Maugean skate, resequencing, Illumina FASTQ, Muscle
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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 | 2025-04-26 |
| Access Control Mode | date |
| Sequence Data Type | illumina-shortread |
| access_rights | Location information restricted |
| ala_specimen_url | NA |
| analysis_software | NovaSeq X Control Software; Real Time Analysis; Dragen BCL Convert |
| analysis_software_version | v1.2.0.28691; v4.6.7; v07.021.645.4.0.3 |
| ancillary_notes | NA |
| associated_media | NA |
| barcode_id | NA |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/illumina-fastq/BPAOPS-1584/20240426_TSI_AGRF_22KM53LT3/ |
| bioplatforms_project | Threatened Species Initiative |
| ccg_jira_ticket | BPAOPS-1584 |
| certainty | NA |
| class | Chondrichthyes |
| collection_method | unknown |
| collector | CSIRO |
| collector_sample_id | unknown |
| common_name | Maugean skate |
| country | Australia |
| data_context | resequencing |
| data_custodian | Jayson Semmens |
| data_type | Illumina FASTQ |
| dataset_id | 102.100.100/358874 |
| date_of_transfer | 2024-04-26 |
| date_of_transfer_to_archive | 2024-05-10 |
| description | Zearaja maugeana (WGS) |
| facility_project_code | CAGRF24030138 |
| facility_sample_id | 473342_TSI_AGRF |
| family | Rajidae |
| file_type | fastq.gz |
| flowcell_id | 22KM53LT3 |
| flowcell_type | 10B-300 |
| folder_name | 20240426_TSI_AGRF_22KM53LT3 |
| genotypic_sex | not determined |
| genus | Zearaja |
| habitat | Estuarine |
| health_state | unknown |
| insert_size_range | 130 - 200 bp |
| institution_name | Institute for Marine and Antarctic Studies (IMAS) |
| library_construction_protocol | IDT xGen cfDNA & FFPE Library Prep |
| library_id | 102.100.100/473342 |
| library_index_id_dual | 7-329 & 5-377 |
| library_index_seq_dual | AAAGATCG-GTTGCCTT |
| library_layout | Paired-End |
| library_location | AGRF Melbourne |
| library_ng_ul | 3.84 |
| library_pcr_cycles | 12.0 |
| library_prep_date | 2024-04-09 |
| library_prepared_by | AGRF |
| library_selection | RANDOM |
| library_source | GENOMIC |
| library_type | illumina-shortread |
| lifestage | adult |
| material_conc_ng_ul | 0.978 |
| material_extracted_by | T Kwan |
| material_extraction_date | 2023-03-23 |
| material_extraction_method | QIAamp DNA FFPE kit |
| material_extraction_type | DNA |
| metadata_revision_date | 2025-08-26 |
| metadata_revision_filename | 20250826_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx |
| method_of_determination | NA |
| order | Rajiformes |
| phenotypic_sex | not determined |
| 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 | Jayson Semmens |
| sample_id | 102.100.100/463262 |
| sample_quality | Suspect some DNA degradation |
| sample_type | Tissue |
| scientific_name | Zearaja maugeana |
| scientific_name_authorship | Last & Gledhill, 2007 |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | XLEAP-SBS |
| sequencing_model | X Plus |
| sequencing_platform | NovaSeq |
| source_population | Bathrust Harbour |
| species | maugeana |
| specimen_id | HrtgMZ1 |
| specimen_id_description | CSIRO archive |
| state_or_region | Tasmania |
| subspecies | NA |
| taxon_id | 496415.0 |
| taxonomic_group | Fish |
| ticket | BPAOPS-1584 |
| tissue_collection | CSIRO |
| tissue_collection_type | CSIRO archive |
| tissue_number | GT15307_H1987_01 |
| tissue_preservation | ethanol |
| tissue_preservation_temperature | 20.0 |
| tissue_type | Muscle |
| wild_captive | wild |
| work_order | 14063 |