Maugean skate, Reference Genome, PacBio-HiFi, Blood
Dataset size is: 0.00 Bit
Data and Resources
This data is made available openly under a Creative Commons Attribution license.
Please see the initiative
Data Policy
for attribution information.
Additional Info Show Blank Fields
| Field | Value |
|---|---|
| Geospatial Coverage |
Dataset extentMap tiles & Data by OpenStreetMap, under CC BY SA.
|
| Resource Permissions | organization_member_after_embargo:date_of_transfer_to_archive:365:tsi-consortium-members |
| Access Control Date | 2024-06-15 |
| Access Control Mode | date |
| Sequence Data Type | pacbio-hifi |
| access_rights | On request |
| ala_specimen_url | https://bie.ala.org.au/species/https://biodiversity.org.au/afd/taxa/0d9d194f-ab8d-46da-a835-bb9c9fbda130 |
| analysis_software | SMRT Link Analysis |
| analysis_software_version | 12.0.0.172289 |
| bait_set_name | NA |
| bait_set_reference | NA |
| barcode_id | FOAE223-06, FOAE224-06, GBMNA14226-19 , GBMNA18546-19, GBMNA18588-19 |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/pacbio-hifi/BPAOPS-1418/20230615_TSI_AGRF_CAGRF230314042_m84073_230605_044025_s1/ |
| bioplatforms_project | Threatened Species Initiative |
| cell_postion | A01 |
| certainty | >99% |
| class | Chondrichthyes |
| collection_method | Gill net |
| collector | D Moreno |
| collector_sample_id | MS19 |
| common_name | Maugean skate |
| country | Australia |
| data_context | Reference Genome |
| data_custodian | Jawahar Patil |
| data_type | PacBio-HiFi |
| dataset_id | 102.100.100/358814 |
| date_of_transfer | 2023-06-16 |
| date_of_transfer_to_archive | 2023-06-16 |
| decimal_latitude_public | -42.15 |
| decimal_longitude_public | 145.31 |
| description | Zearaja maugeana |
| dna_treatment | SHEARING |
| experimental_design | NA |
| facility_project_code | QAGRF230314042 |
| facility_sample_id | 460864.0 |
| family | Rajidae |
| fast5_compression | NA |
| file_type | BAM |
| flowcell_id | m84073_230605_044025_s1 |
| flowcell_type | SMRT Cell 25M |
| folder_name | 20230615_TSI_AGRF_CAGRF230314042_m84073_230605_044025_s1 |
| genotypic_sex | not determined |
| genus | Zearaja |
| habitat | Estuarine |
| health_state | Good |
| insert_size_range | 13000.0 |
| institution_name | IMAS, UTAS |
| latitude | -42.15 |
| library_comments | NA |
| library_construction_protocol | Preparing HiFi SMRTbell Libraries using SMRTbell Express Template Prep Kit 2.0 |
| library_id | 102.100.100/460864 |
| 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 | 225pM |
| library_oligo_sequence | NA |
| library_oligo_sequence_dual | NA |
| library_pcr_cycles | NA |
| library_pcr_reps | NA |
| library_prep_date | 2023-05-26 |
| library_prepared_by | Jack Royle |
| library_selection | size fractionation |
| library_source | GENOMIC |
| library_strategy | WGS |
| library_type | PacBio-HiFi |
| lifestage | adult |
| location_text | Long Bay |
| longitude | 145.31 |
| material_conc_ng_ul | 250.0 |
| material_extracted_by | JPatil/TKwan |
| material_extraction_date | 2023-03-23 |
| material_extraction_method | Phenol chloroform |
| material_extraction_type | DNA |
| metadata_revision_date | 2024-07-11 |
| metadata_revision_filename | 20240711_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx |
| method_of_determination | Secondary sexual characters |
| model_base_caller | NA |
| movie_length | 24Hrs |
| n_libraries_pooled | 1.0 |
| order | Rajiformes |
| phenotypic_sex | Female |
| phylum | Chordata |
| prior_genetics | Weltz, K., Lyle, J.M., Semmens, J.M. et al. Population genetics of the endangered Maugean skate (Zearaja maugeana) in Macquarie Harbour, Tasmania. Conserv Genet 19, 1505–1512 (2018). https://doi.org/10.1007/s10592-018-1117-0 |
| sample_custodian | J Semmens, D Moreno, J Patil |
| sample_id | 102.100.100/458827 |
| sample_quality | Good |
| sample_type | Tissue sample |
| scientific_name | Zearaja maugeana |
| scientific_name_authorship | Last & Gledhill, 2007 |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | Revio sequencing plate |
| sequencing_model | PacBio Revio |
| sequencing_platform | PACBIO_SMRT |
| source_population | Macquarie Harbour |
| species | maugeana |
| specimen_id | ZM F MS19 |
| specimen_id_description | IMAS, UTAS internal identifier |
| state_or_region | Tasmania |
| subspecies | NA |
| taxon_id | 496415.0 |
| taxonomic_group | Fish |
| ticket | BPAOPS-1418 |
| tissue_collection | MS19 |
| tissue_collection_type | IMAS Collection |
| tissue_number | ZM F MS19_Blood |
| tissue_preservation | Frozen |
| tissue_preservation_temperature | -80.0 |
| tissue_type | Blood |
| type_status | wild |
| wild_captive | wild |
| work_order | 14049 |