Draft genomic data of the Reindeer (Rangifer tarandus).
Dataset type: Genomic
Data released on October 20, 2017
Reindeer (Rangifer tarandus) is the only fully domesticated species in the Cervidae family, and is the only cervid with a circumpolar distribution. Unlike all other cervids, female reindeer regularly grow cranial appendages (antlers, the defining characteristics of cervids), as well as males. Moreover, reindeer milk contains more protein and less lactose than bovid milk. A high quality reference genome of this species will assist efforts to elucidate these and other important features in the reindeer.
We obtained 723.2 Gb (Gigabase) of raw reads by an Illumina Hiseq 4000 platform, and a 2.64 Gb final assembly, representing 95.7% of the estimated genome (2.76 Gb according to k-mer analysis), including 92.6% of expected genes according to BUSCO analysis. The contig N50 and scaffold N50 sizes were 89.7 kilo base (kb) and 0.94 mega base (Mb), respectively. We annotated 21,555 protein-coding genes and 1.07 Gb of repetitive sequences by de novo and homology-based prediction. Homology-based searches detected 159 rRNA, 547 miRNA, 1,339 snRNA and 863 tRNA sequences in the genome of R. tarandus.
Our results provide the first high-quality reference genome for the reindeer, and a valuable resource for studying evolution, domestication and other unusual characteristics of the reindeer.
Read the peer-reviewed publication(s):
Li, Z., Lin, Z., Ba, H., Chen, L., Yang, Y., Wang, K., … Li, G. (2017). Draft genome of the reindeer (Rangifer tarandus). GigaScience, 6(12). doi:10.1093/gigascience/gix102
|Sample ID||Taxonomic ID||Common Name||Genbank Name||Scientific Name||Sample Attributes|
|reindeer_genomics_DNA||9870||caribou||reindeer||Rangifer tarandus|| Description:Fresh blood was collected from a two-y...|
Geographic location (latitude and longitude):50.77...
Geographic location (country and/or sea,region):Gr...
... Description:Fresh blood was collected from a two-year-old, female reindeer of a domesticated herd maintained by Ewenki (also know as Evenks) hunter-herders.
Geographic location (latitude and longitude):50.77, 121.47
Geographic location (country and/or sea,region):Greater Khingan Mountains, Inner Mongolia Autonomous Region, China.
Environment (biome):terrestrial biome [ENVO:00000446]
Environment (feature):mountain [ENVO:00000081]
Sample source:fresh blood
Collected by:Zhipeng Li
Comment:herd maintained by Ewenki hunter-herders
Sample storage temperature:-80°C
Storage conditions (fresh/frozen/other):Liquid nitrogen