Genomic and Applied Microbiology

Dr. Bernd Wemheuer



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


  Room: 0.118
  Tel: ++49 (0)551 39 33833
  Fax: ++49 (0)551 39 12181
  E-Mail: bwemheu(at)

Curriculum Vitae

  from 03/2017DFG research fellow at the Centre for Marine Bio-Innovation at the University of New South Wales (UNSW), Sydney, Australia
 02/2014 – 03/2017Postdoc in the DFG Collaborative Research Centre Transregio 51 (“Ecology, Physiology and Molecular Biology of the Roseobacter clade”) at the Department of Genomic and Applied Microbiology
 4/2010 – 01/2014 PhD student in the DFG Collaborative Research Centre Transregio 51 (“Ecology, Physiology and Molecular Biology of the Roseobacter clade”) at the Department of Genomic and Applied Microbiology
 10/2009 – 03/2010 Research assistant at the Department of Genomic and Applied Microbiology
 12/2008 – 09/2009 Diploma thesis (equivalent to Master thesis) at the Department of Genomic and Applied Microbiology, Georg August University Göttingen, Germany
 10/2003 – 09/2009 Study of Biology at the Georg August University Göttingen, Germany

Research cruises/studies abroad:
  • 05/2016 - 06/2016  RV Sonne: Pacific Ocean (cruise: SO248)
  • 05/2014 – 06/2014  RV Heincke: North Sea (cruise: HE425)
  • 03/2012 – 04/2012  RV Polarstern: Southern Ocean (cruise: AntXXVIII-4)
  • 07/2011       RV Heincke: North Sea (cruise: HE361)
  • 05/2010       RV Heincke: North Sea (cruise: HE327)
  • 09/2009       Research stay at the University of the Free State, Bloemfontein, South Africa

Major Research Interests

  • Microbial Ecology
    The main focus of my research is microbial ecology and functioning. Together with my wife Franziska Wemheuer (Section of Agricultural Entomology, Department for Crop Sciences), I am investigating distribution patterns, diversity, and functions of microbial life in diverse environments including water, soil and plants. We would like to know what is out there, what they are doing and how they respond to changing environmental conditions. In addition, we are interested in plant-microbe interactions.
  • The Roseobacter clade
    The Roseobacter clade is a globally distributed and abundant marine lineage. Although being frequently studied, still little is known about traits contributing to its success. Moreover, genomic features of abundant Roseobacter subclusters are still missing. As part of the CRC51 “Roseobacter”, I contribute to a better understanding of success and distribution of this clade in marine ecosystems.
    For detailed information follow the link:
  • Extremophiles
    Sites inhabited by extremophile microorganisms such as hot springs are windows in the past of our planet. Hence, studying these sites and their microbial life shed new insights into the early life on our plant. Due to the low diversity, extreme sites are an ideal place for studying microbial interactions. Moreover, extremophilic archaea and bacteria are a rich source for novel biocatalysts.
  • Bioinformatics/Biostatistics
    With the advent of next generation sequencing, the amount of data produced has dramatically increased. This data has to be processed and analyzed. For our collaboration partners, I offer advice in the analysis of especially metagenomic, metatranscriptomic, and amplicon data. Moreover, I am involved in the invention of novel bioinformatic tools and statistical solutions for analysis of NGS-derived data.
    See also my ResearchGate profile:

Research Project(s)


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 72:20-25.

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 doi: 10.1016/j.syapm.2017.05.006 (abstract).

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 (abstract).

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 (abstract).

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 (abstract).

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:e00086-17 (abstract).

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 5:68 (abstract).

Wemheuer B, Wemheuer F (2017) Assessing bacterial and fungal diversity in the plant endosphere. Methods Mol Biol 1539:75-84 (abstract).

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 (abstract).

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 (abstract).

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 (abstract).

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 (abstract).

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:fiv137 (abstract).

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 (abstract).

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:e0148781 (abstract).

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 62:323-329 (abstract).

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

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

Herzog S, Wemheuer F, Wemheuer B, Daniel R (2015) Effects of fertilization and sampling time on composition and diversity of entire and active bacterial communities in German grassland soils. PLOS One 10:e0145575 (abstract).

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

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

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

Ilmberger N, Güllert S, Dannenberg J, Rabausch U, Torres J, Wemheuer B, Alawi M, Poehlein A, Chow J, Turaev D, Rattei T, Schmeisser C, Salomon J, Olsen PB, Daniel R, Grundhoff A, Borchert MS, Streit WR (2014) A comparative metagenome survey of the fecal microbiota of a breast- and a plant-fed asian elephant reveals an unexpectedly high diversity of glycoside hydrolase family enzymes. PLOS One 9:e106707 (abstract).

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

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

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

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

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

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