Whole-genome sequencing of wild Siberian musk deer (Moschus moschiferus) provides insights into its genetic features
| Autor: | Batkhuu Luvsantseren, Weili Lin, Li Yi, Myagmarsuren Erdenedalai, Zhen Wang, Surong Hasi, Chimedragchaa Chimedtseren, Rina Su, Menggen Dalai |
|---|---|
| Jazyk: | angličtina |
| Rok vydání: | 2020 |
| Předmět: |
lcsh:QH426-470
Demographic history lcsh:Biotechnology Musk secretion Adaptation Biological Zoology Genetic features Genome Evolution Molecular 03 medical and health sciences Contig Mapping 0302 clinical medicine Effective population size Genome Size lcsh:TP248.13-248.65 Genetics De novo assembly Moschus moschiferus IUCN Red List Animals Phylogeny 030304 developmental biology Whole genome sequencing Population Density 0303 health sciences biology Phylogenetic tree Whole Genome Sequencing Sequence Analysis RNA Deer Gene Expression Profiling Molecular Sequence Annotation Wild Siberian musk deer (Moschus moschiferus) genome biology.organism_classification lcsh:Genetics Threatened species Female 030217 neurology & neurosurgery Biotechnology Research Article |
| Zdroj: | BMC Genomics, Vol 21, Iss 1, Pp 1-13 (2020) BMC Genomics |
| ISSN: | 1471-2164 |
| Popis: | Background Siberian musk deer, one of the seven species, is distributed in coniferous forests of Asia. Worldwide, the population size of Siberian musk deer is threatened by severe illegal poaching for commercially valuable musk and meat, habitat losses, and forest fire. At present, this species is categorized as Vulnerable on the IUCN Red List. However, the genetic information of Siberian musk deer is largely unexplored. Results Here, we produced 3.10 Gb draft assembly of wild Siberian musk deer with a contig N50 of 29,145 bp and a scaffold N50 of 7,955,248 bp. We annotated 19,363 protein-coding genes and estimated 44.44% of the genome to be repetitive. Our phylogenetic analysis reveals that wild Siberian musk deer is closer to Bovidae than to Cervidae. Comparative analyses showed that the genetic features of Siberian musk deer adapted in cold and high-altitude environments. We sequenced two additional genomes of Siberian musk deer constructed demographic history indicated that changes in effective population size corresponded with recent glacial epochs. Finally, we identified several candidate genes that may play a role in the musk secretion based on transcriptome analysis. Conclusions Here, we present a high-quality draft genome of wild Siberian musk deer, which will provide a valuable genetic resource for further investigations of this economically important musk deer. |
| Databáze: | OpenAIRE |
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