Theses

Here is a list of the bachelor, masters and PhD theses we were involved in, be it as collaborators, supervisors, or subject experts:

2025

  1. Balcerek, R. (2025). Interpreting changes in microbial abundance in rumen following nutrishment variations in cattle. Metagenomics study on the microbiome of south african cattle and its season dependency [Bachelor thesis]. SLU and Haute École En Hainaut, Mons, Belgium.
  2. Cohen, R. (2025). Computational studies of DNA viral genome tracing [Master thesis]. SLU and Haute École En Hainaut, Mons, Belgium.
  3. Diyagu Hannadi Jayaweera Patabadige, K. C. (2025). In silico identification and prioritisation of antifilarial drug targets in setaria digitata [Master thesis]. SLU. https://stud.epsilon.slu.se/21332/
  4. Ericson, M. (2025). Comparative genomics and population genomics of common bunt - indications of one common bunt species, geographical differentiation and multiple infection [Master thesis]. SLU.
  5. King, K. (2025). Ectomycorrhizal fungi in boreal forests : Their role in mineral weathering and nitrogen mobilisation [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2025:64. https://doi.org/10.54612/a.5knsgfb07c
  6. Landi, M. (2025). Identification of epigenetics variations influencing viral resistance in cassava farmers’ field [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2025: 61. https://doi.org/10.54612/a.1g43ig22a9
  7. Lup, K. (2025). Genome assembly and bioinformatics analysis of structural variants in african cows of differents breeds [Bachelor thesis]. SLU and Haute École En Hainaut, Mons, Belgium.
  8. Marcon, A. (2025). Regulation of flowering time and phenology in populus trees [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2025:11. https://doi.org//10.54612/a.3e1a1pjirr
  9. Niu, J. (2025). Ecological and evolutionary consequences of ecosystem warming in fish [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2025: 15. https://doi.org/10.54612/a.5bofv951fm
  10. Puthanveed, V. (2025). Virus yellows of sugar beet–exploring pathogen diversity and host resistance [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2025: 2. https://doi.org/10.54612/a.aru8g37tkj
  11. Sigurðardóttir, H. (2025). Exploring the genetic regulation of ability and quality of gaits in icelandic horses [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2025:1. https://doi.org/10.54612/a.74nb3gs77n
  12. Van Damme, R. (2025). Seasonal variability of the rumen microbiome in indigenous african cattle a bioinformatics approach from pasture to pathways [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2025:60. https://doi.org/10.54612/a.77nq392jvl
  13. XU, K. (2025). Transcriptomic analysis and gene functional identification of wax ester hydrolysis during jojoba seed germination [Master thesis]. SLU.

2024

  1. Canovi, C. (2024). TACKLING a GENOMIC ABYSS: Approaches to link long non-coding RNAs to potential biological function in norway spruce and aspen [Doctoral thesis]. Umeå Universitet. https://www.diva-portal.org/smash/get/diva2:1900774/FULLTEXT01.pdf
  2. Cheng, G. (2024). Exploration of biogas systems to unveil the acetogen community : Who are they and can we find them? [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2024:60. https://doi.org/10.54612/a.3d1u684bhk
  3. Irani Shemirani, M. (2024). Biomarker profiling in sepsis diagnostics [Doctoral thesis]. University of Gothenburg. Sahlgrenska Academy. https://hdl.handle.net/2077/75202
  4. Kong, Z. H. (2024). Microplastics in freshwater ecosystems : Effects and drivers [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2024:63. https://doi.org/10.54612/a.lm7pgi91kf
  5. Liu, Y. (2024). Modulation of the glycoalkaloid biosynthesis pathway in potato (solanum tuberosum l.) and development of CRISPR/Cas9 methodology for tomato (solanum lycopersicum l.) [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2024:20. https://doi.org/10.54612/a.6u449gh4gk
  6. Nordström, I. (2024). Technologies for early detection and monitoring of new and emerging pathogens [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2024: 59. https://doi.org/10.54612/a.3v8m9f4aev
  7. Perman, E. (2024). Challenges associated with high-solid anaerobic digestion : Down-scaling, plug-flow behaviour and ammonia inhibition [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2024:41. https://doi.org/10.54612/a.5tfn12l7h5
  8. Tärnauceänu, S. (2024). Automatise the process for metagenomics analysis of reads FAIR compliant. Metagenomics analysis of NGS reads from cow rumen [Bachelor thesis]. SLU and Haute École En Hainaut, Mons, Belgium.
  9. Vanbelle, A. (2024). Enhancing a metagenomics workflow using nextflow with real test case validation [Master thesis]. SLU and Haute École En Hainaut, Mons, Belgium.

2023

  1. Baran, P. (2023). Investigating plant resistance and infection patterns in a wild plant - case study of plantago lancelota [Doctoral thesis]. Helsingfors Universitet. http://hdl.handle.net/10138/357227
  2. Bawin, N. (2023). Epigenetics studies on virus affected cassava [Bachelor thesis]. SLU and Haute École En Hainaut, Mons, Belgium.
  3. Cojkic, A. (2023). Identification of bull semen microbiota and possible alternatives for antibiotics in semen extenders [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2023: 51. https://doi.org/10.54612/a.4al7k99m30
  4. Colledge, P. (2023). Gene regulation in fatty acid pathways in cyanobacteria exposed to far-red light [Masters thesis]. Swansea University. https://cronfa.swan.ac.uk/Record/cronfa63577
  5. Georgiev, D. T. (2023). Towards mapping the genetic cause of polydactyly in a miniature shetland pony family [Master thesis]. SLU. https://stud.epsilon.slu.se/19630/
  6. Martin, M. T. M. (2023). Developing a reproducible bioinformatics workflow for canine inherited retinal disease [Master thesis]. Uppsala Universitet. https://uu.diva-portal.org/smash/record.jsf?pid=diva2%3A1777515&dswid=-7397
  7. Simon, T. (2023). Exploring the genetic cause of myotonic dystrophy in horses [Masters thesis]. SLU. https://stud.epsilon.slu.se/19344/1/Simon_T_230814.pdf
  8. Skytte af Sätra, J. (2023). Apple genomics for the swedish breeding programme [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2023:18. https://doi.org/10.54612/a.4usn6qgb7l
  9. Wilfart, L. (2023). Enhancing the capacity of biogas production by understanding the microbiota communities involved in the process [Bachelor thesis]. SLU and Haute École En Hainaut, Mons, Belgium.

2022

  1. Alameddine, A. (2022). Gene expression and mechanical properties regulating two phenotypes of horse’s skin appendages: Hoof strength and hair structure [Master thesis]. SLU. https://stud.epsilon.slu.se/18669/
  2. Joshi, P. (2022). Resistance to virus yellows in sugar beet [Masters thesis]. Universitat Politècnica de València. https://riunet.upv.es/server/api/core/bitstreams/abe2f98e-bb79-45c2-a7b2-6eeeab0cc76e/content
  3. Öhlund, P. (2022). Insect-specific viruses as control measures for west nile virus infection of animals and humans [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2022:18. https://res.slu.se/id/publ/116668
  4. Simon, T. (2022). Bioinformatics analysis of sequencing data to understand cassava adaptation to virus infection. [Bachelor thesis]. SLU and Haute École En Hainaut, Mons, Belgium.

2021

  1. André, D. (2021). Molecular regulation of the annual growth cycle in populus trees [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2021:39. https://res.slu.se/id/publ/112568
  2. Bailet, B. (2021). New methods for improving water management-exploring the role of diatoms in ecosystems [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2021: 55. https://res.slu.se/id/publ/113051
  3. Donev, E. (2021). Modification of forest trees by genetic engineering [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2021: 67. https://res.slu.se/id/publ/113978
  4. Mahmud, A. K. M. F. (2021). Molecular mechanisms of yersinia pseudotuberculosis for adaptation and establishment of infection in host tissue [Doctoral thesis]. Umeå Plant Science Centre, Umeå Uiversity. https://www.diva-portal.org/smash/get/diva2:1540241/FULLTEXT01.pdf

2020

  1. Colette, B. (2020). Bachelor thesis in biotechnique, bioinformatics [Bachelor thesis]. SLU and Haute École En Hainaut, Mons, Belgium.
  2. Gourlé, H. (2020). A dive into the coral microbiome [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2020: 29. https://res.slu.se/id/publ/105415
  3. Kindt, L. (2020). Bachelor thesis in biotechnique, bioinformatics [Bachelor thesis]. SLU and Haute École En Hainaut, Mons, Belgium.
  4. Mannapperuma, C. (2020). Human-computer interaction principles for developing web-based genomics resources [Doctoral thesis]. Umeå Plant Science Centre, Umeå Uiversity. https://www.diva-portal.org/smash/get/diva2:1426665/FULLTEXT03.pdf
  5. Schiffthaler, B. (2020). Embracing the data flood: Integrating diverse data to improve phenotype association discovery in forest trees [Doctoral thesis]. Umeå University.
  6. Van Damme, R. (2020). Novel workflow for metagenomics and transcriptomics analysis of a.d. systems [Bachelor thesis]. SLU and Haute École En Hainaut, Mons, Belgium. http://urn.kb.se/resolve?urn=urn:nbn:se:slu:epsilon-s-15586

2019

  1. Al-Kass, E. (2019). Characterization, quantification and removal of potential pathogens from stallion semen [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2019:17. https://pub.epsilon.slu.se/16021/7/al_kass_z_190321.pdf
  2. Druart, A. (2019). Bachelor thesis in biotechnique, bioinformatics [Bachelor thesis]. SLU and Haute École En Hainaut, Mons, Belgium.
  3. Jhamat, N. (2019). Microplastics in freshwater ecosystems : Effects and drivers [Doctoral thesis]. Acta Universitatis Agriculturae Sueciae, 2019:15. https://res.slu.se/id/publ/98432

2018

  1. Haas, J. C. (2018). Abiotic stress and plant-microbe interactions in norway spruce [Doctoral thesis]. Umeå University. https://www.diva-portal.org/smash/record.jsf?pid=diva2%3A1259961&dswid=9415
  2. Langroudi, P. P. (2018). Insights into the roles of the essential Pfh1 DNA helicase in the nuclear and mitochondrial genomes [Doctoral thesis]. Umeå University. https://www.diva-portal.org/smash/get/diva2:1205867/FULLTEXT01.pdf