Plum-headed finch, Reference genome, PacBio-HiFi, blood
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This dataset is currently under a short embargo period until May 29, 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:aus-avian-consortium-members |
| Access Control Date | 2026-05-29 |
| Access Control Mode | date |
| Sequence Data Type | pacbio-hifi |
| analysis_software | SMRT Link Analysis 13.3.0.253824 |
| ancillary_notes | Domestic bird obtained from finch breeder Brian Read. 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-1787/20250528_AVIAN_AGRF_CAGRF25040478_m84073_250517_140854_s3/ |
| bioplatforms_dataset_id | 102.100.100/613514 |
| bioplatforms_library_id | 102.100.100/611841 |
| bioplatforms_project | Australian Avian Genomics Initiative (AVIAN) |
| bioplatforms_sample_id | 102.100.100/609516 |
| cell_postion | C01 |
| class | Aves |
| collection_date | 2024-12-18 |
| collection_method | hand capture (from captivity) |
| collection_permit | MQ AEC 2024/007 |
| collector | Simon Griffith, Rhiannon Schembri, Muhammad Fakher Ud Din |
| collector_sample_id | PHF_F |
| common_name | Plum-headed finch |
| country | Australia |
| data_context | Reference genome |
| data_type | PacBio-HiFi |
| date_of_transfer | 2025-05-29 |
| date_of_transfer_to_archive | 2025-05-29 |
| death_date | 2024-12-18 |
| dna_treatment | SHEARING |
| experimental_design | PacBio HiFi, long reads |
| facility_project_code | CAGRF25040478 |
| facility_sample_id | 611841.0 |
| family | Estrildidae |
| fast5_compression | NA |
| flowcell_id | m84073_250517_140854_s3 |
| flowcell_type | SMRT Cell 25M |
| folder_name | 20250528_AVIAN_AGRF_CAGRF25040478_m84073_250517_140854_s3 |
| genotypic_sex | unknown |
| genus | Aidemosyne |
| health_state | healthy |
| identified_by | Simon Griffith, Bruce Hockley |
| indigenous_location | Wallamattagul |
| insert_size_range | 17000.0 |
| 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 | 325pM |
| library_oligo_sequence | NA |
| library_oligo_sequence_dual | NA |
| library_pcr_cycles | NA |
| library_pcr_reps | NA |
| library_prep_date | 2025-05-02 |
| library_prepared_by | Trent Peters |
| library_selection | size fractionation |
| library_source | GENOMIC |
| library_strategy | WGS |
| library_type | PacBio-HiFi |
| lifestage | adult organism |
| location_text | Macquarie University |
| material_conc_ng_ul | 290.0 |
| material_extracted_by | Rhiannon Schembri |
| material_extraction_date | 2024-12-18 |
| 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 | PHF_BR03.01 |
| sample_id_description | Species code + arbitrary identifier + tissue sample code |
| sample_quality | Extractions performed immediately after sample collection |
| sample_type | tissue sample |
| scientific_name | Aidemosyne modesta |
| scientific_name_authorship | Gould, 1837 |
| scientific_name_note | New genus Aidemosyne designated in Olsson & Alstrom (2020) based on phylogenetic evidence (formerly genus Neochmia). |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | Revio SPRQ sequencing plate |
| sequencing_model | PacBio Revio |
| sequencing_platform | PACBIO_SMRT |
| sex_certainty | certain |
| source_population | domestic |
| species | modesta |
| specimen_custodian | Simon Griffith |
| specimen_id | PHF_BR03 |
| specimen_id_description | Species code + arbitrary identifier |
| state_or_region | New South Wales |
| taxon_id | 247978 |
| taxonomic_group | Bird |
| ticket | BPAOPS-1787 |
| tissue | blood |
| tissue_preservation | EDTA; fresh |
| tissue_preservation_temperature | room temperature |
| type_status | NA |
| wild_captive | captive bred |
| work_order | 26006 |