Plant Pathogen, Genomics, PromethION, Sample ID 395708

Puccinia striiformis f. sp. tritici, Benjamin Schwessinger / Mareike Moeller | Australian National University

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Additional Info Show Blank Fields

Field Value
Resource Permissions organization_member_after_embargo:date_of_transfer_to_archive:365:pp-prj044
Access Control Date 2025-08-15
Access Control Mode date
Sequence Data Type ont-promethion
analysis_software MinKNOW 24.02.19
base_url https://downloads-qcif.bioplatforms.com/bpa/pp_staging/ont-promethion/BPAOPS-1647/20240802_PP_BRF_PBA01787/
bioplatforms_dataset_id 102.100.100/399067
bioplatforms_library_id 102.100.100/398367
bioplatforms_project Plant Pathogen Initiative
bioplatforms_project_code PP044_Puccinia_2
bioplatforms_sample_id 102.100.100/395708
ccg_jira_ticket BPAOPS-1647
cell_postion 2G
class Pucciniomycetes
common_name Stripe rust fungus
country Australia
data_context Genomics
data_type ONT
date_data_published 20/08/2024
date_of_transfer 2024-08-15
date_of_transfer_to_archive 2024-08-16
description PromethION - dataset 12
dna_treatment 2nd strand cDNA synthesis from poly-A enriched DNA, direct cDNA synthesis, no PCRs
download https://data.bioplatforms.com/dataset/?ext_search_by=&q=ticket%3ABPAOPS-1647
facility BRF
facility_sample_id ONT_Lib6_683-6
family Pucciniaceae
fast5_compression vbz
flowcell_id PBA01787
flowcell_type FLO-PRO114M
folder_name 20240802_PP_BRF_PBA01787 (sample ID 395641 - 395708, not consecutive)
genus Puccinia
host_common_name Bread wheat
host_family Poaceae
host_organ Leaf
host_scientific_name Triticum aestivum
host_status Cereal crop
host_symptom Fungal spores on leaves
insert_size_range 1500.0
isolate Pst239E
library_comments poly-A enrichment of total RNA from infected wheat plants or fungal spores, followed by 2nd strand cDNA synthesis and native ONT barcoding
library_construction_protocol SQK-NBD114.96
library_id 398367
library_index_id barcode48
library_index_id_dual NA
library_index_seq CATCTGGAACGTGGTACACCTGTA
library_index_seq_dual NA
library_layout NA
library_location BRF labs
library_ng_ul 35.6
library_oligo_sequence 5' - AAGGTTAA - barcode - CAGCACCT - 3'
library_oligo_sequence_dual NA
library_pcr_cycles NA
library_pcr_reps NA
library_prep_date 2024-06-03
library_prepared_by Mareike Moeller
library_selection samples were barcoded and pooled based on different time points and replicates
library_source cDNA of infected plant material and spores
library_strategy cDNA ligated with Nanopore native adapters
library_type Direct cDNA
material_extraction_type RNA
metadata_revision_date 2025-06-20
metadata_revision_filename 2025-04-08_Combined_Plant_Pathogen_sample_metadata_forQCIF_removelatlong.xlsx
model_base_caller Super-accurate basecalling, 400 bps
movie_length NA
n_libraries_pooled 36.0
order Pucciniales
phylum Basidiomycota
project_lead Benjamin Schwessinger / Mareike Moeller | Australian National University
sample_collection_type University, greenhouse experiment
sample_custodian Benjamin Schwessinger | ANU
sample_id 395708
sample_type dormant spores
scientific_name Puccinia striiformis f. sp. tritici
sequencing_facility Biomolecular Resource Facility
sequencing_kit_chemistry_version SQK-NBD114.96
sequencing_model PromethION24
sequencing_platform Oxford Nanopore
species Puccinia striiformis
specimen_custodian Benjamin Schwessinger | ANU
specimen_id Pst239E
specimen_id_description Puccinia striiformis f. sp. tritici (Pst), pathotype 239E
sub_species Puccinia striiformis f. sp. tritici
taxon_id 168172
taxonomic_group Fungi
ticket BPAOPS-1647
tissue urediniospores, dormant, replicate 4
work_order pool 6