Plant Pathogen, Genomics, Illumina Shortread, Sample ID 395531
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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-prj027 |
| 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 138 |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/pp_staging/illumina-shortread/BPAOPS-1482/20230922_PP_AGRF_CAGRF230715549_22CF5LLT3/ |
| bioplatforms_dataset_id | 102.100.100/399040 |
| bioplatforms_library_id | 102.100.100/397785 |
| bioplatforms_project | Plant Pathogen Initiative |
| bioplatforms_project_code | PP027_F_crownrot |
| bioplatforms_sample_id | 102.100.100/395531 |
| ccg_jira_ticket | BPAOPS-1482 |
| class | Sordariomycetes |
| collection_date | 2013-12-01 |
| collector | Miriam Connor |
| common_name | Crown rot |
| 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 | 2023-09-22 |
| decimal_latitude_public | -32.8221 |
| decimal_longitude_public | 117.64 |
| description | Illumina short read |
| download | https://data.bioplatforms.com/dataset/?ext_search_by=&q=ticket:BPAOPS-1482 |
| facility | AGRF |
| facility_project_code | CAGRF230715549 |
| facility_sample_id | 14717-19 |
| family | Nectriaceae |
| flowcell_id | 22CF5LLT3 |
| flowcell_type | 10B-300 |
| folder_name | 20230922_PP_AGRF_CAGRF230715549_22CF5LLT3 |
| genus | Fusarium |
| host_common_name | Wheat |
| host_family | Poaceae |
| host_organ | Crown |
| host_scientific_name | Triticum aestivum |
| host_status | Cereal crop |
| host_symptom | Rotting of crown tissue and lower stem internodes, lesions on subcrown internodes, and premature death of inflorescens (whiteheads). |
| insert_size_range | 450 ± 75 bp |
| library_construction_protocol | Illumina DNA PCR-Free Prep |
| library_id | 397785 |
| library_index_id_dual | UDP0349-F & UDP0349-R |
| library_index_seq_dual | CTTAAGTCGA-CAGTAGTTGT |
| library_layout | Paired-End |
| library_location | AGRF Melbourne |
| library_ng_ul | 0.921 |
| 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 | Wickepin |
| material_conc_ng_ul | 46.3 |
| material_extracted_by | Yong Han and Hieu Tran / DPIRD |
| material_extraction_date | 2023-07-24 |
| 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 | Hypocreales |
| phylum | Ascomycota |
| project_lead | Manisha Shankar | DPIRD |
| sample_collection_type | Herbarium |
| sample_custodian | Daniel Huberli | DPIRD |
| scientific_name | Fusarium pseudograminearum |
| scientific_name_authorship | O'Donnell & T. Aoki |
| sequencing_facility | AGRF |
| sequencing_model | X Plus |
| sequencing_platform | NovaSeq |
| species | pseudograminearum |
| specimen_custodian | Plant Pathology Culture Collection, Western Australia (WAC) |
| specimen_id | WAC15283 |
| specimen_id_description | Plant Pathology Culture Collection, Western Australia (WAC) |
| state_or_region | WA |
| taxon_id | 101028 |
| taxonomic_group | Fungi |
| ticket | BPAOPS-1482 |
| work_order | WO20032 |