Red-browed finch, 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 | 2026-04-10 |
| Access Control Mode | date |
| Sequence Data Type | pacbio-hifi |
| altitude | 165.0 |
| analysis_software | SMRT Link Analysis 13.3.0.253824 |
| ancillary_notes | Collection supported by ARC DP230101261. |
| associated_media | photos |
| bait_set_name | NA |
| bait_set_reference | NA |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/avian_staging/pacbio-hifi/BPAOPS-1774/20250409_AVIAN_AGRF_CAGRF24110452_m84073_250321_080406_s1/ |
| bioplatforms_dataset_id | 102.100.100/613514 |
| bioplatforms_library_id | 102.100.100/611520 |
| bioplatforms_project | Australian Avian Genomics Initiative (AVIAN) |
| bioplatforms_sample_id | 102.100.100/609520 |
| cell_postion | A01 |
| class | Aves |
| collection_date | 2024-01-22 |
| collection_method | mist net |
| collection_permit | MQ AEC 2024/007; SL100378 |
| collector | Simon Griffith, Rhiannon Schembri |
| collector_sample_id | 44714.0 |
| common_name | Red-browed finch |
| country | Australia |
| data_context | Reference genome |
| data_type | PacBio-HiFi |
| date_of_transfer | 2025-04-10 |
| date_of_transfer_to_archive | 2025-04-11 |
| death_date | 2025-01-28 |
| decimal_latitude_public | -32.2203568073 |
| decimal_longitude_public | 150.6363024593 |
| dna_treatment | SHEARING |
| experimental_design | PacBio HiFi, long reads |
| facility_project_code | CAGRF24110452 |
| facility_sample_id | 611520.0 |
| family | Estrildidae |
| fast5_compression | NA |
| flowcell_id | m84073_250321_080406_s1 |
| flowcell_type | SMRT Cell 25M |
| folder_name | 20250409_AVIAN_AGRF_CAGRF24110452_m84073_250321_080406_s1 |
| genotypic_sex | female |
| genus | Neochmia |
| habitat | Wind break next to horse paddock |
| health_state | healthy |
| identified_by | Simon Griffith |
| indigenous_location | Wonnarua |
| insert_size_range | 17000.0 |
| latitude | -32.2203568073 |
| 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_prep_date | 2025-02-02 |
| library_prepared_by | Trent Peters |
| library_selection | size fractionation |
| library_source | GENOMIC |
| library_strategy | WGS |
| library_type | PacBio-HiFi |
| lifestage | adult organism |
| location_text | Coronet farm horse paddock, eastern edge of Manobalai Nature Reserve |
| longitude | 150.6363024593 |
| material_conc_ng_ul | 315.0 |
| material_extracted_by | Rhiannon Schembri |
| material_extraction_date | 2025-01-28 |
| material_extraction_method | PacBio Nanobind CBB HMW extraction 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 | visual, dissection |
| model_base_caller | NA |
| movie_length | 30Hrs |
| n_libraries_pooled | 1.0 |
| order | Passeriformes |
| phenotypic_sex | female |
| phylum | Chordata |
| project_collaborators | Rhiannon Schembri |
| project_lead | Simon Griffith |
| sample_collection_type | private |
| sample_custodian | Simon Griffith |
| sample_id | RBF_44714.01 |
| sample_id_description | Species code + ABBBS band number + tissue sample code |
| sample_quality | Blood fixed in EDTA and immediately flash frozen in liquid nitrogen, then stored at -80 |
| sample_type | tissue sample |
| scientific_name | Neochmia temporalis temporalis |
| scientific_name_authorship | Latham, 1801 |
| scientific_name_note | NCBI database lists common name as "Red-browed firetail" but this is less commonly used and is misleading as it is not in the firetail genus Stagonopleura. Nominate subspecies is the southern form. |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | Revio SPRQ sequencing plate |
| sequencing_model | PacBio Revio |
| sequencing_platform | PACBIO_SMRT |
| sex_certainty | certain |
| source_population | Muswellbrook |
| species | temporalis |
| specimen_custodian | Simon Griffith |
| specimen_id | RBF_44714 |
| specimen_id_description | Species code + ABBBS band number |
| state_or_region | New South Wales |
| sub_species | temporalis |
| taxon_id | 2058297 |
| taxonomic_group | Bird |
| ticket | BPAOPS-1774 |
| tissue | blood |
| tissue_preservation | EDTA; liquid nitrogen |
| tissue_preservation_temperature | -80.0 |
| type_status | NA |
| wild_captive | wild |
| work_order | 26002 |