Plant Pathogen, Genomics, Illumina Shortread, Sample ID 395360
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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 | 102.100.100/397614 |
| bioplatforms_project | Plant Pathogen Initiative |
| bioplatforms_project_code | PP032_P_coronata |
| bioplatforms_sample_id | 102.100.100/395360 |
| ccg_jira_ticket | BPAOPS-1470 |
| class | Pucciniomycetes |
| collection_date | 2022-09-30 |
| collection_method | Infected leaves are removed from the plant and shipped to CSIRO in a paper envelope |
| collector | Jason Bradley |
| 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 | -30.56047 |
| decimal_longitude_public | 118.01591 |
| 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 | 14503-11 |
| 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 | Cultivated |
| host_symptom | Mild infection |
| insert_size_range | 450 bp ± 75 bp |
| isolate | 22WA86 |
| library_construction_protocol | Illumina DNA PCR-Free Prep |
| library_id | 397614 |
| library_index_id | UDP0195-F & UDP0195-R |
| library_index_sequence | ATGGCGTGCC-CGCTTGAAGT |
| 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 | Wialki |
| material_conc_ng_ul | 5.48 |
| material_extracted_by | Eva Henningsen | CSIRO |
| material_extraction_date | 2023-06-05 |
| 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 | 22WA86 |
| specimen_id_description | CSIRO |
| state_or_region | Western Australia |
| 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 |