Plant Pathogen, Genomics, Illumina Shortread, Sample ID 394669
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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-1760/20250227_PP_AGRF_CAGRF221112829_4_22WVN5LT3/ |
| bioplatforms_dataset_id | 102.100.100/399017 |
| bioplatforms_library_id | 102.100.100/396919 |
| bioplatforms_project | Plant Pathogen Initiative |
| bioplatforms_project_code | PP014_PectoNSW |
| bioplatforms_sample_id | 102.100.100/394669 |
| ccg_jira_ticket | BPAOPS-1760 |
| class | Gammaproteobacteria |
| collection_date | 2024-01-24 |
| 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 (68 samples) |
| download | https://data.bioplatforms.com/dataset/?ext_search_by=&q=ticket%3ABPAOPS-1760 |
| facility | AGRF |
| facility_project_code | CAGRF221112829-4 |
| facility_sample_id | 18596-52 |
| family | Erwiniaceae |
| flowcell_id | 22WVN5LT3 |
| flowcell_type | 10B-300 |
| folder_name | 20250227_PP_AGRF_CAGRF221112829_4_22WVN5LT3 |
| genus | Pantoea |
| host_common_name | Garlic |
| host_symptom | Soft rot |
| insert_size_range | 589.0 |
| library_construction_protocol | Illumina DNA Prep M |
| library_id | 396919 |
| library_index_seq_dual | UDP0052-F & UDP0052-R |
| library_location | AGRF Melbourne |
| library_ng_ul | 4.83 |
| library_oligo_sequence_dual | TGATGTAAGA-GTGCGTCCTT |
| library_pcr_cycles | 5 |
| library_prep_date | 2025-02-13 |
| library_prepared_by | EB |
| library_source | DNA |
| location_info_restricted | Middleton |
| 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 | Pantoea agglomerans |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | XLEAP SBS |
| sequencing_model | X Plus |
| sequencing_platform | NovaSeq |
| species | agglomerans |
| specimen_custodian | NSW Department of Primary Industries |
| specimen_id | 24/041 A2 i11 |
| specimen_id_description | PHDS submission |
| state_or_region | Tasmainia |
| ticket | BPAOPS-1760 |