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Genome Information for Tokudaia osimensis
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The Amami spiny rat, Tokudaia osimensis, has very unique sex chromosomes and sex-determining mechanism. The sex chromosome constitution of this species is XO/XO, which is caused by the absence of the Y chromosome. This species also lacks the SRY gene which is sex-determining gene in eutherian mammals. Therefore, it is hypothesized that T. osimensis acquires a new sex-determining gene superseded SRY. Furthermore, T. osimensis is an endangered species and has been protected by the Japanese government as such since 1972. Therefore, we performed whole genome sequencing and de novo assembly analysis for two aims: use the information for study of sex-determining mechanism and evolution of the Y chromosome, reserve the information as an important resources.
| Accession | PRJDB16413 |
| Type | Umbrella project |
| Organism | Tokudaia osimensis[Taxonomy ID: 73109] Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Tokudaia; Tokudaia osimensis |
| Submission | Registration date: 28-Aug-2023
Hokkaido University, Graduate School of Life Science |
Project Data:
| Resource Name | Number
of Links |
|---|
| Sequence data |
| Nucleotide (total) | 17 |
| WGS master | 3 |
| Genomic DNA | 14 |
| SRA Experiments | 32 |
| Protein Sequences | 18 |
| Publications |
| PubMed | 1 |
| PMC | 1 |
| Other datasets |
| BioSample | 10 |
| Assembly | 1 |
This project encompasses the following 3 sub-projects:
| Project Type | Number of Projects |
Genome sequencingHighest level of assembly : Scaffolds No data links Total |
1
2
3
|
BioProject
accession | Assembly
level | Organism | Title |
|---|
| PRJDB5072 | Scaffolds | Tokudaia osimensis | Whole genome sequences of the Amami spiny rat, Tokudaia osimensis (Hokkaido University, Graduate...) | | PRJDB16414 | No data links | Tokudaia osimensis | Alternate Pseudohaplotype genome sequences of the Amami spiny rat, Tokudaia osimensis (Hokkaido University, Graduate...) | | PRJDB16491 | No data links | Tokudaia osimensis | Principal pseudohaplotype genome sequences of the Amami spiny rat, Tokudaia osimensis (Hokkaido University, Graduate...) |
|