Plant Pathogen, Genomics, Illumina Shortread, Sample ID 395527
Dataset size is: 3.72 GiB
This dataset is currently under a short embargo period until April 4, 2025 to enable primary access by research partners.
If you would like access during this period please contact us here or contact the project lead directly (see details in the table below) for collaboration opportunities.
Data and Resources
Please see the initiative
Data Policy
for attribution information.
Additional Info Show Blank Fields
| Field | Value |
|---|---|
| Resource Permissions | organization_member_after_embargo:date_of_transfer_to_archive:560:pp-prj024 |
| Access Control Date | 2025-04-04 |
| 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 |
| ancillary_notes | Tube 40 |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/pp_staging/illumina-shortread/BPAOPS-1484/20230922_PP_AGRF_CAGRF230715550_22CF5LLT3/ |
| bioplatforms_dataset_id | 102.100.100/399039 |
| bioplatforms_library_id | 102.100.100/397781 |
| bioplatforms_project | Plant Pathogen Initiative |
| bioplatforms_project_code | PP024_D_toxica |
| bioplatforms_sample_id | 102.100.100/395527 |
| ccg_jira_ticket | BPAOPS-1484 |
| class | Sordariomycetes |
| collection_date | 2023-01-01 |
| collector | Michelle Priestley |
| common_name | Phomopsis stem and pod blight |
| country | Australia |
| data_context | Genomics |
| data_type | Short read |
| date_data_published | 25/09/2023 |
| date_of_transfer | 2023-09-22 |
| date_of_transfer_to_archive | 2023-09-25 |
| decimal_latitude_public | -33.063738 |
| decimal_longitude_public | 115.908493 |
| description | Illumina short read |
| download | https://data.bioplatforms.com/dataset/?ext_search_by=&q=ticket:BPAOPS-1484 |
| facility | AGRF |
| facility_project_code | CAGRF230715550 |
| facility_sample_id | 14714-17 |
| family | Diaporthaceae |
| flowcell_id | 22CF5LLT3 |
| flowcell_type | 10B-300 |
| folder_name | 20230922_PP_AGRF_CAGRF230715550_22CF5LLT3 |
| 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 ± 75 bp |
| library_construction_protocol | Illumina DNA PCR-Free Prep |
| library_id | 397781 |
| library_index_id_dual | UDP0121-F & UDP0121-R |
| library_index_seq_dual | AGAGAACCTA-GGTTATGCTA |
| library_layout | Paired-End |
| library_location | AGRF Melbourne |
| library_ng_ul | 0.871 |
| library_prep_date | 2023-08-19 |
| library_prepared_by | E. Britt |
| library_selection | PCR-Free Tagmentation |
| library_source | DNA |
| library_strategy | Whole-genome Sequencing |
| library_type | WGS |
| location_text | Harvey |
| material_conc_ng_ul | 74.4 |
| material_extracted_by | Yong Han and Hieu Tran / DPIRD |
| material_extraction_date | 2023-05-15 |
| material_extraction_method | DNeasy Plant Mini Kit Qiagen |
| 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 | 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_model | X Plus |
| sequencing_platform | NovaSeq |
| species | toxica |
| specimen_custodian | Plant Pathology Culture Collection, Western Australia (WAC) |
| specimen_id | WAC15317 |
| specimen_id_description | Plant Pathology Culture Collection, Western Australia (WAC) |
| state_or_region | WA |
| taxon_id | 303514 |
| taxonomic_group | Fungi |
| ticket | BPAOPS-1484 |
| work_order | WO20031 |