Plant Pathogen, Genomics, Illumina Shortread, Sample ID 394900
Dataset size is: 10.46 GiB
This dataset is currently under a short embargo period until January 17, 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:365:pp-prj031 |
| Access Control Date | 2025-01-17 |
| Access Control Mode | date |
| Sequence Data Type | illumina-shortread |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/pp_staging/illumina-shortread/BPAOPS-1553/20240108_PP_UNSW_AAFCC5YM5/ |
| bioplatforms_dataset_id | 102.100.100/399025 |
| bioplatforms_library_id | 102.100.100/397154 |
| bioplatforms_project | Plant Pathogen Initiative |
| bioplatforms_project_code | PP031_P_nodorum |
| bioplatforms_sample_id | 102.100.100/394900 |
| ccg_jira_ticket | BPAOPS-1553 |
| class | Dothideomycetes |
| collection_date | 2016-01-01 |
| collector | Fran Lopez-Ruiz, Centre for Crop and Disease Management, Curtin University |
| common_name | Stagonospora nodorum blotch (SNB, wheat); Glume blotch (wheat); |
| country | Australia |
| data_context | Genomics |
| data_type | Hi-C |
| date_of_transfer | 2024-01-18 |
| date_of_transfer_to_archive | 2024-01-18 |
| description | Illumina Short read |
| dna_treatment | crosslinking |
| facility | UNSW |
| facility_project_code | Q0011074 |
| facility_sample_id | HAN12463A5 |
| family | Phaeosphaeriaceae |
| flowcell_id | AAFCC5YM5 |
| flowcell_type | P1 |
| folder_name | 20240108_PP_UNSW_AAFCC5YM5 |
| genus | Parastagonospora |
| host_common_name | Wheat |
| host_family | Poaceae |
| host_organ | Leaf |
| host_scientific_name | Triticum aestivum |
| host_status | Grain crop |
| host_symptom | Necrosis and/or chlorosis |
| insert_size_range | 150bp PE |
| isolate | 16FRG168 |
| library_construction_protocol | Phase Genomics Proximo Hi-C (Fungal) |
| library_id | 397154 |
| library_index_id | D3 |
| library_index_id_dual | D3 |
| library_index_seq_dual | AGTATGCC |
| library_index_sequence | ATCCACGA |
| library_layout | paired end |
| library_location | Ramaciotti Centre for Genomics |
| library_ng_ul | 6.47 |
| library_pcr_reps | 12 |
| library_prep_date | 2023-11-08 |
| library_prepared_by | Phase Genomics |
| library_selection | RANDOM |
| library_source | GENOMIC |
| library_strategy | Hi-C |
| library_type | Hi-C crosslinking protocol |
| location_text | Geraldton, Western Australia |
| material_extracted_by | Huyen Phan, Centre for Crop and Disease Management, Curtin University |
| material_extraction_date | 2023-04-01 |
| material_extraction_method | Hi-C crosslinking protocol |
| 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 |
| n_libraries_pooled | 1.0 |
| order | Pleosporales |
| phylum | Ascomycota |
| project_lead | James Hane | CCDM |
| sample_collection_type | University |
| sample_custodian | Huyen Phan | Centre for Crop and Disease Management (CCDM) |
| sample_type | DNA |
| scientific_name | Parastagonospora nodorum |
| scientific_name_authorship | (Berk.) Quaedvlieg, Verkley & Crous 2013 |
| scientific_name_note | (heterotypic synonym(s): Phaeosphaeria nodorum, Septoria nodorum, Stagonospora nodorum; basionym(s): Depazea nodorum Berk., 1845, Leptosphaeria nodorum E. Müll., 1952;) |
| sequencing_facility | Ramaciotti Centre for Genomics |
| sequencing_kit_chemistry_version | NextSeq 1000 v3.0 |
| sequencing_model | 1000.0 |
| sequencing_platform | NextSeq |
| species | nodorum |
| specimen_custodian | Centre for Crop & Disease Management (CCDM) |
| specimen_id | CCDM-PN155 |
| specimen_id_description | Centre for Crop and Disease Management (CCDM) |
| state_or_region | Western Australia |
| taxon_id | 13684 |
| taxonomic_group | Fungi |
| ticket | BPAOPS-1553 |
| tissue | Leaf |
| work_order | 20013 |