Plant Pathogen, Genomics, Illumina Shortread, Sample ID 395867

Diaporthe toxica, Manisha Shankar | DPIRD

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Additional Info Show Blank Fields

Field Value
Resource Permissions organization_member_after_embargo:date_of_transfer_to_archive:560:pp-prj024
Access Control Date 2026-01-27
Access Control Mode date
Sequence Data Type illumina-shortread
analysis_software NovaSeq Control Software (NCS) 1.2.0.28691; Real Time Analysis (RTA) v4.6.7; Illumina DRAGEN BCL Convert 07.021.645.4.0.3
ancillary_notes P2
base_url https://downloads-qcif.bioplatforms.com/bpa/pp_staging/illumina-shortread/BPAOPS-1620/20240716_PP_AGRF_CAGRF24050285_22CY5KLT4/
bioplatforms_dataset_id 102.100.100/399058
bioplatforms_library_id 102.100.100/398129
bioplatforms_project Plant Pathogen Initiative
bioplatforms_project_code PP024_D_toxica
bioplatforms_sample_id 102.100.100/395867
ccg_jira_ticket BPAOPS-1620
class Sordariomycetes
collection_date 1994-01-01
common_name Phomopsis stem and pod blight
country Australia
data_context Genomics
data_type Short read
date_data_published 29/07/2024
date_of_transfer 2024-07-16
date_of_transfer_to_archive 2024-07-17
description Illumina Short Read
download https://data.bioplatforms.com/dataset?ext_search_by=&q=ticket%3ABPAOPS-1620
facility AGRF
facility_project_code CAGRF24050285
facility_sample_id 16732-2
family Diaporthaceae
flowcell_id 22CY5KLT4
flowcell_type 25B-300
folder_name 20240716_PP_AGRF_CAGRF24050285_22CY5KLT4
genus Diaporthe
host_common_name Lupin
host_family Fabaceae
host_organ Stem
host_scientific_name Lupinus angustifolius
host_status Pulse crop
host_symptom Symptoms appear on senescing stems/pods as dark lesions that bleach with age and contain black fruiting bodies.
insert_size_range 450 bp ± 75 bp
library_construction_protocol Illumina DNA Prep PCR-Free
library_id 398129
library_index_id_dual UDP0129-F & UDP0129-R
library_index_seq_dual TCTAGGCGCG-CGAAGGTTAA
library_layout Paired-End
library_location AGRF Melbourne
library_ng_ul 7.18
library_prep_date 2024-07-03
library_prepared_by EB
library_selection PCR-Free Tagmentation
library_source DNA
library_strategy Whole-genome Sequencing
library_type WGS
location_text Ganmain
material_conc_ng_ul 27.8
material_extracted_by Hieu Tran / DPIRD
material_extraction_date 2024-05-08
material_extraction_method DNeasy Plant Mini Kit Qiagen
material_extraction_type gDNA
metadata_revision_date 2025-06-20
metadata_revision_filename 2025-04-08_Combined_Plant_Pathogen_sample_metadata_forQCIF_removelatlong.xlsx
order Diaporthales
phylum Ascomycota
project_lead Manisha Shankar | DPIRD
sample_collection_type Herbarium
sample_custodian Geoff Thomas | DPIRD
scientific_name Diaporthe toxica
scientific_name_authorship P.M. Williamson et al, Mycological Research 98(12): 1367 (1994)
sequencing_facility AGRF
sequencing_kit_chemistry_version XLEAP SBS
sequencing_model X Plus
sequencing_platform NovaSeq
species toxica
specimen_custodian Plant Pathology Culture Collection, Western Australia (WAC)
specimen_id WAC8776
specimen_id_description Plant Pathology Culture Collection, Western Australia (WAC)
state_or_region NSW
taxon_id 303514
taxonomic_group Fungi
ticket BPAOPS-1620
work_order WO20052