Brolga, Reference genome, PacBio-HiFi, blood
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Data and Resources
This data is made available openly under a Creative Commons Attribution license.
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Additional Info Show Blank Fields
| Field | Value |
|---|---|
| Geospatial Coverage |
Dataset extent |
| Resource Permissions | organization_member_after_embargo:date_of_transfer_to_archive:365:aus-avian-consortium-members |
| Access Control Date | 2025-12-24 |
| Access Control Mode | date |
| Sequence Data Type | pacbio-hifi |
| altitude | NA |
| analysis_software | SMRT Link Analysis 13.0.0.207600 |
| ancillary_notes | NA |
| associated_media | NA |
| bait_set_name | NA |
| bait_set_reference | NA |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/avian_staging/pacbio-hifi/BPAOPS-1735/20241223_AVIAN_AGRF_CAGRF24080145_m84073_241220_104627_s4/ |
| bioplatforms_dataset_id | 102.100.100/613513 |
| bioplatforms_library_id | 102.100.100/611513 |
| bioplatforms_project | Australian Avian Genomics Initiative (AVIAN) |
| bioplatforms_sample_id | 102.100.100/609513 |
| cell_postion | D01 |
| class | Aves |
| collection_date | 2024-03-21 |
| collection_method | Australian noose trap with call playback and taxidermy decoy (description in Veltheim et al. 2015 https://doi.org/10.1071/WR14238) |
| collection_permit | Research under Wildlife Act permit 10010774, with ethics approval from Victorian Department of Energy, Environment and Climate Action Animal Ethics Committee under application 23-001. |
| collector | Danny Rogers, Nyil Kwaja, Inka Veltheim, Neville Amos, Arthur Rylah Institute |
| collector_sample_id | 350-03392 |
| common_name | Brolga |
| country | Australia |
| data_context | Reference genome |
| data_type | PacBio-HiFi |
| date_of_transfer | 2024-12-24 |
| date_of_transfer_to_archive | 2025-01-06 |
| decimal_latitude_public | -36.5162 |
| decimal_longitude_public | 144.842 |
| depth | NA |
| dna_treatment | SHEARING |
| env_broad_scale | cropland biome [ENVO_01000245] |
| env_local_scale | freshwater biome [ENVO_00000873] |
| env_medium | NA |
| experimental_design | PacBio HiFi, long reads |
| facility_project_code | CAGRF24080145 |
| facility_sample_id | 611513.0 |
| family | Gruidae |
| fast5_compression | NA |
| flowcell_id | m84073_241220_104627_s4 |
| flowcell_type | SMRT Cell 25M |
| folder_name | 20241223_AVIAN_AGRF_CAGRF24080145_m84073_241220_104627_s4 |
| genotypic_sex | NA |
| genus | Antigone |
| habitat | cropland biome [ENVO_01000245] |
| health_state | unknown |
| identified_by | Danny Rogers, Nyil Kwaja, Inka Veltheim, Neville Amos, Arthur Rylah Institute |
| indigenous_location | Taungurung |
| insert_size_range | 17000.0 |
| latitude | -36.5162 |
| library_comments | NA |
| library_construction_protocol | Preparing HiFi SMRTbell Libraries using SMRTbell Express Template Prep Kit 3.0 |
| 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 | 285pM |
| library_oligo_sequence | NA |
| library_oligo_sequence_dual | NA |
| library_pcr_cycles | NA |
| library_pcr_reps | NA |
| library_prepared_by | Trent Peters |
| library_selection | size fractionation |
| library_source | GENOMIC |
| library_strategy | WGS |
| library_type | PacBio-HiFi |
| lifestage | adult |
| location_info_restricted | No |
| location_text | Private property, Burramboot, Between Gaynor Swamp and Lake Stewart |
| longitude | 144.842 |
| material_conc_ng_ul | 412.64 |
| material_extracted_by | Lauren White |
| material_extraction_date | 2024-10-08 |
| material_extraction_method | PacBio NanoBind HMW PanDNA kit |
| material_extraction_type | DNA |
| metadata_revision_date | 2025-07-22 |
| metadata_revision_filename | 20250722_AVIAN_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx |
| method_sex_determination | observation, behaviour |
| model_base_caller | NA |
| movie_length | 30Hrs |
| n_libraries_pooled | 1.0 |
| order | Gruiformes |
| phenotypic_sex | female |
| phylum | Chordata |
| project_lead | Lauren White, Arthur Rylah Institute |
| sample_collection_type | other (Research Institute - government) |
| sample_custodian | Lauren White, Arthur Rylah Institute |
| sample_id | 350-03392 |
| sample_id_description | Arthur Rylah Institute |
| sample_quality | NA |
| sample_type | tissue |
| scientific_name | Antigone rubicunda |
| scientific_name_authorship | NA |
| scientific_name_note | NA |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | Revio sequencing plate |
| sequencing_model | PacBio Revio |
| sequencing_platform | PACBIO_SMRT |
| sex_certainty | unsure |
| source_population | North-Victoria |
| species | rubicunda |
| specimen_custodian | Lauren White, Arthur Rylah Institute |
| specimen_id | 350-03392 |
| specimen_id_description | Arthur Rylah Institute |
| state_or_region | Victoria |
| sub_species | NA |
| taxon_id | 2717061 |
| taxonomic_group | bird |
| temperature | NA |
| ticket | BPAOPS-1735 |
| tissue | blood |
| tissue_preservation | frozen |
| tissue_preservation_temperature | -20.0 |
| type_status | NA |
| wild_captive | wild |
| work_order | 26001 |