Brown Thornbill, Reference genome, PacBio-HiFi, Kidney
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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:tsi-consortium-members |
| Access Control Date | 2024-07-25 |
| Access Control Mode | date |
| Sequence Data Type | pacbio-hifi |
| access_rights | open |
| ala_specimen_url | https://bie.ala.org.au/species/https://biodiversity.org.au/afd/taxa/62f6a29a-7b0c-4e5c-83ea-0074f99d133b |
| analysis_software | SMRT Link Analysis |
| analysis_software_version | 12.0.0.172289 |
| bait_set_name | NA |
| bait_set_reference | NA |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/pacbio-hifi/BPAOPS-1444/20230721_TSI_AGRF_CAGRF230414583_m84073_230713_052805_s1/ |
| bioplatforms_project | Threatened Species Initiative |
| cell_postion | A01 |
| certainty | High |
| class | Aves |
| collection_method | Dissection |
| collector | Dejan Stojanovic |
| common_name | Brown Thornbill |
| country | Australia |
| data_context | Reference genome |
| data_custodian | Carolyn Hogg |
| data_type | PacBio-HiFi |
| dataset_id | 102.100.100/358824 |
| date_of_transfer | 2023-07-26 |
| date_of_transfer_to_archive | 2023-07-26 |
| death_date | 2023-04-06 |
| decimal_latitude_public | -43.0 |
| decimal_longitude_public | 147.4 |
| description | King Island Brown Thornbill (HiFi Revio) |
| dna_treatment | SHEARING |
| experimental_design | NA |
| facility_project_code | CAGRF230414583 |
| facility_sample_id | 460202.0 |
| family | Acanthizidae |
| fast5_compression | NA |
| file_type | BAM |
| flowcell_id | m84073_230713_052805_s1 |
| flowcell_type | SMRT Cell 25M |
| folder_name | 20230721_TSI_AGRF_CAGRF230414583_m84073_230713_052805_s1 |
| genus | Acanthiza |
| habitat | Forest |
| insert_size_range | 13000.0 |
| institution_name | Australian National University |
| latitude | -43.0 |
| library_comments | NA |
| library_construction_protocol | Preparing HiFi SMRTbell Libraries using SMRTbell Express Template Prep Kit 2.0 |
| library_id | 102.100.100/462242 |
| 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 | 250pM |
| library_oligo_sequence | NA |
| library_oligo_sequence_dual | NA |
| library_pcr_cycles | NA |
| library_pcr_reps | NA |
| library_prepared_by | Jack Royle |
| library_selection | size fractionation |
| library_source | GENOMIC |
| library_strategy | WGS |
| library_type | PacBio-HiFi |
| lifestage | Adult |
| longitude | 147.4 |
| material_conc_ng_ul | 547.0 |
| material_extracted_by | Elspeth McLennan |
| material_extraction_date | 2023-05-01 |
| material_extraction_method | Circulomics Kit ("Nanobind Tissue Big DNA Kit v1.0 11/19") |
| material_extraction_type | DNA |
| metadata_revision_date | 2025-08-26 |
| metadata_revision_filename | 20250826_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx |
| method_of_determination | Dissection |
| model_base_caller | NA |
| movie_length | 24Hrs |
| n_libraries_pooled | 1.0 |
| order | Passeriformes |
| phenotypic_sex | Male |
| phylum | Chordata |
| sample_custodian | Carolyn Hogg |
| sample_id | 102.100.100/460202 |
| sample_quality | good |
| sample_type | Organ |
| scientific_name | Acanthiza pusilla |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | Revio sequencing plate |
| sequencing_model | PacBio Revio |
| sequencing_platform | PACBIO_SMRT |
| source_population | Tasmania |
| species | pusilla |
| specimen_id | B974_KIBT |
| specimen_id_description | ANU field collection |
| state_or_region | Tasmania |
| taxon_id | 117193.0 |
| taxonomic_group | Avian |
| ticket | BPAOPS-1444 |
| tissue_collection | Australian National University |
| tissue_collection_type | Dissection |
| tissue_number | B974_KBIT_kidney |
| tissue_preservation | Flash frozen |
| tissue_preservation_temperature | -80.0 |
| tissue_type | Kidney |
| wild_captive | wild |
| work_order | 14052 |