Orange-bellied Parrot, Population Genetics, Illumina ddRAD-seq, blood on filter paper

Psittaculidae, Neophema chrysogaster, O.84823.001, Soleille Miller

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Data and Resources

This data is made available openly under a Creative Commons Attribution license. 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:tsi-consortium-members
Access Control Date 2026-06-11
Access Control Mode date
Sequence Data Type illumina-ddrad
Related Data Attached metadata spreadsheets were produced when data was generated.
ala_specimen_url NA
bait_set_name Restriction Digest
barcode_id NA
base_url https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/ddrad/BPAOPS-1795/20250611_TSI_AGRF_233JLLLT3/
bioplatforms_project Threatened Species Initiative
birth_date 2021-01-13
bpa_dataset_id 102.100.100/629192
class Aves
collection_date 2021-01-01
common_name Orange-bellied Parrot
country Australia
data_context Population Genetics
data_custodian Soleille Miller
data_type Illumina ddRAD-seq
dataset_id 102.100.100/629192
date_of_transfer 2025-06-11
date_of_transfer_to_archive 2025-06-12
experimental_design PstI/HpyCH4IV
facility_project_code CAGRF25030231
family Psittaculidae
flowcell_id 233JLLLT3
flowcell_type 10B
folder_name 20250611_TSI_AGRF_233JLLLT3
genus Neophema
insert_size_range 280-342
institution_name AM/USYD/ANU
library_construction_protocol ddRAD (based on Peterson et al 2012)
library_layout paired end
library_location AGRF_Perth
library_oligo_sequence AATGATACGGCGACCACCGAGATCTACACTCTTTCCCTACACGAC*G
library_pcr_cycles 11.0
library_pcr_reps 7.0
library_prep_date 2025-06-02
library_prepared_by Lachlan Soraru
library_selection Restriction Digest
library_source GENOMIC
library_strategy RAD-Seq
library_type ddRAD
location_text Australia, Tasmania, Ex Dpi Captive Breeding Program, Taroona (47� 57' S, 147� 20' E)
material_conc_ng_ul 36.4
material_extracted_by Kim_Heasman
material_extraction_date 2025-04-15
material_extraction_method salting out
material_extraction_type DNA
metadata_revision_date 2025-09-05
metadata_revision_filename 20250904_Sample_metadata_COMBINED-FOR-PORTAL_NOLATLON.xlsx
n_libraries_pooled 6.0
order Psittaciformes
phenotypic_sex Female
phylum Animalia
prior_genetics NCBI genome accession number GCA_047054915.1, whole genome historical analysis doi:10.1111/mec.17892
sample_custodian Australian Museum
sample_type tissue
scientific_name Neophema chrysogaster
scientific_name_authorship Latham, 1936
scientific_name_note first described by Latham as Psittacus chrysogaster, Tommaso Salvadori erected the new genus Neophema in 1891, placing the orange-bellied parrot within it and gave it its current scientific name
sequencing_facility AGRF_Perth
sequencing_model NovaSeq X Plus
sequencing_platform ILLUMINA
source_population wild
species chrysogaster
specimen_id O.84823.001
specimen_id_description Australian Museum sample registration number
state_or_region Tasmania
taxon_id 678581.0
ticket BPAOPS-1795
tissue_collection Australian Museum Frozen Tissue Collection
tissue_collection_type museum
tissue_number AM_84823
tissue_preservation frozen, dried
tissue_preservation_temperature -80.0
tissue_type blood on filter paper
wild_captive wild
work_order NA