JSON

TSI Pacbio HiFi 102.100.100/357366

Rhodomyrtus psidioides, Australia New South Wales

Data and Resources

Additional Info

Field Value
Geospatial Coverage
Resource Permissions organization_member
access_rights
ala_specimen_url
analysis_software SMRT Link Analysis
analysis_software_version 9.0.0.92188
ancillary_notes Tissue culture generated for the specimen (see Sommerville, K. D., Cuneo, P., Errington, G., Makinson, R. O., Pederson, S., Phillips, G., ... & Offord, C. A. Conservation in the wake of myrtle rust–a case study on two critically endangered Australian rainforest plants. Pacific Conservation Biology.)
archive_ingestion_date 2020-12-01
associated_media
barcode_id
base_url https://downloads-qcif.bioplatforms.com/bpa/tsi_staging/pacbio-hifi/BPAOPS-988/TSI_AGRF_PacBio_C20083637/357366_TSI_AGRF_PacBio_DA052899_HiFi_metadata/
birth_date
cell_postion D01
certainty 1.0
class
collection_date 2020-08-24
collection_method
collector Sam Yap
collector_sample_id
common_name native guava
contextual_data_submission_date
coord_uncertainty_metres
country Australia
data_context Reference genome for Rhodomyrtus psidioides
data_custodian Jia-Yee Samantha Yap
data_generated 2020-12-01
data_type Pacbio HiFi
dataset_id 102.100.100/358866
dataset_url
date_of_transfer
death_date
description
dna_treatment SHEARING
experimental_design NA
facility_sample_id RP_2
family Myrtaceae
file_name 355356_TSI_AGRF_PacBio_DA052899.subreads.bam
file_type BAM
flowcell_id DA052899
flowcell_type SMRT Cell 8M
folder_name TSI_AGRF_PacBio_C20083637
genotypic_sex
genus Rhodomyrtus
habitat
identified_by
insert_size_range 16365.0
institution_name Research Centre for Ecosystem Resilience, Australian Institute of Botanical Science
latitude
library_comments NA
library_construction_protocol Preparing HiFi SMRTbell® Libraries using SMRTbell Express Template Prep Kit 2.0
library_id 102.100.100/357366
library_index_id NA
library_index_sequence NA
library_layout NA
library_location AGRF
library_ng_ul 96.2
library_oligo_sequence NA
library_pcr_cycles NA
library_pcr_reps NA
library_prep_date 2020-10-14
library_prepared_by Trent Peters
library_selection size fractionation
library_source GENOMIC
library_status Library Sequenced
library_strategy Preparing HiFi SMRTbell® Libraries using SMRTbell Express Template Prep Kit 2.0
library_type WGS
lifestage
location_text Bed 65i at Royal Botanic Gardens, Sydney
longitude
material_conc_ng_ul
material_extracted_by
material_extraction_date 2020-08-24
material_extraction_method modified CTAB method
material_extraction_type DNA
method_of_determination Observation (Adam & Williams 2001)
movie_length 30HRS
n_libraries_pooled 1.0
order Myrtales
phenotypic_sex unknown (bisexual but self-incompatible)
phylum
prior_genetics
sample_custodian
sample_id 102.100.100/355356
sample_quality
sample_submission_date
sequencing_facility AGRF
sequencing_model PacBio Sequel II
sequencing_platform PACBIO_SMRT
source_population unknown provenance
species psidioides
specimen_id AA16933
specimen_id_description Rhodomyrtus psidioides from the RBGSYD living collection
state_or_region New South Wales
subspecies
taxon_id 375277.0
taxonomic_group Plant
ticket BPAOPS-988
tissue_collection AA16933_RBGSYD
tissue_number AA16933SYD_RBG_leaf
tissue_preservation fresh
tissue_type leaf tissue
type_status
wild_captive
work_order 14002.0