Dr. E. (Evelien) Jongepier
Bioinformatician
Faculty of Science
Institute for Biodiversity and Ecosystem Dynamics
Visiting address
- Science Park 904
- Room number: C4.204
Postal address
- Postbus 94240
1090 GE Amsterdam
Contact details
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Profile
I am bioinformatician of the Institute for Biodiversity and Ecosystem Dynamics and part of the Research Priority Area Systems Biology of the University of Amsterdam. My aim is to help unravel the ecological and evolutionary dynamics of complex biological systems through the development and application of bioinformatic workflows.
Research
Over the past year, I worked together with dozens of IBED researchers and students on analyses ranging from WGS metagenomics, metabarcoding, transcriptomics and gene expression analyses, population genomics and comparative genomics. Working on a project basis, I guide and support scientists, postdocs and PhD-students from IBED with bioinformatic analyses of their sequencing data. Depending on project needs, my contribtion can consist of advise on experimental design and analyses, development and benchmarking of bioinformatics pipelines, analyses and integration of sequencing data, and / or facilitating open science through the publication of data and tools.
Education
Thanks to the Molecular Lab of IBED, we can now offer course practicals from sample collection to amplicon sequencing within just a few days, including the taxonomic classification using my bioinformatics pipeline NanoClass. I also develop teaching material for practicals and assignments, contribute bioinformatic analyses during courses, and provide supervision to individual students if their project contains a strong bioinformatic component. In addition, I offer on-demand workshops in bioinformatic methods for students and staff, such as the analyses of amplicon sequencing data using QIIME2. As an Amsterdam Science Park Study Group affiliate, I contribute to Data and Software Carpentry courses.
Infrastructure
To meet the high computational needs of bioinformatics research, IBED has access to several High Performance Computer clusters, including Crunchomics and Lisa. If you need advise or help getting started with you bioinformatic analyses on these clusters please let me know.
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Curriculum vitae
Work experience
Since 2019
Bioinformatician
Institute for Biodiversity and Ecosystem Dynamics,
University of Amsterdam, The Netherlands.2016 - 2019
Postdoctoral researcher in comparative insect genomics
Molecular Evolution and Bioinformatics group at the Institute for Evolution and Biodiversity
University of Münster, Germany.2015 - 2016
Postdoctoral researcher & lecturer in ant genomics
Evolutionary Biology Group at the Institute for Zoology,
Johannes Gutenberg University Mainz, Germany.
Education2011 - 2015
PhD in Evolutionary Biology - Johannes Gutenberg University Mainz.
Awarded Summa Cum Laude2007 - 2011
Master of Science in Ecology and Evolution - Rijksuniversiteit Groningen.
Top programme Evolutionary Ecology -
Publications
2022
- Jongepier, E., Séguret, A., Labutin, A., Feldmeyer, B., Gstöttl, C., Foitzik, S., Heinze, J., & Bornberg-Bauer, E. (2022). Convergent loss of chemoreceptors across independent origins of slave-making in ants. Molecular Biology and evolution, 39(1), [msab305]. https://doi.org/10.1093/molbev/msab305
2021
Ahn, A-C., Jongepier, E., Schuurmans, J. M., Rijpstra, W. I. C., Sinninghe Damsté, J. S., Galinski, E. A., Roman, P., Sorokin, D., & Muyzer, G. (2021). Molecular and Physiological Adaptations to Low Temperature in Thioalkalivibrio Strains Isolated from Soda Lakes with Different Temperature Regimes. mSystems, 6(2), [e01202-20]. https://doi.org/10.1128/mSystems.01202-20 [details]- Ford, A. K., Visser, P. M., van Herk, M. J., Jongepier, E., & Bonito, V. (2021). First insights into the impacts of benthic cyanobacterial mats on fish herbivory functions on a nearshore coral reef. Scientific Reports, 11, [7147]. https://doi.org/10.1038/s41598-021-84016-z [details]
- Scharf, I., Stoldt, M., Libbrecht, R., Höpfner, A. L., Jongepier, E., Kever, M., & Foitzik, S. (2021). Social isolation causes downregulation of immune and stress response genes and behavioural changes in a social insect. Molecular Ecology, 30(10), 2378-2389. https://doi.org/10.1111/mec.15902 [details]
- Stoldt, M., Klein, L., Beros, S., Butter, F., Jongepier, E., Feldmeyer, B., & Foitzik, S. (2021). Parasite presence induces gene expression changes in an ant host related to immunity and longevity. Genes, 12(1), [95]. https://doi.org/10.3390/genes12010095
- Xiong, X., Kelkar, Y. D., Geden, C. J., Zhang, C., Wang, Y., Jongepier, E., Martinson, E. O., Verhulst, E. C., Gadau, J., Werren, J. H., & Wang, X. (2021). Long-Read Assembly and Annotation of the Parasitoid Wasp Muscidifurax raptorellus, a Biological Control Agent for Filth Flies. Frontiers in Genetics, 12, [748135]. https://doi.org/10.3389/fgene.2021.748135
2020
- Gstöttl, C., Stoldt, M., Jongepier, E., Bornberg-Bauer, E., Feldmeyer, B., Heinze, J., & Foitzik, S. (2020). Comparative analyses of caste, sex, and developmental stage-specific transcriptomes in two Temnothorax ants. Ecology and Evolution, 10(10), 1-11. https://doi.org/10.1002/ece3.6187
2019
- Hartke, J., Schell, T., Jongepier, E., Schmidt, H., Sprenger, P. P., Paule, J., Bornberg-Bauer, E., Schmitt, T., Menzel, F., Pfenninger, M., & Feldmeyer, B. (2019). Hybrid Genome Assembly of a Neotropical Mutualistic Ant. Genome Biology and Evolution, 11(8), 2306-2311. https://doi.org/10.1093/gbe/evz159
- Kaur, R., Stoldt, M., Jongepier, E., Feldmeyer, B., Menzel, F., Bornberg-Bauer, E., & Foitzik, S. (2019). Ant behaviour and brain gene expression of defending hosts depend on the ecological success of the intruding social parasite. Philosophical Transactions of the Royal Society B - Biological Sciences, 374(1769). https://doi.org/10.1098/rstb.2018.0192
2018
- Bornberg-Bauer, E., Harrison, M. C., & Jongepier, E. (2018). The first cockroach genome and its significance for understanding development and the evolution of insect eusociality. Journal of Experimental Zoology. Part B Molecular and Development Evolution, 330(5), 251-253. https://doi.org/10.1002/jez.b.22826.
- Grueter, C., Jongepier, E., & Foitzik, S. (2018). Insect societies fight back: the evolution of defensive traits against social parasites. Philosophical Transactions of the Royal Society B - Biological Sciences, 373(1751). https://doi.org/10.1098/rstb.2017.0200
- Harrison, M. C., Arning, N., Kremer, L. P. M., Ylla, G., Belles, X., Bornberg-Bauer, E., Huylmans, A. K., Jongepier, E., Piulachs, M. D., Richards, S., & Schal, C. (2018). Expansions of key protein families in the German cockroach highlight the molecular basis of its remarkable success as a global indoor pest. Journal of Experimental Zoology. Part B Molecular and Development Evolution, 330(5), 254-264. https://doi.org/10.1002/jez.b.22824
- Harrison, M. C., Jongepier, E., Robertson, H. M., Arning, N., Bitard-Feildel, T., Chao, H., Childers, C. P., Dinh, H., Doddapaneni, H., Dugan, S., Gowin, J., Greiner, C., Han, Y., Hu, H., Hughes, D. S. T., Huylmans, A. K., Kemena, C., Kremer, L. P. M., Lee, S. L., ... Bornberg-Bauer, E. (2018). Hemimetabolous genomes reveal molecular basis of termite eusociality. Nature Ecology & Evolution, 2(3), 557-566. https://doi.org/10.1038/s41559-017-0459-1
- Jongepier, E., Kemena, C., Lopez-Ezquerra, A., Belles, X., Bornberg-Bauer, E., & Korb, J. (2018). Remodeling of the juvenile hormone pathway through caste-biased gene expression and positive selection along a gradient of termite eusociality. Journal of Experimental Zoology. Part B Molecular and Development Evolution, 330(5), 296-304. https://doi.org/10.1002/jez.b.22805
2016
- Jongepier, E., & Foitzik, S. (2016). Ant recognition cue diversity is higher in the presence of slavemaker ants. Behavioral Ecology, 27(1), 304-311. https://doi.org/10.1093/beheco/arv153
- Jongepier, E., & Foitzik, S. (2016). Fitness costs of worker specialization for ant societies. Proceedings of the Royal Society B-Biological Sciences, 283(1822). https://doi.org/10.1098/rspb.2015.2572
- Negroni, M. A., Jongepier, E., Feldmeyer, B., Kramer, B. H., & Foitzik, S. (2016). Life history evolution in social insects: a female perspective. Current Opinion in Insect Science, 16, 51-57. https://doi.org/10.1016/j.cois.2016.05.008
2015
- Beros, S., Jongepier, E., Hagemeier, F., & Foitzik, S. (2015). The parasite's long arm: a tapeworm parasite induces behavioural changes in uninfected group members of its social host. Proceedings of the Royal Society B-Biological Sciences, 282(1819). https://doi.org/10.1098/rspb.2015.1473
- Jongepier, E., Kleeberg, I., & Foitzik, S. (2015). The ecological success of a social parasite increases with manipulation of collective host behaviour. Journal of Evolutionary Biology, 28(12), 2152-2162. https://doi.org/10.1111/jeb.12738
- Kleeberg, I., Jongepier, E., Job, S., & Foitzik, S. (2015). Geographic Variation in Social Parasite Pressure Predicts Intraspecific but not Interspecific Aggressive Responses in Hosts of a Slavemaking Ant. Ethology, 121(7), 694-702. https://doi.org/10.1111/eth.12384
2014
- Jongepier, E., Kleeberg, I., Job, S., & Foitzik, S. (2014). Collective defence portfolios of ant hosts shift with social parasite pressure. Proceedings of the Royal Society B-Biological Sciences, 281(1791), [20140225]. https://doi.org/10.1098/rspb.2014.0225
- Kleeberg, I., Pamminger, T., Jongepier, E., Papenhagen, M., & Foitzik, S. (2014). Forewarned is forearmed: aggression and information use determine fitness costs of slave raids. Behavioral Ecology, 25(5), 1058-1063. https://doi.org/10.1093/beheco/aru084
- Seifert, B., Kleeberg, I., Feldmeyer, B., Pamminger, T., Jongepier, E., & Foitzik, S. (2014). Temnothorax pilagens sp. n. - a new slave-making species of the tribe Formicoxenini from North America (Hymenoptera, Formicidae). ZooKeys, 368, 65-77. https://doi.org/10.3897/zookeys.368.6423
2012
- Kureck, I. M., Jongepier, E., Nicolai, B., & Foitzik, S. (2012). No inbreeding depression but increased sexual investment in highly inbred ant colonies. Molecular Ecology, 21(22), 5613-5623. https://doi.org/10.1111/mec.12060
2021
- Jongepier, E., Séguret, A., Feldmeyer, B., Foitzik, S., Heinze, J., Bornberg-Bauer, E., Labutin, A. & Gstöttl, C. (29-10-2021). Convergent loss of chemoreceptors across independent origins of slave-making in ants. Zenodo. https://doi.org/10.5281/zenodo.5617849
This list of publications is extracted from the UvA-Current Research Information System. Questions? Ask the library or the Pure staff of your faculty / institute. Log in to Pure to edit your publications. Log in to Personal Page Publication Selection tool to manage the visibility of your publications on this list. -
Ancillary activities
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Hogeschool Leiden Bioinformatica
Opleidings Advies Commissie
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Hogeschool Leiden Bioinformatica
Ahn, A-C., Jongepier, E., Schuurmans, J. M., Rijpstra, W. I. C., Sinninghe Damsté, J. S., Galinski, E. A., Roman, P., Sorokin, D., & Muyzer, G. (2021). Molecular and Physiological Adaptations to Low Temperature in Thioalkalivibrio Strains Isolated from Soda Lakes with Different Temperature Regimes. mSystems, 6(2), [e01202-20].