Plant Pathogen, Genomics, Illumina Shortread, Sample ID 394610
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This dataset is currently under a short embargo period until February 27, 2026 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-prj014 |
| Access Control Date | 2026-02-27 |
| Access Control Mode | date |
| Sequence Data Type | illumina-shortread |
| analysis_software | NovaSeq X Control Software v1.2.2.48004; Real Time Analysis v4.6.7; Dragen BCL Convert v07.021.645.4.0.3 |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/pp_staging/illumina-shortread/BPAOPS-1761/20250227_PP_AGRF_CAGRF221112829_3_22WVN5LT3/ |
| bioplatforms_dataset_id | 102.100.100/399017 |
| bioplatforms_library_id | 102.100.100/396860 |
| bioplatforms_project | Plant Pathogen Initiative |
| bioplatforms_project_code | PP014_PectoNSW |
| bioplatforms_sample_id | 102.100.100/394610 |
| ccg_jira_ticket | BPAOPS-1761 |
| class | Gammaproteobacteria |
| collection_date | 1988-03-01 |
| collector | Unknown |
| country | Australia |
| data_context | Genomics |
| data_type | Illumina short read |
| date_data_published | 27/02/2025 |
| date_of_transfer | 2025-02-27 |
| date_of_transfer_to_archive | 2025-02-26 |
| description | Illumina Short read (54 samples) |
| download | https://data.bioplatforms.com/dataset/?ext_search_by=&q=ticket%3ABPAOPS-1761 |
| facility | AGRF |
| facility_project_code | CAGRF221112829-3 |
| facility_sample_id | 18366-38 |
| family | Pectobacteriaceae |
| flowcell_id | 22WVN5LT3 |
| flowcell_type | 10B-300 |
| folder_name | 20250227_PP_AGRF_CAGRF221112829_3_22WVN5LT3 |
| genus | Dickeya |
| host_common_name | Water sample |
| host_organ | Water |
| insert_size_range | 646.0 |
| library_construction_protocol | Illumina DNA Prep M |
| library_id | 396860 |
| library_index_seq_dual | UDP0244V3-F & UDP0244V3-R |
| library_location | AGRF Melbourne |
| library_ng_ul | 3.65 |
| library_oligo_sequence_dual | CTCTCGGCTA-TACCAGATCT |
| library_pcr_cycles | 5 |
| library_prep_date | 2025-02-14 |
| library_prepared_by | EB |
| library_source | DNA |
| location_info_restricted | Tom Groggin |
| material_extracted_by | Fridtjof Snijders | NSW DPIRD |
| material_extraction_date | 2024-11-01 |
| material_extraction_method | Qiagen Blood&Tissue or MagAttract Microbial DNA kit (KingFisher) |
| material_extraction_type | gDNA |
| metadata_revision_date | 2025-06-20 |
| metadata_revision_filename | 2025-04-08_Combined_Plant_Pathogen_sample_metadata_forQCIF_removelatlong.xlsx |
| order | Enterobacterales |
| phylum | Pseudomonadota |
| project_lead | Toni Chapman | NSW DPI |
| scientific_name | Dickeya zeae |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | XLEAP SBS |
| sequencing_model | X Plus |
| sequencing_platform | NovaSeq |
| species | zeae |
| specimen_custodian | NSW Department of Primary Industries |
| specimen_id | DAR64788 |
| specimen_id_description | NSW Plant Pathology & Mycology Herbarium |
| state_or_region | New South Wales |
| ticket | BPAOPS-1761 |