strategy of Acinetobacter baumannii. mBio 28:e0213923 (DOI:10.1128/mbio.02139-23).
Lehmann M, Prohaska C, Zeldes B, Poehlein A, Daniel R, Basen M (2023) Adaptive laboratory evolution of a thermophile toward a reduced growth temperature optimum. Front Microbiol 14:1265216 (DOI:10.3389/fmicb.2023.1265216).
Liu Y, Brinkhoff T, Berger M, Poehlein A, Voget S, Paoli L, Sunagawa S, Amann R, Simon M (2023) Metagenome-assembled genomes reveal greatly expanded taxonomic and functional diversification of the abundant marine Roseobacter RCA cluster. Microbiome 11:265 (DOI:10.1186/s40168-023-01644-5).
Moon J, Schubert A, Poehlein A, Daniel R, Müller V (2023) A new metabolic trait in an acetogen: Mixed acid fermentation of fructose in a methylene-tetrahydrofolate reductase mutant of Acetobacterium woodii. Environ Microbiol Rep 15(5):339-351 (DOI:10.1111/1758-2229.13160).
Nguyen VH, Wemheuer B, Song W, Bennett H, Webster N, Thomas T (2023) Identification, classification, and functional characterization of novel sponge-associated acidimicrobiial species. Syst Appl Microbiol 46(4):126426 (DOI:10.1016/j.syapm.2023.126426).
Nguyen VH, Wemheuer B, Song W, Holly Bennett H, Palladino G , Burgsdorf I, Sizikov S, Steindler L, Webster NS, Thomas T (2023) Functional characterization and taxonomic classification of novel gammaproteobacterial diversity in sponges. Syst Appl Microbiol 46(2):126401 (DOI:10.1016/j.syapm.2023.126401).
Ponraj DS, Lund M, Lange J, Poehlein A, Himmelbach A, Falstie-Jensen T, Jørgensen NP, Ravn C, Brüggemann H (2023) Shotgun sequencing of sonication fluid for the diagnosis of orthopaedic implant-associated infections with Cutibacterium acnes as suspected causative agent. Front Cell Infect Microbiol 13:1165017 (DOI:10.3389/fcimb.2023.1165017).
Protasov E, Nonoh JO, Kästle Silva JM, Mies US, Hervé V, Dietrich C, Lang K, Mikulski L, Platt K, Poehlein A, Köhler-Ramm T, Miambi E, Boga HI, Feldewert C, Ngugi DK, Plarre R, Sillam-Dussès D, Šobotník J, Daniel R, Brune A (2023) Diversity and taxonomic revision of methanogens and other archaea in the intestinal tract of terrestrial arthropods. Front Microbiol 14:1281628 (DOI:10.3389/fmicb.2023.1281628).
Rao S, Esvaran M, Chen L, Kok C, Keil AD, Gollow I, Simmer K, Wemheuer B, Conway P, Patole S (2023) Probiotic supplementation in neonates with congenital gastrointestinal surgical conditions: guidelines for future research. Pediatr Res 93:49–55 (DOI:10.1038/s41390-022-02087-8).
Schneider D, Ganbarzade A, Post S, Zühlke D, Hinzke T, Hollensteiner J, Poehlein A, Riedel K, Daniel R (2023) Complete genome sequence of Citrobacter braakii GW-Imi-1b1, isolated from hospital wastewater in Greifswald, Germany. Microbiol Resour Announc 12(5):e0014323 (DOI:10.1128/mra.00143-23).
Schöne C, Poehlein A, Rother M (2023) Genetic and physiological probing of cytoplasmic bypasses for the energy-converting methyltransferase Mtr in Methanosarcina acetivorans. Appl Environ Microbiol 89(7):e0216122 (DOI:10.1128/aem.02161-22).
Schüler M, Daniel R, Poehlein A (2023) Complete genome sequence of a Clostridioides difficile cryptic C-III strain isolated from horse feces. Microbiol Resour Announc 12(12):00781-23 (DOI:10.1128/MRA.00781-23).
Schwedt I, Collignon M, Mittelstädt C, Giudici F, Rapp J, Meißner J, Link H, Hertel R, Commichau FM (2023) Genomic adaptation of Burkholderia anthina to glyphosate uncovers a novel herbicide resistance mechanism. Environ Microbiol Rep 15(6):727-739 (DOI:10.1111/1758-2229.13184).
Schwedt I, Schöne K, Eckert M, Pizzinato M, Winkler L, Knotkova B, Richts B, Hau JL, Steuber J, Mireles R, Noda-Garcia L, Fritz G, Mittelstädt C, Hertel R, Commichau FM (2023) The low mutational flexibility of the EPSP synthase in Bacillus subtilis is due to a higher demand for shikimate pathway intermediates. Environ Microbiol 25(12):3604-3622 (DOI:10.1111/1462-2920.16518).
Simon C, Daniel R (2023) Construction of small-insert and large-insert metagenomic libraries. Methods Mol Biol 2555:1-12 (DOI:10.1007/978-1-0716-2795-2_1).
Strittmatter CS, Poehlein A, Himmelbach A, Daniel R, Steinbüchel A (2023) Medium-chain-length fatty acid catabolism in Cupriavidus necator H16: Transcriptome sequencing reveals differences from long-chain-length fatty acid β-oxidation and involvement of several homologous genes. Appl Environ Microbiol 89(1):e0142822 (DOI:10.1128/aem.01428-22).
Trischler R, Poehlein A, Daniel R, Müller V (2023) Ethanologenesis from glycerol by the gut acetogen Blautia schinkii. Environ Microbiol 25(12):3577-3591 (DOI:10.1111/1462-2920.16517).
Zeldes B, Poehlein A, Jain S, Baum C, Daniel R, Müller V, Basen M (2023) DNA uptake from a laboratory environment drives unexpected adaptation of a thermophile to a minor medium component. ISME COMMUN 3:2 (DOI:10.1038/s43705-022-00211-7).
Zemp DC, Guerrero-Ramirez N, Brambach F, Darras K, Grass I, Potapov A, Röll A, Arimond I, Ballauff J, Behling H, Berkelmann D, Biagioni S, Buchori D, Craven D, Daniel R, Gailing O, Ellsäßer F, Fardiansah R, Hennings N, Irawan B, Khokthong W, Krashevska V, Krause A, Kückes J, Li K, Lorenz H, Maraun M, Merk MS, Moura CCM, Mulyani YA, Paterno GB, Pebrianti HD, Polle A, Prameswari DA, Sachsenmaier L, Scheu S, Schneider D, Setiajiati F, Setyaningsih CA, Sundawati L, Tscharntke T, Wollni M, Hölscher D, Kreft H (2023) Tree islands enhance biodiversity and functioning in oil palm landscapes. Nature 618:316-321 (DOI:10.1038/s41586-023-06086-5).
2022
Afshar M, Møllebjerg A, Minero GA, Hollensteiner J, Poehlein A, Himmelbach A, Lange J, Meyer RL, Brüggemann H (2022) Biofilm formation and inflammatory potential of Staphylococcus saccharolyticus: A possible cause of orthopedic implant-associated infections. Front Microbiol 13:1070201 (DOI:10.3389/fmicb.2022.1070201).
Aguilar-Cruz Y, Milke F, Leinberger J, Poehlein A, Zotz G, Brinkhoff T (2022) Diversity and putative metabolic function of prokaryotic communities in tank bromeliads along an elevation gradient in tropical Mexico. Front Microbiol 13:945488 (DOI:10.3389/fmicb.2022.945488).
Ahle CM, Stødkilde C, Poehlein A, Bömeke M, Streit WR, Wenck H,Reuter JH, Hüpeden J, Brüggemann H (2022) Interference and co-existence of staphylococci and Cutibacterium acnes within the healthy human skin microbiome. Commun Biol 5:923 (DOI:10.1038/s42003-022-03897-6).
Baur ST, Markussen S, Di Bartolomeo F, Poehlein A, Baker A, Jenkinson ER, Daniel R, Wentzel A, Dürre P (2022) Increased butyrate production in Clostridium saccharoperbutylacetonicum from lignocellulose-derived sugars. Appl Environ Microbiol 21:e0241921 (DOI:10.1128/aem.02419-21).
Baur ST, Poehlein A, Renz NJ, Hollitzer SK, Montoya Solano JD, Schiel-Bengelsdorf B, Daniel R, Dürre P (2022) Modulation of sol mRNA expression by the long non-coding RNA Assolrna in Clostridium saccharoperbutylacetonicum affects solvent formation. Front Genet 13:966643 (DOI:10.3389/fgene.2022.966643).
Breidenbach A, Schleuss P-M, Liu S, Schneider D, Dippold MA, de la Haye T, Miehe G, Heitkamp F, Seeber E, Mason-Jones K, Xu X, Huanming Y, Xu J, Dorji T, Gube M, Norf H, Meier J, Guggenberger G, Kuzyakov Y, Spielvogel S (2022) Microbial functional changes mark irreversible course of Tibetan grassland degradation. Nat Commun 13:2681 (DOI:10.1038/s41467-022-30047-7).
Breisch J, Schumm C, Poehlein A, Daniel R, Averhoff B (2022) The carnitine degradation pathway of Acinetobacter baumannii and its role in virulence. Environ Microbiol 24(9):4437-4448 (DOI:10.1111/1462-2920.16075).
Chacón FI, Sineli PE, Mansilla FI, Pereyra MM, Diaz MA, Volentini SI, Poehlein A, Meinhardt F, Daniel R, Dib JR (2022) Native cultivable bacteria from the blueberry microbiome as novel potential biocontrol agents. Microorganisms 10(5):969 (DOI:10.3390/microorganisms10050969).
Dlugosch L, Poehlein A, Wemheuer B, Pfeiffer B, Badewien TH, Daniel R, Simon M (2022) Significance of gene variants for the functional biogeography of the near-surface Atlantic Ocean microbiome. Nat Commun 11:1186 (DOI:10.1038/s41467-022-28128-8).
Eze MO, Thiel V, Hose GC, George SC, Daniel R (2022) Enhancing rhizoremediation of petroleum hydrocarbons through bioaugmentation with a plant growth-promoting bacterial consortium. Chemosphere 289:133143 (DOI:10.1016/j.chemosphere.2021.133143).
Eze MO, Thiel V, Hose GC, George SC, Daniel R (2022) Bacteria-plant interactions synergistically enhance biodegradation of diesel fuel hydrocarbons. Commun Earth Environ 3:192 (DOI:10.1038/s43247-022-00526-2).
Fussmann D, von Hoyningen-Huene AJE, Reimer A, Schneider D, Karius V, Riechelmann S, Pederson CH, Swart PK, Daniel R, Arp G (2022) Decoupling of pore water chemistry, bacterial community profiles, and carbonate mud diagenesis in a land-locked pool on Aldabra (Seychelles, Indian Ocean). Geomicrobiol J 39(9):731-749 (DOI:10.1080/01490451.2022.2070689).
Gudzuhn M, Alio I, Moll R, de Vries J, Boehlich J, Assmann M, Janneschütz J, Schützenmeister N, Himmelbach A, Poehlein A, Daniel R, Streit WR (2022) Molecular insight into gene response of diorcinol- and rubrolide-treated biofilms of the emerging pathogen Stenotrophomonas maltophilia. Microbiol Spectr 26:e0258221 (DOI:10.1128/spectrum.02582-21).
Guzman J, Ortúzar M, Poehlein A, Daniel R, Trujillo ME, Vilcinskas A (2022) Agromyces archimandritae sp. nov., isolated from the cockroach Archimandrita tessellata. Int J Syst Evol Microbiol 72(3):005283 (DOI:10.1099/ijsem.0.005283).
Guzman J, Poehlein A, Glaeser SP, Schwengers O, Blom J, Hollensteiner J, Kämpfer P, Vilcinskas A (2022) Pseudocitrobacter corydidari sp. nov., isolated from the Asian emerald cockroach Corydidarum magnifica. Int J Syst Evol Microbiol 72:005497 (DOI:10.1099/ijsem.0.005497).
Hertel R, Schöne K, Mittelstädt C, Meißner J, Zschoche N, Collignon M, Kohler C, Friedrich I, Schneider D, Hoppert M, Kuhn R, Schwedt I, Scholz P, Poehlein A, Martienssen M, Ischebeck T, Daniel R, Commichau FM (2022) Characterization of glyphosate-resistant Burkholderia anthina and Burkholderia cenocepacia isolates from a commercial Roundup® solution. Environ Microbiol Rep 14(1):70-84 (DOI:10.1111/1758-2229.13022).
Hertel R, Gibhardt J, Martienssen M, Kuhn R, Commichau FM (2022) Molecular mechanisms underlying glyphosate resistance in bacteria. Environ Microbiol 23(6):2891-2905 (DOI:10.1111/1462-2920.15534).
Hosang L, Canals RC, van der Flier FJ, Hollensteiner J, Daniel R, Flügel A, Odoardi F (2022) The lung microbiome regulates brain autoimmunity. Nature 603:138-144 (DOI:10.1038/s41586-022-04427-4).
Kaupper T, Mendes LW, Poehlein A, Frohloff D, Rohrbach S, Horn MA, Ho A (2022) The methane-driven interaction network in terrestrial methane hotspots. Environ Microbiome 17:15 (DOI:10.1186/s40793-022-00409-1).
Kipnyargis A, Mwirichia R, Pfeiffer B, Daniel R (2022) Complete genome sequence of Alkalihalobacillus sp. strain LMS39, a haloalkaliphilic bacterium isolated from a hypersaline lake. Microbiol Resour Announc 11:e0032522 (DOI:10.1128/mra.00325-22).
Kohm K, Floccari VA, Lutz VT, Nordmann B, Mittelstädt C, Poehlein A, Dragoš A, Commichau FM, Hertel R (2022) The Bacillus phage SPβ and its relatives: a temperate phage model system reveals new strains, species, prophage integration loci, conserved proteins and lysogeny management components. Environ Microbiol 24(4):2098-2118 (DOI:10.1111/1462-2920.15964).
Leinberger J, Milke F, Christodoulou M, Poehlein A, Caraveo‐Patiño J, Teske A, Brinkhoff T (2022) Microbial epibiotic community of the deep‐sea galatheid squat lobster Munidopsis alvisca. Sci Rep 12:2675 (DOI:10.1038/s41598-022-06666-x).
Lewkowski O, Poehlein A, Daniel R, Erler S (2022) In the battle of the disease: a transcriptomic analysis of European foulbrood-diseased larvae of the Western honey bee (Apis mellifera). BMC Genomics 23(1):837 (DOI:10.1186/s12864-022-09075-6).
Lu M, Schneider D, Daniel R (2022) Metagenomic screening for lipolytic genes reveals an ecology-clustered distribution pattern. Front Microbiol 13:851969 (DOI:10.3389/fmicb.2022.851969).
Murillo T, Schneider D, Fichtel C, Daniel R (2022) Dietary shifts and social interactions drive temporal fluctuations of the gut microbiome from wild redfronted lemurs. ISME COMMUN 2:3 (DOI:10.1038/s43705-021-00086-0).
Murillo T, Schneider D, Heistermann M, Daniel R, Fichtel C (2022) Assessing the drivers of gut microbiome composition in wild redfronted lemurs via longitudinal metacommunity analysis. Sci Rep 12:21462 (DOI:10.1038/s41598-022-25733-x).
Papaioannou KK, Hollensteiner J, Witte JKH, Poehlein A, Daniel R (2022) Complete genome sequence of the type strain Aliivibrio fischeri DSM 507. Microbiol Resour Announc 11(12):e00801-22 (DOI:10.1128/mra.00801-22).
Pérez CAR, Janz D, Schneider D, Daniel R, Polle A (2022) Transcriptional landscape of ectomycorrhizal fungi and their host provides insight into N uptake from forest soil. mSystems 7(1):e00957-21 (DOI:10.1128/mSystems.00957-21).
Rao S, Esvaran M, Chen L, Keil AD, Gollow I, Simmer K, Wemheuer B, Conway P, Patole S (2022) Probiotic supplementation in neonates with congenital gastrointestinal surgical conditions: a pilot randomised controlled trial. Pediatr Res 92:1122–1131 (DOI:10.1038/s41390-021-01884-x).
Rosenbaum FP, Poehlein A, Daniel R, Müller V (2022) Energy-conserving dimethyl sulfoxide reduction in the acetogenic bacterium Moorella thermoacetica. Environ Microbiol 24:2000-2012 (DOI:10.1111/1462-2920.15971).
Rudolph K, Schneider D, Fichtel C, Daniel R, Heistermann M, Kappeler PM (2022) Drivers of gut microbiome variation within and between groups of a wild Malagasy primate. Microbiome 10:28 (DOI:10.1186/s40168-021-01223-6).
Ryadin AR, Janz D, Schneider D, Tjoa A, Irawan B, Daniel R, Polle A (2022) Early effects of fertilizer and herbicide reduction on root-associated biota in oil palm plantations. Agronomy 12(1):199 (DOI:10.3390/agronomy12010199).
Sadoughi B, Schneider D, Daniel R, Schülke O, Ostner J (2022) Aging gut microbiota of wild macaques are equally diverse, less stable, but progressively personalized. Microbiome 10:95 (DOI:10.1186/s40168-022-01283-2).
Schmitt M, Jarosch KA, Hertel R, Spielvogel S, Dippold MA, Loeppmann S (2022) Manufacturing triple-isotopically labeled microbial necromass to track C, N and P cycles in terrestrial ecosystems. Appl Soil Ecol 171:104322 (DOI:10.1016/j.apsoil.2021.104322).
Schoch T, Höfele F, Odeh H, Winter L-M, Stöferle S, Karl M, Bengelsdorf F, Poehlein A, Daniel R, Dürre P (2022) Reclassification of Clostridium aurantibutyricum Hellinger 1944 and Clostridium roseum (ex McCoy and McClung 1935) Cato et al. 1988. Int J Syst Evol Microbiol 72:005589 (DOI:10.1099/ijsem.0.005589).
Schöne C, Poehlein A, Jehmlich N, Adlung N, Daniel R, von Bergen M, Scheller S, Rother M (2022) Deconstructing Methanosarcina acetivorans into an acetogenic archaeon. PNAS 119(2):e2113853119 (DOI:10.1073/pnas.2113853119).
Shin JH, Bömeke M, Poehlein A, Hollensteiner J (2022) Complete genome sequence of Bacillus frigoritolerans JHS1. Microbiol Resour Announc 11(6):e0018422 (DOI:10.1128/mra.00184-22).
Tebbe DA, Geihser S, Wemheuer B, Daniel R, Schäfer H, Engelen B (2022) Seasonal and zonal succession of bacterial communities in North Sea salt marsh sediments. Microorganisms 10:859 (DOI:10.3390/ microorganisms10050859).
Varaljay VA, Charles TC, Daniel R (2022) Editorial: Functional Metagenomics for Enzyme Discovery. Front Microbiol 13:956106 (DOI:10.3389/fmicb.2022.956106).
von Hoyningen‑Huene AJE, Schneider D, Fussmann D, Reimer A, Arp G, Daniel R (2022) DNA‑ and RNA‑based bacterial communities and geochemical zonation under changing sediment porewater dynamics on the Aldabra Atoll. Sci Rep 12:4257 (DOI:10.1038/s41598-022-07980-0).
Wendling CC, Lange J, Liesegang H, Sieber M, Poehlein A, Bunk B, Rajkov J, Goehlich H, Roth O, Brockhurst MA (2022) Higher phage virulence accelerates the evolution of host resistance. Proc R Soc B 289(1984):20221070 (DOI:10.1098/rspb.2022.1070).
Werner KA, Poehlein A, Schneider D, El-Said K, Wöhrmann M, Linkert I, Hübner T, Brüggemann N, Prost K, Daniel R, Grohmann E (2022) Thermophilic composting of human feces: development of bacterial community composition and antimicrobial resistance gene pool. Front Microbiol 13:824834 (DOI:10.3389/fmicb.2022.824834).
Werner KA, Schneider D, Poehlein A, Diederich N, Feyen L, Axtmann K, Hübner T, Brüggemann N, Prost K, Daniel R, Grohmann E (2022) Metagenomic insights into the changes of antibiotic resistance and pathogenicity factor pools upon thermophilic composting of human excreta. Front Microbiol 13:826071 (DOI:10.3389/fmicb.2022.826071).
Ponraj DS, Lange J, Falstie-Jensen T, Jørgensen P, Ravn C, Poehlein A, Brüggemann H (2022) Amplicon-based next-generation sequencing as a diagnostic tool for the detection of phylotypes of Cutibacterium acnes in orthopedic implant-associated infections. Front Microbiol 13:866893 (DOI:10.3389/fmicb.2022.866893).
Zucker F, Bischoff V,Ndela EO, Heyerhoff B, Poehlein A, Freese HM, Roux S, Simon M, Enault F, Moraru Ch (2022) New Microviridae isolated from Sulfitobacter reveals two cosmopolitan subfamilies of single-stranded DNA phages infecting marine and terrestrial Alphaproteobacteria. Virus Evol 8(2):1-18 (DOI:10.1093/ve/veac070).