PHD Stipend in human gut microbiomes (18-22066)

Updated: about 1 month ago

PHD Stipend in human gut microbiomes (18-22066)

At the Faculty of Engineering and Science, Department of Chemistry and Bioscience, a PhD stipend is available within the general study program. The PhD stipend is open for appointment from 1 September 2022 or as soon as possible thereafter. The position is for 3 years. The Department consists of two sections with research and teaching in Biotechnology, Chemistry, Chemical Engineering, Environmental Technology and Biology. Place of employment of the position is Section of Bioscience and Engineering in Aalborg. The Section of Bioscience and Engineering consists of 90 people of which about 30 is associate- and full professors. The section’s conducts internationally competitive research within a range of topics within Biology and Biotechnology and publishes more than 100 peer reviewed publications annually. The section is responsible for the educations in Biology, Biotechnology, Medical Biotechnology and Environmental Science and is mostly located in Aalborg, but also conducts research and teaching at Esbjerg Campus.

Job description

A PhD stipend is available on the topic of bacterial communities and inflammatory markers during pathogenic enteric acute and chronic inflammations.

The importance of inflammation for enteric infection susceptibility is highly recognized, however, there is a lack of understanding on the importance of local (intestinal) and systemic inflammatory responses on the structure and function in the gut microbiome.

Moreover, fundamental research on the microbiome composition and its function, as well as the immune cell composition and function in the mucosal interactions of inflamed and non-inflamed enteric sites is needed to identify the specific microbiome configurations driving the enteric infection susceptibility.

In this PhD project we wish to study how the gut microbiome of the inflamed intestinal tissue differs from the non-inflamed intestinal tissue in human models.

The prospective PhD student should have an interest in microbiology related to human health and advanced molecular technologies to study the microbial communities. The research focus will be on microbial communities and inflammatory markers from non-inflamed (healthy) and inflamed tissue biopsies from patients endoscopically diagnosed with active chronically inflammatory disease in the intestine. The aim is to obtain an in depth understanding of pathogenic bacteria being the cause or a consequence of inflammation, and to study the link to the microbial societies and their function in the same intestinal compartment.

The PhD project is part of the Pig Paradigm project funded by the Novo Nordic Foundation, which comprises national and international partners, among them Aalborg University. The prospective PhD student will therefore collaborate with other PhD students and Postdocs working on this project.


  • A master's degree in Biotechnology, or a closely related field
  • The applicant must be interested in working in an interdisciplinary research environment.
  • Excellent oral and written English language skills are a requirement.
  • Knowledge to advanced DNA sequencing is a requirement.
  • Basic knowledge of statistics is an advantage.


The application must contain:

  • Cover letter of 1-2 pages describing the motivation for applying and an account of the applicant’s background in relation to the announced position
  • Project description, which is required for technical reasons – in this case, where you apply for a specific project, you may upload a copy of the project description above
  • CV
  • Diploma and transcripts of records
  • Other relevant information.

You may obtain further information about the scientific aspects of the project from Professor Jeppe Lund Nielsen, +45 9940 8506, .

The Department of Chemistry and Bioscience provides cutting-edge research and teaching in biotechnology, biology, environmental science, chemistry and chemical engineering. Our research solves important topics for the benefit of society, and through research-based teaching, we educate independent, collaborative and solution-oriented bachelors, graduates and PhDs.

At the department, we have high-profile research groups and individual researchers who deliver world-class applied and basic scientific research with a mission-driven approach, and who contribute to the development of new technologies, methods, and new basic insights within natural science and engineering. The department is divided into two sections: Section for Bioscience and Engineering and Section for Chemical Science and Engineering, as well as one administration. Both sections have activities on both Aalborg and Esbjerg campuses. The day-to-day management is handled by the head of department, the deputy heads of research and education, and the head of the secretariat in collaboration with section leaders.

PhD stipends are allocated to individuals who hold a Master's degree. PhD stipends are normally for a period of 3 years. It is a prerequisite for allocation of the stipend that the candidate will be enrolled as a PhD student at the Doctoral School of Engineering and Science in accordance with the regulations of Ministerial Order No. 1039 of August 27, 2013 on the PhD Programme at the Universities and Certain Higher Artistic Educational Institutions. According to the Ministerial Order, the progress of the PhD student shall be assessed at regular points in time.
Shortlisting will be applied. This means that subsequent to the deadline for applications the head of department supported by the chair of the assessment committee will select candidates for assessment. All applicants will be informed whether they will be assessed or not.
For further information about stipends and salary as well as practical issues concerning the application procedure contact Ms. Vigdis Skomager-Bohnfeldt, The Doctoral School at The Faculty of Engineering and Science, email: phone: +45 9940 7408
For more information of The Doctoral School of Engineering and Science:  

The application is only to be submitted online by using the "Apply online" button below.
AAU wishes to reflect the diversity of society and welcomes applications from all qualified candidates regardless of personal background or belief.


Appointment and salary as a PhD fellow are according to the Ministry of Finance Circular of 28 June 2019 on the Collective Agreement for Academics in Denmark, Appendix 5, regarding PhD fellows, and with the current Circular of 11 December 2019 on the employment structure at Danish universities.

Vacancy number




Apply online
Share on Facebook Share on Twitter Share on LinkedIn

Online application - some good advice

Aalborg University uses an electronic recruitment system for receiving applications. Towards the bottom in the respective job advertisement you will find a link, which you need to use when applying for the position. Before uploading your application it is important that you have all relevant documentation ready in a Word or PDF format, as you need to upload all material at the same time. You cannot leave the application and return to it a couple of hours later without having to start over.

The system does not support ZIP or images files. Filenames can only contain numbers and letters, and each document must take up no more than 20 MB.
If you experience technical problems, we encourage you to try again. If the technical problems, contrary to expectation, cannot be solved, please contact the member of staff listed as the contact person in the job advertisement.

View or Apply

Similar Positions