GAP PacBio-HiFi, Reference genomes, 378149

Gymnostoma australianum L.A.S.Johnson, Casuarinaceae, David Cantrill

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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:gap-consortium-members
Access Control Date 2024-06-27
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-1433/20230622_GAP_GWA_GWA-AJ-845_DA235355/
cell_postion A01
country Australia
data_type Main dataset
dataset_id 102.100.100/83820
dataset_url https://data.bioplatforms.com/dataset?ext_search_by=&q=ticket%3ABPAOPS-1433
date_data_published 12/07/2023
date_of_transfer 2023-06-28
date_of_transfer_to_archive 2023-07-11
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-845 GYM RAW L249 PBS034
family Casuarinaceae
flowcell_id DA235355
flowcell_type 8M SMRT cell
folder_name 20230622_GAP_GWA_GWA-AJ-845_DA235355
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 MEL
id_vetting_by Gareth Holmes
id_vetting_date 2022-09-19
insert_size_range 21276.0
library_construction_protocol Preparing whole genome and metagenome libraries using SMRTbell® prep kit 3.0 PN 102-166-600 APR2022
library_id 102.100.100/384042
library_layout NA
library_location GWA FRIDGE 7
library_ng_ul 83.2
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 RBGC 144227.1
living_collections_event_date 2022-09-19
living_collections_material_sample_rna N/A
living_collections_record_number GDH146
living_collections_recorded_by Gareth Holmes, Todd McLay
location_id Royal Botanic Gardens Victoria, Cranbourne, Gondwana Garden
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 10008918.0
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 102.100.100/378149
sample_submitter_email David.Cantrill@rbg.vic.gov.au
sample_submitter_name David Cantrill
scientific_name Gymnostoma australianum
scientific_name_authorship L.A.S.Johnson
sequencing_facility Genomics WA
sequencing_model PacBio Sequel II
sequencing_platform PACBIO_SMRT
silica_gel No
silica_gel_id N/A
silica_gel_pressed_sheet N/A
state_or_territory Victoria
ticket BPAOPS-1433
voucher_herbarium_catalog_number MEL 2524930A
voucher_herbarium_collector_id Gareth Holmes
voucher_herbarium_event_date 2022-09-19
voucher_herbarium_record_number GDH146
voucher_herbarium_recorded_by Gareth Holmes