Plant Pathogen, Genomics, Illumina Shortread, Sample ID 394900
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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-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_data_published | 18/01/2024 |
| date_of_transfer | 2024-01-18 |
| date_of_transfer_to_archive | 2024-01-18 |
| description | Illumina Short Read (Hi-C) |
| dna_treatment | crosslinking |
| download | https://data.bioplatforms.com/dataset?ext_search_by=&q=ticket%3ABPAOPS-1553 |
| 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 |