Our research projects focus on a combination of field ecology with bioinformatics and new sequencing technologies. Conceptually, we are interested in patterns and structuring forces of communities, where organisms are not easily identifiable or distinguishable from each other. This interest applies to various levels, starting with abundance and diversity of taxa, over phylogenetic reconstructions, towards environmental and spatial influences and lastly regarding organisms' molecular interactions with each other on a genomic level. Methodologically, the workgroup is developing computational workflows and databases as well as laboratory protocols to analyse ecological samples with next-generation sequencing technologies.
Biologically, the focus of current projects is the dynamics of bacteria-host associations in changing environments. Regarding this, we currently consider changes in microbiota induced by
- symbiotic host-host interactions,
- the host's development,
- geographic intra-specific variability,
- climatic changes,
- prey capturing,
- as well as general variation between tissues and species of hosts.
To answer these questions, we conduct field work, analyse samples in our molecular laboratory and apply computational approaches. We have successfully developed methods to simultaneously assess biodiversity of bacteria and plants (here: mixed pollen samples) through next-generation sequencing allowing a very fine scaled interpretation of plant-bee-microbe interactions. Usually we start with descriptive studies, investigating the status-quo, which are followed by experimental designs manipulating the associations by (e.g. antibiotic) exclusion and bioassays. Lastly, for prospective bacteria with interesting distributions and activity, we are also engaged into genomics, studying the genetic possibilities that bacteria bring into the associations with their respective hosts.
2018[ to top ]
- The characterization of the circadian clock in the olive fly Bactrocera oleae (Diptera: Tephritidae) reveals a Drosophila-like organization. in Scientific Reports (2018). 8(1) 816.
- Physical contact between mesenchymal stem cells and endothelial precursors induces distinct signatures with relevance to the very early phase of regeneration. in Journal of Cellular Biochemistry (2018).
- FENNEC - Functional Exploration of Natural Networks and Ecological Communities. in Methods in Ecology and Evolution (2018). 2028–2033.
- Draft Genome Sequence of Klebsiella sp. Strain C31 Isolated from a Malaysian Tropical Peat Swamp Forest. in Genome announcements (2018). 6(25) e00560--18.
- Draft Genome Sequence of Dyella sp. Strain C9, Isolated from a Malaysian Tropical Peat Swamp Forest. in Microbiol Res Announc (2018). 7(12) e01083--18.
- Draft Genome Sequence of Dyella sp. Strain C11, Isolated from a Malaysian Tropical Peat Swamp Forest. in Genome announcements (2018). 6(25) e00459--18.
2017[ to top ]
- Release from prey preservation behavior via prey switch allowed diversification of cuticular hydrocarbon profiles in digger wasps. in Evolution (2017). in press
- Honey bee foraging ecology: Season but not landscape diversity shapes the amount and diversity of collected pollen. in PloS one (2017). 12(8) e0183716.
- Honey bee foraging ecology: Season but not landscape diversity shapes the amount and diversity of collected pollen. in PLoS one (2017). in press
- Generalist social bees maximize diversity intake in plant species-rich and resource-abundant environments. in Ecosphere (2017). 8(3) e01758--n/a.
2016[ to top ]
- TBro: visualization and management of de novo transcriptomes. in Database (2016). 2016
- Silent listeners: Can preferences of eavesdropping midges predict the parasitism risk of their host? in Behavioral Ecology (2016). 27 995-1003.
- Pollen DNA barcoding: current applications and future prospects. in Genome (2016). 59 629-640.
- Laboratory rearing of solitary bees and wasps. in Insect Science (2016). 23 918.
- Draft genome of the Arabidopsis thaliana phyllosphere bacterium, Williamsia sp. ARP1. in Standards in Genomic Sciences (2016).
- DNA-Metabarcoding – ein neuer Blick auf organismische Diversität. in BioSpektrum (2016). 22 147-150.
- Crown galls of grapevine (Vitis vinifera) host distinct microbiota. in Applied and Environmental Microbiology (2016). 82 5542-5552.
- Contact of myeloma cells induces a characteristic transcriptome signature in skeletal precursor cells--Implications for myeloma bone disease. in Bone (2016). 93 155--166.
- biojs-io-biom, a BioJS component for handling data in Biological Observation Matrix (BIOM) format. in F1000Research (2016). 5 2348.
- bcgTree: automatized phylogenetic tree building from bacterial core genomes. in Genome (2016). 59 783-791.
- Bacterial Diversity and Community Structure in Two Bornean Nepenthes Species with Differences in Nitrogen Acquisition Strategies. in Microbial Ecology (2016). 71 938–953.
2015[ to top ]
- Reptiles as reservoirs of bacterial infections: real threat or methodological bias? in Microbial Ecology (2015). 70(3) 579-84.
- Monophyletic clades of Macaranga pollinating thrips with high specificity to host plant taxonomic sections. in Biological Journal of the Linnean Society (2015). 116(3) 558–570.
- Microhabitat heterogeneity across leaves and flower organs promotes bacterial diversity. in FEMS Microbiology Ecology (2015). 91(1) fiv09.
- ITS2 Database V: Twice as Much. in Molecular Biology and Evolution (2015). 32(11) 3030-3032.
- Increased efficiency in identifying mixed pollen samples by meta-barcoding with a dual-indexing approach. in BMC Ecology (2015). 15 20.
- Functional and phylogenetic diversities of plant communities differently affect the structure of flower-visitor interactions and reveal convergences in floral traits. in Evolutionary Ecology (2015). 29 437-450.
- Evaluating multiplexed next-generation sequencing as a method in palynology for mixed pollen samples. in Plant Biology (2015). 17 558-566.
- DNA-analyses of Venerupis philippinarum (Adams and Reeve, 1850) with a new and constant shell-pattern from Italy, Emilia Romagna. in Malacologia (2015). 86(1) 30-32.
2014[ to top ]
- Pollen DNA barcoding using next-generation sequencing. in Barcode Bulletin (2014). 5(3) 8.
- Novel form of X-linked nonsyndromic hearing loss with cochlear malformation caused by a mutation in the type IV collagen gene COL4A6. in European Journal of Human Genetics (2014). (22) 208-215.
- Identification of WISP1 as an important survival factor in human mesenchymal stem cells. in Gene (2014). 551(2) 243-54.
- Density-dependent responses by bumblebees to flower dwelling bacteria. in Apidologie (2014). 45 467-477.
- Confirmation of warfarin resistance of naturally occurring VKORC1 variants by coexpression with coagulation factor IX and in silico protein modelling. in BMC Genetics (2014). 15 17.
2013[ to top ]
- Only distance matters--non-choosy females in a poison frog population. in Frontiers in Zoology (2013). 10(1) 29.
- Diverse microbiota identified in whole intact nest chambers of the red mason bee Osmia bicornis (Linnaeus 1758). in PloS one (2013). 8(10) e78296.
2012[ to top ]
- Common ancestry or environmental trait filters: cross-continental comparisons of trait--habitat relationships in tropical anuran amphibian assemblages. in Global Ecology and Biogeography (2012). 21(7) 704--715.
2011[ to top ]
- Internal transcribed spacer 2 (nu ITS2 rRNA) sequence-structure phylogenetics: towards an automated reconstruction of the green algal tree of life. in PLoS One (2011). 6(2) e16931.
- Hawaiian ant-flower networks: nectar-thieving ants prefer undefended native over introduced plants with floral defenses. in Ecological Monographs (2011). 81(2) 295--311.
- Composition of epiphytic bacterial communities differs on petals and leaves. in Plant Biology (2011). 13(6) 918--924.
2010[ to top ]
- The ITS2 Database III—sequences and structures for phylogeny. in Nucleic Acids Research (2010). 38(Suppl 1) D275--D279.
- Ribosomal RNA phylogenetics: the third dimension. in Biologia (2010). 65(3) 388--391.
- ITS2 sequence-structure phylogeny in the Scenedesmaceae with special reference to em Coelastrum em (Chlorophyta, Chlorophyceae), including the new genera em Comasiella em and em Pectinodesmusem. in Phycologia (2010). 49(4) 325--335.
- Including RNA secondary structures improves accuracy and robustness in reconstruction of phylogenetic trees. in Biology Direct (2010). 5 4.
2009[ to top ]
- The importance of environmental heterogeneity for species diversity and assemblage structure in Bornean stream frogs. in Journal of Animal Ecology (2009). 78(2) 305--314.
- ITS2 secondary structure improves phylogeny estimation in a radiation of blue butterflies of the subgenus em Agrodiaetus em (Lepidoptera: Lycaenidae: \em Polyommatus\em ). in BMC Evolutionary Biology (2009). 9(1) 300.
- Die Artenvielfalt der Amphibien in einem Tieflandregenwald auf Borneo. (2009). 80--83.
- A Bornean amphibian hotspot: the lowland mixed dipterocarp rainforest at Ulu Temburong National Park, Brunei Darussalam. in Salamandra (2009). 45 16--25.
- 5.8S-28S rRNA interaction and HMM-based ITS2 annotation. in Gene (2009). 430(1) 50--57.
2008[ to top ]
- ITS2 data corroborate a monophyletic chlorophycean DO-group (Sphaeropleales). in BMC Evolutionary Biology (2008). 8(1) 218.
- Geographic distribution: Xenodermus javanicus (Short Note). in Herpetological Review (2008). 39 373.
- Geographic distribution: Parias sumatranus (Short Note). in Herpetological Review (2008). 39 373.