Plant Pathogen, Genomics, Illumina Shortread, Sample ID 395513
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Data and Resources
This data is made available openly under a Creative Commons Attribution license.
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Data Policy
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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 | 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 26 |
| 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 | 102.100.100/397767 |
| bioplatforms_project | Plant Pathogen Initiative |
| bioplatforms_project_code | PP024_D_toxica |
| bioplatforms_sample_id | 102.100.100/395513 |
| ccg_jira_ticket | BPAOPS-1484 |
| class | Sordariomycetes |
| collector | Sweetingham, M. W. |
| 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 | -34.045521 |
| decimal_longitude_public | 117.63913 |
| 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 | 14714-10 |
| 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 | 397767 |
| library_index_id_dual | UDP0114-F & UDP0114-R |
| library_index_seq_dual | TAGAATTGGA-GTTAATCTGA |
| library_layout | Paired-End |
| library_location | AGRF Melbourne |
| library_ng_ul | 2.91 |
| 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 | Tambellup |
| material_conc_ng_ul | 60.5 |
| 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 | WAC9485 |
| 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 |