Dr. Dominik Schneider



  Georg-August University of Göttingen
  Institute of Microbiology and Genetics
  Department of Genomic and Applied Microbiology
  Grisebachstr. 8, 37077 Göttingen, Germany
 Dominik Schneider


  Room: 0.118
  Tel: ++49 (0)551 39 23833
  E-Mail: dschnei1(at)gwdg.de

Curriculum Vitae

 01/2014 – presentPostdoc, Department of Genomic and Applied Microbiology of Prof. Dr. Rolf Daniel, Georg-August University Göttingen, Germany
 5/2009 – 10/2013 PhD student in the DFG Research Unit 571 („Geobiology of organo- and biofilms: Coupling of the geosphere and the biosphere by microbial processes“) at the Department of Genomic and Applied Microbiology of Prof. Dr. Rolf Daniel, Georg-August University Göttingen, Germany
 03/2008 – 12/2008 Diploma thesis at the Department of Genomic and Applied Microbiology of Prof. Dr. Rolf Daniel, Georg-August University Göttingen, Germany
 10/2002 – 01/2008 Study of Biology at the Georg-August University Göttingen, Germany

PhD thesis

Metagenomic and Metatranscriptomic Analyses of Calcifying Biofilms

Research Project(s)


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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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

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).

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

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

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

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

Gerke J, Schneider D, Poehlein A, Cornish VW, Braus GH (2021) Draft genome sequence of Saccharomyces cerevisiae LW2591Y, a laboratory strain for in vivo multigene assemblies. Microbiol Resour Announc 10(9):e01418-20 (doi:10.1128/MRA.01418-20).

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

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

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

Willms IM, Bolz SH, Yuan J, Krafft L, Schneider D, Schöning I, Schrumpf M, Nacke H (2021) The ubiquitous soil verrucomicrobial clade ‘Candidatus Udaeobacter’ shows preferences for acidic pH. Environ Microbiol Rep 13(6):878-883 (doi:10.1111/1758-2229.13006).

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

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

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

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

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).

Gerke J, Frauendorf H, Schneider D, Wintergoller M, Hofmeister T, Poehlein A, Zebec Z, Takano E, Scrutton NS, Braus GH (2020) Production of the fragrance geraniol in peroxisomes of a product-tolerant baker's yeast. Front Bioeng Biotechnol 8:582052 (doi:10.3389/fbioe.2020.582052).

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

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).

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

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

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).

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).

Willms IM, Rudolph AY, Göschel I, Bolz SH, Schneider D, Penone C, Poehlein A, Schöning I, Nacke H (2020) Globally abundant “Candidatus Udaeobacter” benefits from release of antibiotics in soil and potentially performs trace gas scavenging. mSphere 5(4):e00186-20 (doi:10.1128/mSphere.00186-20).

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

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).

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).