Rangifer tarandus has experienced recent drastic population size reductions throughout its circumpolar distribution and preserving the species implies genetic diversity conservation. To facilitate genomic studies of the species populations, we improved the genome assembly by combining long read and linked read and obtained a new highly accurate and contiguous genome assembly made of 13,994 scaffolds (L90 = 131 scaffolds). Using de novo transcriptome assembly of RNA-sequencing reads and similarity with annotated human gene sequences, 17,394 robust gene models were identified. As copy number variations (CNVs) likely play a role in adaptation, we additionally investigated these variations among 20 genomes representing three caribou ecotypes (migratory, boreal and mountain). A total of 1,698 large CNVs (length > 1 kb) showing a genome distribution including hotspots were identified. 43 large CNVs were particularly distinctive of the migratory and sedentary ecotypes and included genes annotated for functions likely related to the expected adaptations. This work includes the first publicly available annotation of the caribou genome and the first assembly allowing genome architecture analyses, including the likely adaptive CNVs reported here.
Related Resources
Restoring Drained Peatlands: A Necessary Step to Achieve Global Climate Goals
Resource Date:
November
2021
Temperature, Moisture and Freeze–thaw Controls on CO2 Production in Soil Incubations From Northern Peatlands
Resource Date:
December
2021
Digging Into Canadian Soils - An Introduction to Soil Science
Resource Date:
2021
Organization
Restoration of Boreal Peatland Impacted by an In-situ Oil Sands Well-pad 1: Vegetation Response
Resource Date:
July
2021
Insect-mediated Apparent Competition Between Mammals in a Boreal Food Web
Resource Date:
July
2021
Was this helpful?
|