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Genetype and phylogenomic position of the frilled shark Chlamydoselachus anguineus inferred from the mitochondrial genome.

ABSTRACT: The genetype of Chlamydoselachus anguineus from Australian waters is described using the whole mitochondrial genome obtained from Illumina NGS technology. Total length of the mitogenome is 17?313?bp, consisting of 2 rRNAs, 13 protein-coding genes, 22 tRNA genes and 2 non-coding regions thus updating the previously available mitogenome for this species. The phylogenomic reconstruction comprising all available species of Superorder Squalomorphi supports the inclusion of C. anguineus in a divergent clade inside Order Hexanchiformes. Phyletic relationships inferred from the whole mitochondrial genomes are in agreement with traditional taxonomy. The low divergence between C. anguineus genomes (>99.9% genetic identity) is consistent with a widespread population in the west Pacific Ocean.

SUBMITTER: Bustamante C

PROVIDER: S-EPMC7799599 | biostudies-literature | 2016 Feb

REPOSITORIES: biostudies-literature

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Genetype and phylogenomic position of the frilled shark Chlamydoselachus anguineus inferred from the mitochondrial genome.

Bustamante Carlos C Bennett Michael B MB Ovenden Jennifer R JR

Mitochondrial DNA. Part B, Resources 20160201 1

The genetype of Chlamydoselachus anguineus from Australian waters is described using the whole mitochondrial genome obtained from Illumina NGS technology. Total length of the mitogenome is 17 313 bp, consisting of 2 rRNAs, 13 protein-coding genes, 22 tRNA genes and 2 non-coding regions thus updating the previously available mitogenome for this species. The phylogenomic reconstruction comprising all available species of Superorder Squalomorphi supports the inclusion of C. anguine ...[more]

PMID: 33473392

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Project description:The Thoroughbred horse breed was developed primarily for racing, and has a significant contribution to the qualitative improvement of many other horse breeds. Despite the importance of Thoroughbred racehorses in historical, cultural, and economical viewpoints, there was no temporal and spatial dynamics of them using the mitogenome sequences. To explore this topic, the complete mitochondrial genome sequences of 14 Thoroughbreds and two Przewalski's horses were determined. These sequences were analyzed together along with 151 previously published horse mitochondrial genomes from a range of breeds across the globe using a Bayesian coalescent approach as well as Bayesian inference and maximum likelihood methods. The racing horses were revealed to have multiple maternal origins and to be closely related to horses from one Asian, two Middle Eastern, and five European breeds. Thoroughbred horse breed was not directly related to the Przewalski's horse which has been regarded as the closest taxon to the all domestic horses and the only true wild horse species left in the world. Our phylogenomic analyses also supported that there was no apparent correlation between geographic origin or breed and the evolution of global horses. The most recent common ancestor of the Thoroughbreds lived approximately 8,100-111,500 years ago, which was significantly younger than the most recent common ancestor of modern horses (0.7286 My). Bayesian skyline plot revealed that the population expansion of modern horses, including Thoroughbreds, occurred approximately 5,500-11,000 years ago, which coincide with the start of domestication. This is the first phylogenomic study on the Thoroughbred racehorse in association with its spatio-temporal dynamics. The database and genetic history information of Thoroughbred mitogenomes obtained from the present study provide useful information for future horse improvement projects, as well as for the study of horse genomics, conservation, and in association with its geographical distribution.

Dataset Information

Genetype and phylogenomic position of the frilled shark Chlamydoselachus anguineus inferred from the mitochondrial genome.

Publications

Genetype and phylogenomic position of the frilled shark <i>Chlamydoselachus anguineus</i> inferred from the mitochondrial genome.

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