Plant Pathogen, Genomics, Illumina Shortread, Sample ID 395364
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Data and Resources
This data is made available openly under a Creative Commons Attribution license.
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Additional Info Show Blank Fields
Field | Value |
---|---|
Resource Permissions | organization_member_after_embargo:date_of_transfer_to_archive:365:pp-prj032 |
Access Control Date | 2024-09-04 |
Access Control Mode | date |
Sequence Data Type | illumina-shortread |
analysis_software | NovaSeq Control Software (NCS) v1.1.0.18335; Real Time Analysis (RTA) v4.6.2; Illumina DRAGEN BCL Convert 07.021.645.4.0.3 |
associated_media | None |
base_url | https://downloads-qcif.bioplatforms.com/bpa/pp_staging/illumina-shortread/BPAOPS-1470/20230902_PP_AGRF_22CF5KLT3/ |
bioplatforms_dataset_id | 102.100.100/399033 |
bioplatforms_library_id | 102.100.100/397618 |
bioplatforms_project | Plant Pathogen Initiative |
bioplatforms_project_code | PP032_P_coronata |
bioplatforms_sample_id | 102.100.100/395364 |
ccg_jira_ticket | BPAOPS-1470 |
class | Pucciniomycetes |
collection_date | 2022-11-03 |
collection_method | Infected leaves are removed from the plant and shipped to CSIRO in a paper envelope |
collector | Allan Rattey |
common_name | Oat crown rust, leaf rust |
coord_uncertainty_metres | 5.0 |
country | Australia |
data_context | Genomics |
data_type | Illumina short read |
date_data_published | 07/09/2023 |
date_of_transfer | 2023-09-05 |
date_of_transfer_to_archive | 2023-09-06 |
decimal_latitude_public | -33.56293 |
decimal_longitude_public | 148.66761 |
description | Illumina short read |
download | https://data.bioplatforms.com/dataset?ext_search_by=&q=ticket%3ABPAOPS-1470 |
facility | AGRF |
facility_project_code | CAGRF230615273 |
facility_sample_id | 14568-2 |
family | Pucciniaceae |
flowcell_id | 22CF5KLT3 |
flowcell_type | 10B-300 |
folder_name | 20230902_PP_AGRF_22CF5KLT3 |
genus | Puccinia |
host_common_name | Oat |
host_family | Poaceae |
host_organ | Leaf |
host_scientific_name | Avena spp. |
host_status | Wild |
host_symptom | Mild infection |
insert_size_range | 450 bp ± 75 bp |
isolate | 22NSW97 |
library_construction_protocol | Illumina DNA PCR-Free Prep |
library_id | 397618 |
library_index_id | UDP0263-F & UDP0263-R |
library_index_sequence | CACACAGTAT-TTGAGCCTAA |
library_layout | Paired-End |
library_location | AGRF Melbourne |
library_pcr_cycles | 0 |
library_prep_date | 2023-08-29 |
library_prepared_by | Eleise Britt |
library_selection | PCR-Free Tagmentation |
library_source | DNA |
library_strategy | Whole-genome Sequencing |
library_type | WGS |
location_info_restricted | No |
location_text | Canowindra |
material_conc_ng_ul | 15.6 |
material_extracted_by | Eva Henningsen | CSIRO |
material_extraction_date | 2023-06-07 |
material_extraction_method | Omniprep gDNA isolation kit as described:https://doi.org/10.1371/journal.pgen.1009291 |
material_extraction_type | gDNA |
metadata_revision_date | 2024-01-16 |
metadata_revision_filename | 2024-01-16_Combined_Plant_Pathogen_sample_metadata_forQCIF_removelatlong_v2.xlsx |
order | Pucciniales |
phylum | Pucciniomycotina |
project_lead | Melania Figueroa | CSIRO |
sample_collection_type | Private |
sample_custodian | David Lewis | CSIRO |
sample_quality | Spores are viable |
sample_type | Single pustule isolation |
scientific_name | Puccinia coronata f. sp. avenae |
scientific_name_authorship | Urban and Marková, 1993 |
scientific_name_note | The full name assigned by Urban and Marková is Puccinia coronata var. avenae f. sp. avenae |
sequencing_facility | AGRF |
sequencing_kit_chemistry_version | 1.0 |
sequencing_model | X Plus |
sequencing_platform | NovaSeq |
species | coronata |
specimen_custodian | CSIRO |
specimen_id | 22NSW97 |
specimen_id_description | CSIRO |
state_or_region | New South Wales |
sub_species | f. sp. avenae |
taxon_id | 200324 |
taxonomic_group | Fungi |
ticket | BPAOPS-1470 |
tissue | Urediniospores |
tissue_preservation | Frozen |
tissue_preservation_temperature | -80°C |
wild_captive | Wild |
work_order | WO20023 |