Western swamp tortoise, Reference genome, PacBio-HiFi, Heart
Dataset size is: 0.00 Bit
This dataset is currently under a short embargo period until April 3, 2026 to enable primary access by research partners.
If you would like access during this period please contact us here or contact the project lead directly (see details in the table below) for collaboration opportunities.
Data and Resources
Please see the initiative
Data Policy
for attribution information.
Additional Info Show Blank Fields
| Field | Value |
|---|---|
| Resource Permissions | organization_member_after_embargo:date_of_transfer_to_archive:365:tsi-consortium-members |
| Access Control Date | 2026-04-03 |
| Access Control Mode | date |
| Sequence Data Type | pacbio-hifi |
| access_rights | Location information restricted |
| ala_specimen_url | https://bie.ala.org.au/species/https://biodiversity.org.au/afd/taxa/8308a376-50a5-483b-ac9f-39d702b817ec |
| analysis_software | SMRT Link Analysis |
| analysis_software_version | 13.3.0.253824 |
| bait_set_name | NA |
| bait_set_reference | NA |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/pacbio-hifi/BPAOPS-1771/20250403_TSI_AGRF_CAGRF25020127_m84073_250327_060234_s3/ |
| bioplatforms_project | Threatened Species Initiative |
| birth_date | 2024-06-04 |
| cell_postion | C01 |
| certainty | not determined |
| class | Reptilia |
| collection_date | 2024-08-08 |
| collection_method | Dissection |
| collector | Perth Zoo |
| common_name | Western swamp tortoise |
| country | Australia |
| data_context | Reference genome |
| data_custodian | Kym Ottewell | DBCA |
| data_type | PacBio-HiFi |
| dataset_id | 102.100.100/419499 |
| date_of_transfer | 2025-04-03 |
| date_of_transfer_to_archive | 2025-04-04 |
| death_date | 2024-08-08 |
| dna_treatment | SHEARING |
| experimental_design | NA |
| facility_project_code | CAGRF25020127 |
| facility_sample_id | 417576_1 |
| family | Chelidae |
| fast5_compression | NA |
| file_type | BAM |
| flowcell_id | m84073_250327_060234_s3 |
| flowcell_type | SMRT Cell 25M |
| folder_name | 20250403_TSI_AGRF_CAGRF25020127_m84073_250327_060234_s3 |
| genus | Pseudemydura |
| insert_size_range | 13000.0 |
| institution_name | Department of Biodiversity, Conservation and Attractions |
| library_comments | NA |
| library_construction_protocol | Preparing whole genome and metagenome libraries using SMRTbell® prep kit 3.0 |
| library_id | 102.100.100/417576 |
| library_index_id | NA |
| library_index_id_dual | NA |
| library_index_seq_dual | NA |
| library_index_sequence | NA |
| library_layout | NA |
| library_location | AGRF |
| library_ng_ul | 300pM |
| library_oligo_sequence | NA |
| library_oligo_sequence_dual | NA |
| library_pcr_cycles | NA |
| library_pcr_reps | NA |
| library_prep_date | 2025-03-02 |
| library_prepared_by | Trent Peters |
| library_selection | size fractionation |
| library_source | GENOMIC |
| library_strategy | WGS |
| library_type | PacBio-HiFi |
| lifestage | juvenile stage |
| location_text | Perth Zoo |
| material_conc_ng_ul | 370.0 |
| material_extracted_by | Elspeth McLennan |
| material_extraction_date | 2025-02-10 |
| material_extraction_method | PacBio Nanobind Tissue |
| material_extraction_type | HMW DNA |
| metadata_revision_date | 2025-08-26 |
| metadata_revision_filename | 20250826_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx |
| method_of_determination | not determined |
| model_base_caller | NA |
| movie_length | 30Hrs |
| n_libraries_pooled | 1.0 |
| order | Testudines |
| phenotypic_sex | not determined |
| phylum | Chordata |
| prior_genetics | None |
| sample_custodian | Kym Ottewell | DBCA |
| sample_id | 102.100.100/415570 |
| sample_quality | good |
| sample_type | Tissue |
| scientific_name | Pseudemydura umbrina |
| scientific_name_authorship | Siebenrock, 1901 |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | Revio SPRQ sequencing plate |
| sequencing_model | PacBio Revio |
| sequencing_platform | PACBIO_SMRT |
| source_population | Sire captive bred, dam wild caugh Elllenbrook Nature Reserve |
| species | umbrina |
| specimen_id | C40075 |
| specimen_id_description | Perth Zoo sample |
| state_or_region | Western Australia |
| taxon_id | 44510 |
| taxonomic_group | Reptile |
| ticket | BPAOPS-1771 |
| tissue_collection | DBCA |
| tissue_collection_type | Zoo living collection |
| tissue_number | C40075_heart1 |
| tissue_preservation | flash frozen |
| tissue_preservation_temperature | -80.0 |
| tissue_type | Heart |
| wild_captive | captive |
| work_order | 14085 |