Scientific Publication

    Recovering High-Quality Host Genomes from Gut Metagenomic Data through Genotype Imputation

    A new research paper from HoloFood provides a 2  step approach to generate high quality host genomes from shotgun metagenomic datasets. This method allows researchers to utilise host DNA from metagenomic runs and impute genetic structure from host populations. 

    You can read the full article in Advance Genetics here       

    Public Article

    "A holistic view of the organism and its microorganisms" - public article in Danish

    Danish magazine Aktuel Naturvidenskab featured the HoloFood project in a recent article highlighting hologenomics. The article focuses on sustainable aquaculture as an example to communicate the science behind hologenomics to their audience.

    You can read the full article in Danish here:               

    Public Article

    European Aquaculture Society March edition magazine

    HoloFood was briefly mentioned as being at the forefront of salmon aquaculture hologenomics aiming sustainable feed solutions.

    Building the industry-academia relationship is key to the future success of building a scientifically-informed future for aquaculture.

    The article can be found here:              

    Scientific Publication

    Microbiome “Inception”: an Intestinal Cestode Shapes a Hierarchy of Microbial Communities Nested within the Host

    A new research article on endoparasite - host relationship in salmon by HoloFood researchers is published in mBio with some surprising insights. The results suggest that parasit cestodes may be themselves holobionts within the microbiomes of their fish host - emphasizing the importance of also considering microbes associated with parasites when studying instestinal parasitic infections. 

    You can read the full paper here:

    Scientific Publication

    Review: Disentangling host–microbiota complexity through hologenomics

    A new review article in the journal Nature Review Genetics by HoloFood coordinators Tom Gilbert, Antton Alberdi and Morten Limborg is published. The review covers the field of hologenomics, the advantages and current limitations of such studies and how best to design a hologenomic research project. 

    You can read the full paper here:

    Scientific Publication

    Review: Development and Functional Properties of Intestinal Mucus Layer in Poultry

    A new review article in the journal Frontiers in Immunology by PhD student Yada Duangnumsawang, Prof. Jürgen Zentek and Dr. Farshad Goodarzi Boroojeni from Freie Universität Berlin, explores the importance of the intestinal mucus in the poultry gut. The mucosal barrier of the gut is the first line of defence against the invasion of pathogens, supporting the colonization of beneficial bacteria and maintaining the proper environment for digestion. In spite of its great importance, little is known about the structure and functional properties of the intestinal mucus layer within the chicken gut. This review expands on our current understanding of this important intestinal mucus, the impact of age on the development of the cells that are a part of it as well as the dietary factors that impact them. 

    You can read the full paper here:

    Scientific Publication
    salmon health hologenomics

    Research Article: Salmon gut microbiota correlates with disease infection status: potential for monitoring health in farmed animals

    MSc student Davide Bozzi and researchers and industry partners from the HoloFood project have published a new research article on monitoring salmon health in response to disease and treatment to disease within aquaculture. The study, entitled 'Salmon gut microbiota correlates with disease infection status: potential for monitoring health in farmed animals' was published in Animal Microbiome Journal, and was a collaborative effort between academic and industry partners of the consortium. 

    Read the behind the behind-the-paper blog by clicking here 

    Or access the full paper:        

    Scientific Publication

    Perspective Article: Holo-Omics: Integrated Host-Microbiota Multi-omics for Basic and Applied Biological Research 

    PhD student Lasse Nyholm Jessen and his colleagues from the HoloFood EU project and Center for Evolutionary Hologenomics at University of Copenhagen have published a perspective paper on the new possibilities of holo-omics in the open access journal iScience.

    Read the relevant news article :

    Read more in the original open access paper:

    Article featuring HoloFood's activity in Horizon Magazine