GAP PacBio-HiFi, Reference genomes, 378160

Berberidopsis beckleri (F.Muell.) Veldkamp, Berberidopsidaceae, J.J. Bruhl

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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:gap-consortium-members
Access Control Date 2024-07-31
Access Control Mode date
Sequence Data Type pacbio-hifi
analysis_software SMRT Link
analysis_software_version 11.1.0.166339
base_url https://downloads-qcif.bioplatforms.com/bpa/plants_staging/pacbio-hifi/BPAOPS-1447/20230723_GAP_GWA_GWA-AJ-888_DA256597/
cell_postion D01
country Australia
data_type Main dataset
dataset_id 102.100.100/83827
dataset_url https://data.bioplatforms.com/dataset?ext_search_by=&q=ticket%3ABPAOPS-1447
date_data_published 21/06/2023
date_of_transfer 2023-08-01
date_of_transfer_to_archive 2023-08-04
description PacBio-HiFi
dna_treatment Shearing on Diagenode megaruptor-3, FFPE repair with NEB kit, Blue Pippin Size selection > 15kB before library preparation
facility GWA
facility_sample_id iLab ID GWA-AJ-888 Berberidopsis Beckleri L290 PBS035
family Berberidopsidaceae
flowcell_id DA256597
flowcell_type 8M SMRT cell
folder_name 20230723_GAP_GWA_GWA-AJ-888_DA256597
genomic_material_associated_references Jones et al (2021) PLOS ONE https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0253830
genomic_material_preparation_date 2022-02-01
genomic_material_preparation_materials In the protocol
genomic_material_preparation_process Jones et al (2021) PLOS ONE https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0253830
genomic_material_preparation_type Leaf gDNA
genomic_material_prepared_by Ashley Jones
herbarium_code NE
insert_size_range 20760.0
library_construction_protocol Preparing whole genome and metagenome libraries using SMRTbell® prep kit 3.0 PN 102-166-600 APR2022
library_id 102.100.100/384049
library_layout NA
library_location GWA FRIDGE 10
library_ng_ul 138.0
library_prep_date 2023-04-20
library_prepared_by Ali Sadiq Cheema
library_selection RANDOM
library_source GENOMIC
library_status Library Sequenced
library_strategy Preparing whole genome and metagenome libraries using SMRTbell® prep kit 3.0 PN 102-166-600 APR2022 with custom steps
library_type Long read Hi Fi library with custom steps
living_collections_catalog_number 110681.0
living_collections_event_date 2022-10-16
living_collections_material_sample_rna N/A
living_collections_record_number JJB3787
living_collections_recorded_by J.J. Bruhl
location_id Northern Tablelands: New England National Park, 1.3 km along Robinsons Knob Trail from Point Lookout Rd, c. 50 m S of fire trail.
metadata_revision_date 2025-10-14
metadata_revision_filename 2025-10-15_Combined_plant_sample_metadata_forQCIF.xlsx
movie_length 30 hours
nagoya_protocol_compliance Yes
nagoya_protocol_permit_number SL100305
preservation_date_begin 2022-11-01
preservation_temperature Leaf −80°C (2022-11), DNA 4°C (2023-02)
preservation_type Freezing, fridge
project_aim Reference genomes
sample_id 102.100.100/378160
sample_submission_date 2022-10-17
sample_submitter_email jbruhl@une.edu.au
sample_submitter_name J.J. Bruhl
scientific_name Berberidopsis beckleri
scientific_name_authorship (F.Muell.) Veldkamp
sequencing_facility Genomics WA
sequencing_model PacBio Sequel II
sequencing_platform PACBIO_SMRT
state_or_territory NSW
ticket BPAOPS-1447
voucher_herbarium_catalog_number NE 113249
voucher_herbarium_collector_id J.J. Bruhl
voucher_herbarium_event_date 2022-10-16
voucher_herbarium_record_number JJB3787
voucher_herbarium_recorded_by J.J. Bruhl