Career Status:
Postdoctoral Scholar

Research Areas:
Computational Biology, Molecular Biology, Genomics, Genetics, Synthetic Biology, Evolution

Publications

2020

Choi, J., Lee, T., Cho, J., Servante, E., Pucker, B., Summers, W., et al. The negative regulator SMAX1 controls mycorrhizal symbiosis and strigolactone biosynthesis in rice. Nature Communications 11, 2114 (2020). doi:10.1038/s41467-020-16021-1.

Frey, K., Weisshaar, B. and Pucker, B. (2020). Reference-based QUantification Of gene Dispensability (QUOD). bioRxiv. doi:10.1101/2020.04.28.065714.

Schilbert H. M., Rempel A. and Pucker, B. (2020).
Comparison of read mapping and variant calling tools for the analysis of plant NGS data. Plants. doi:10.3390/plants9040439.

Siadjeu C.*, Pucker B.*, Viehoever P., Albach D. and Weisshaar B. (2020).
High contiguity de novo genome sequence assembly of Trifoliate yam (Dioscorea dumetorum) using long read sequencing.
Genes. doi:10.3390/genes11030274.

Frey K. & Pucker, B. (2020).
Animal, fungi, and plant genome sequences harbour different non-canonical splice sites. Cells. doi:10.3390/cells9020458.

Holtgräwe, D., Rosleff Sörensen, T., Hausmann, L., Pucker, B., Viehöver, P., Töpfer, R., Weisshaar, B. (2020).
A Partially Phase-Separated Genome Sequence Assembly of the Vitis Rootstock 'Börner'
(Vitis riparia x Vitis cinerea) and its Exploitation for Marker Development and Targeted Mapping.
Front. Plant Sci. doi:10.3389/fpls.2020.00156.Frey, K.*, Hafner, A.* and Pucker B. (2020).

The Reuse of Public Datasets in the Life Sciences: Potential Risks and Rewards.
doi: 10.20944/preprints202002.0146.v1

Pucker B., Pandey A., Weisshaar B. and Stracke R. (2020).
The R2R3-MYB gene family in banana (Musa acuminata): genome-wide identification, classification and expression patterns.
bioRxiv 2020.02.03.932046. doi:10.1101/2020.02.03.932046.

Busche M*, Pucker B*, Viehöver P, Weisshaar B, Stracke R. (2020).
Genome Sequencing of Musa acuminata Dwarf Cavendish Reveals a Duplication of a Large Segment of Chromosome 2.
G3: Genes|Genomes|Genetics. doi:10.1534/g3.119.400847.

2019

Pucker B & Schilbert H.
Genomics and Transcriptomics Advance in Plant Sciences.
Molecular Approaches in Plant Biology and Environmental Challenges.
Springer. 2019. ISBN 978-981-15-0690-1. doi:10.1007/978-981-15-0690-1

Pucker B, Rückert C, Stracke R, Viehöver P, Kalinowski J,
Weisshaar B.
Twenty-Five Years of Propagation in Suspension Cell Culture Results in
Substantial Alterations of the Arabidopsis Thaliana Genome.
Genes. 2019. doi:10.3390/genes10090671

Sheehan, H., Feng, T., Walker-Hale, N., Lopez-Nieves, S., Pucker, B.,
Guo, R., Yim, W. C., Badgami, R., Timoneda, A., Zhao, L., Tiley, H.,
Copetti, D., Sanderson, M. J., Cushman, J. C., Moore, M. J., Smith, S.
A., Brockington, S. F.
Evolution of L-DOPA 4,5-dioxygenase activity allows for recurrent
specialisation to betalain pigmentation in Caryophyllales.
New Phytologist. 2019. doi:10.1111/nph.16089

Timoneda, A., Feng, T., Sheehan, H., Walker-Hale, N., Pucker, B., Lopez-Nieves, S., Guo, R., Brockington, S. (2019). The evolution of betalain biosynthesis in Caryophyllales. New Phytologist. doi:10.1111/nph.15980.

Pucker, B., Schilbert, H.M., Schumacher, S.F. (2019). Integrating Molecular Biology and Bioinformatics Education. Journal of Integrative Bioinformatics. doi:10.1515/jib-2019-0005.

Pucker, B., Feng, T., Brockington, S. (2019). Next generation sequencing to investigate genomic diversity in Caryophyllales. bioRxiv 646133; doi:10.1101/646133.

Pucker, B., Holtgraewe, D., Stadermann, K. B., Frey, K., Huettel, B., Reinhardt, R., & Weisshaar, B. (2019). A Chromosome-level Sequence Assembly Reveals the Structure of the Arabidopsis thaliana Nd-1 Genome and its Gene Set. PLOS ONE:e0216233. doi:10.1371/journal.pone.0216233.

Frey K., Pucker, B. (2019). Animal, fungi, and plant genome sequences harbour different non-canonical splice sites. bioRxiv 616565. doi:10.1101/616565.

Pucker, B. (2019). Mapping-based genome size estimation. bioRxiv. doi:10.1101/607390.

Baasner, J.-S., Howard, D., Pucker, B. (2019). Influence of neighboring small sequence variants on functional impact prediction. bioRxiv. doi:10.1101/596718.

Pucker, B. (2019). De novo Nd-1 genome assembly reveals genomic diversity of Arabidopsis thaliana and facilitates genome-wide non-canonical splice site analyses across plant species. Dissertation. doi:10.4119/unibi/2935794.

Pucker, B. and Brockington, S.F. (2018). Genome-wide analyses supported by RNA-Seq reveal non-canonical splice sites in plant genomes. BMC Genomics. 2018;19(1). doi:10.1186/s12864-018-5360-z.


2018

Schilbert, H.M., Pellegrinelli, V., Rodriguez-Cuenca, S., Vidal-Puig, A. & Pucker, B. (2018). Harnessing natural diversity to identify key amino acid residues in prolidase. bioRxiv 423475; doi:10.1101/423475.

Brinkrolf, C., Henke, N. A., Ochel, L., Pucker, B., Kruse, O., and Lutter, P. (2018). Modeling and Simulating the Aerobic Carbon Metabolism of a Green Microalga Using Petri Nets and New Concepts of VANESA. Journal of Integrative Bioinformatics 15. doi:10.1515/jib-2018-0018.

Whitford, C. M., Dymek, S., Kerkhoff, D., März, C., Schmidt, O., Edich, M., Droste, J., Pucker, B., Rückert, C. and Kalinowski, J. (2018). Auxotrophy to Xeno-DNA: an exploration of combinatorial mechanisms for a high-fidelity biosafety system for synthetic biology applications. Journal of Biological Engineering, 12(1). doi:10.1186/s13036-018-0105-8.

Haak, M., Vinke, S., Keller, W., Droste, J., Rückert, C., Kalinowski, J., & Pucker, B. (2018). High Quality de novo Transcriptome Assembly of Croton tiglium. Frontiers in Molecular Biosciences, 5. doi:10.3389/fmolb.2018.00062.

Friedrich, A. and Pucker, B. (2018). Peer-review as a teaching method. Working Paper der AG Forschendes Lernen in der dghd, 2, 2018. Carl von Ossietzky Universität Oldenburg. full text


2017

Pucker, B., Holtgräwe, D., & Weisshaar, B. (2017). Consideration of non-canonical splice sites improves gene prediction on the Arabidopsis thaliana Niederzenz-1 genome sequence. BMC Research Notes, 10, 667. doi:10.1186/s13104-017-2985-y.

Alkhateeb, R., Rückert, C., Rupp, O., Pucker, B., Hublik, G., Wibberg, D., Niehaus, K., Pühler, A., Vorhölter, F.J. (2017). Refined annotation of the complete genome of the phytopathogenic and xanthan producing Xanthomonas campestris pv. campestris strain B100 based on RNA sequence data. Journal of Biotechnology. doi:10.1016/j.jbiotec.2017.05.009.


2016

Pucker, B., Holtgräwe, D., Rosleff Sörensen, T., Stracke, R., Viehöver, P., and Weisshaar, B. (2016). A de novo Genome Sequence Assembly of the Arabidopsis thaliana Accession Niederzenz-1 Displays Presence/Absence Variation and Strong Synteny. PloS-ONE 11:e0164321. doi:10.1371/journal.pone.0164321.


2014

Fust A., Hollmann B., Pucker, B., Wollborn D., Tiemann J., Droste J., Brosda S., Blunk S., Riedl S., Bleckwehl T. (2014). The Transformers. From Carbon Dioxide to Biofuel. doi:10.13140/RG.2.2.30504.98566.

Stracke, R., Holtgräwe, D., Schneider, J., Pucker, B., Sörensen, T.R., and Weisshaar, B. (2014). Genome-wide identification and characterisation of R2R3-MYB genes in sugar beet (Beta vulgaris). BMC Plant Biol. 14: 249. doi:10.1186/s12870-014-0249-8.

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Current Affiliations
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