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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
  • 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 a board member of the Amsterdam Science Park Study Group, 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.

  • 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.


    Education

    2011 - 2015           

    PhD in Evolutionary Biology - Johannes Gutenberg University Mainz.
    Awarded Summa Cum Laude

    2007 - 2011

    Master of Science in Ecology and Evolution - Rijksuniversiteit Groningen.                                   
    Top programme Evolutionary Ecology
  • Publications

    2021

    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., ... 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., ... 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., ... 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
    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
    • Hogeschool Leiden Bioinformatica
      Opleidings Advies Commissie