bioRxiv preprint doi: https://doi.org/10.1101/864439; this version posted December 5, 2019. The copyright holder for this preprint (which was not certified by peer review) is the author/funder, who has granted bioRxiv a license to display the preprint in perpetuity. It is made available under aCC-BY-NC-ND 4.0 International license. 1 Metagenomic shotgun analyses reveal complex patterns of 2 intra- and interspecific variation in the intestinal 3 microbiomes of codfishes 4 5 6 Even Sannes Riiser1*, Thomas H.A. Haverkamp1,2, Srinidhi Varadharajan1, 7 Ørnulf Borgan3, Kjetill S. Jakobsen1, Sissel Jentoft1 and Bastiaan Star1* 8 9 1Centre for Ecological and Evolutionary Synthesis, Department of Biosciences, 10 University of Oslo, PO Box 1066, Blindern, N-0316 Oslo, Norway. 11 12 2Present Address: Department of Epidemiology, Norwegian Veterinary Institute, 13 Oslo, Norway 14 15 3Department of Mathematics, University of Oslo, PO Box 1053, Blindern, N- 16 0316 Oslo, Norway. 17 18 19 * Correspondence 20 Even Sannes Riiser*:
[email protected] 21 Bastiaan Star*:
[email protected] 22 23 24 Abstract 25 The relative importance of host-specific selection or environmental factors in 26 determining the composition of the intestinal microbiome in wild vertebrates 27 remains poorly understood. Here, we use metagenomic shotgun sequencing of 28 individual specimens to compare the intra- and interspecific variation of 29 intestinal microbiome communities in two ecotypes (NEAC and NCC) of 30 Atlantic cod (Gadus morhua) –that have distinct behavior and habitats– and 31 three Gadidae species that occupy a range of ecological niches. Interestingly, we 32 find significantly diverged microbiomes amongst the two Atlantic cod ecotypes.