The Department of Animal and Aquacultural Sciences, Faculty of Biosciences at the Norwegian University of Life Sciences (NMBU) has a vacant 3-year Ph.D.–position in evolutionary genomics. The position is financed with strategic funding from NMBU and will be linked to the RCN-funded project TRANSPOSE and FHF-funded project SynchroSmolt that seek to understand the genome evolution and phenotype-affecting variants following a recent whole-genome duplication of Atlantic salmon.
Genomic structural variants including deletions, duplications, inversions, and translocations of genetic sequences, are rich resources for genetic diversity. In particular, Atlantic salmon genomes show extreme levels of genomic structural variants, likely due to their unique history of recent whole-genome duplication. Structural variants in Atlantic salmon genomes are one of the most promising frontiers in both evolutionary genomics and aquacultural genomics. However, due to their complex nature, which and how structural variants have driven adaptive evolution with functional advantage are yet to be clarified. Long-read sequencing is a cutting-edge technique to identify previously undiscovered structural variants. In our ongoing project, the genomic map of Atlantic salmon with long-read sequences is getting ready for deep investigation.
The goal of this project is to reveal adaptive structural variants have driven and their functional advantages by integrating omics data sets. The Ph.D. project will focus on the estimation of the effects of structural variants on various phenotypes bioinformatically. The other focus of this Ph.D. project is to reveal the adaptive evolution of structural variants of farmed salmon under domestication compared to their wild counterparts. The candidate will work in close collaboration with other Ph.D. students, postdoctoral researchers, and senior researchers.
The main tasks are bioinformatics analyses of Nanopore long-read genome data and other various omics data. Specifically:
Estimate the effect of structural variants on various phenotypes using data sets from genome-wide association studies.
Estimate the effect of structural variants on gene expression.
Compare population-scale genomes of wild and farmed Atlantic salmon and identify variants under artificial selection.
Publish solid peer-review papers
The successful candidate is expected to enter a plan for the progress of the work towards a Ph.D. degree during the first months of the appointment, with a view to completing a doctorate within the Ph.D. scholarship period. Presentation of findings at international conferences or/and attending international workshops/visiting relevant researchers are highly encouraged and financially supported.
The successful applicant must meet the conditions defined for admission to a PhD programme at NMBU. For more detailed information on the admission criteria please see the PhD Regulations and the relevant PhD programme description.
The applicant must document expertise and interest in the research subject.
Required Academic qualifications
Master’s degree in genomics, bioinformatics, evolutionary genetics, or a similar field.
Experience with large genome data analysis
Experience with command-line-based operation of the High-Performance Computing (HPC) system
Experience/familiarity with R, Python, and other programming languages
The following experiences and skills will be emphasized:
Statistical/population genomics knowledge
Familiarity with RNA-sequencing and eQTL analysis
You need to:
Have good collaborative skills and high motivation
Work with initiative and creative views
Have an analytical and academic approach to research questions
Be proficient in English, both written and spoken
Fish genomics expertise and Norwegian language skill are NOT necessarily required at the time of application.
Additional Salary Information: The position is placed in government pay scale position code 1017 PhD. Fellow. PhD. Fellows are normally placed in pay grade 54 (NOK 482.200,-) on the Norwegian Government salary scale upon employment and follow ordinary meriting regulations.
Internal Number: 21/02171
About Centre of Integrative Genetics, Norwegian University of Life Science
The Norwegian University of Life Sciences (NMBU) has a particular responsibility for research and education that secures the basis for the life of future generations. Sustainability is rooted in everything we do and we deliver knowledge for life. NMBU has 1,800 employees of which about 250 phd scholarships and 6,000 students. The university is divided into seven faculties and has campuses in Ås and Oslo. We will be co-located in Ås from 2021.
NMBU believes that a good working environment is characterised by diversity.
We encourage qualified candidates to apply regardless of gender, functional ability, cultural background or whether you have been outside the labour market for a period. If necessary, workplace adaptations will be made for persons with disabilities.