Animal-microbiota interactions

@ the AlberdiLab
Center for Evolutionary Hologenomics
GLOBE Institute, University of Copenhagen

Latest publications

  1. Pietroni C, Gaun N, Leonard A, Lauritsen J, Martin-Bideguren G, Odriozola I, Aizpurua O, Alberdi A, Eisenhofer R. 2024. Hologenomic data generation and analysis in wild vertebrates. Methods in Ecology and Evolution. doi: 10.1111/2041-210X.14456.
  2. Leonard A, Earth Hologenome Initiative Consortium, Alberdi A. 2024. A global initiative for ecological and evolutionary hologenomics. Trends in Ecology and Evolution. doi: 10.1016/j.tree.2024.03.005.
  3. Eisenhofer R, Nesme J, Santos-Bay L, Koziol A, Sørensen SJ, Alberdi A, Aizpurua O. 2024. A comparison of short-read, HiFi long-read, and hybrid strategies for genome-resolved metagenomics. Microbiology Spectrum. doi: 10.1128/spectrum.03590-23.
  4. Hernández M, Ancona S, Hereira‐Pacheco S, Díaz de la Vega‐Pérez AH, Alberdi A, Navarro-Noya YE. 2024. Seasonal dietary changes relate to gut microbiota composition depending on the host species but do not correlate with gut microbiota diversity in arthropod‐eating lizards. Molecular Ecology. doi: 10.1111/mec.17426.
  5. Augusto AM, Raposeira H, Horta P, Mata VA, Aizpurua O, Alberdi A, Jones G, Razgour O, Santos SAP, Russo D, Rebelo H. 2024. Bat diversity boosts ecosystem services: Evidence from pine processionary moth predation. Science of the Total Environment. doi: 10.1016/j.scitotenv.2023.169387.
  6. Aizpuruna O, Dunn RR, Hansen LH, Gilbert MTP, Alberdi A. 2023. Field and laboratory guidelines for reliable bioinformatic and statistical analysis of bacterial shotgun metagenomic data. Critical Reviews in Biotechnology. doi: 10.1080/07388551.2023.2254933.

Relevant publications

Field and laboratory guidelines for reliable bioinformatic and statistical analysis of bacterial shotgun metagenomic data

Aizpurua O, Dunn RR, Hansen LH, Gilbert MTP, Alberdi A. 2023. Critical Reviews in Biotechnology. 

10.1080/07388551.2023.2254933

Unravelling animal–microbiota evolution on a chip

Aizpurua O, Blijleven K, Trivedi U, Gilbert MTP, Alberdi A. 2023. Trends in Microbiology.

10.1016/j.tim.2023.04.010

Mammals show distinct functional gut microbiome dynamics to identical series of environmental stressors

Koziol A, Odriozola I, Leonard A, Eisenhofer R, San Jose C, Aizpurua O, Alberdi A. 2023. MBio.

10.1128/mbio.01606-23

Disentangling host–microbiota complexity through hologenomics

Alberdi A, Andersen SB, Limborg MT, Dunn R, Gilbert MTP. 2021. Nature Reviews Genetics.

10.1038/s41576-021-00421-0

Main projects

Earth Hologenome Initiative

Mapping animal-microbiota interactions worldwide

We are generating paired genomic and metagenomic data of wild organisms from all over the world.


3D'omics


Reconstructing animal-microbiota
interactions in 3D

We are merging animal sciences, microbiology and structural genomics to reconstruct animal-microbiota multi-omic interactions at the micro scale in three dimensions.


HoloFood


Hologenomics for sustainable
food production

Poultry and salmon aquaculture are our two model systems to showcase the power of hologenomics for improving the quality and sustainability of animal food production.

Address

GLOBE Institute
University of Copenhagen
Øster Farimagsgade 5,
Building 7
1353 Copenhagen, Denmark

Contact

Assoc. Prof. Antton Alberdi
Email: antton.alberdi@sund.ku.dk

Links

Earth Hologenome Initiative
3D'omics
GLOBE Institute
University of Copenhagen