Plant Pathogen, Genomics, PacBio HiFi, Sample ID 394941
Dataset size is: 0.00 Bit
Data and Resources
This data is made available openly under a Creative Commons Attribution license.
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-prj015 |
| Access Control Date | 2024-11-29 |
| Access Control Mode | date |
| Sequence Data Type | pacbio-hifi |
| analysis_software | SMRT Link Analysis |
| bait_set_name | NA |
| bait_set_reference | NA |
| base_url | https://downloads-qcif.bioplatforms.com/bpa/pp_staging/pacbio-hifi/BPAOPS-1529/20231129_PP_AGRF_CAGRF230314005_m84073_231123_073845_s4/ |
| bioplatforms_dataset_id | 102.100.100/399027 |
| bioplatforms_library_id | 102.100.100/397195 |
| bioplatforms_project | Plant Pathogen Initiative |
| bioplatforms_project_code | PP015_PectoTas |
| bioplatforms_sample_id | 102.100.100/394941 |
| ccg_jira_ticket | BPAOPS-1529 |
| cell_postion | D01 |
| class | Gammaproteobacteria |
| collection_date | 2019-02-05 |
| collection_method | Isolation |
| collector | Dann, A |
| collector_sample_id | 11779-1D |
| common_name | Blackleg/Soft Rot |
| country | Australia |
| data_context | Genomics |
| data_type | PacBio |
| date_data_published | 30/11/2023 |
| date_of_transfer | 2023-11-30 |
| date_of_transfer_to_archive | 2023-12-01 |
| description | PacBio-HiFi |
| dna_treatment | SHEARING |
| download | https://data.bioplatforms.com/dataset?ext_search_by=&q=ticket%3ABPAOPS-1529 |
| experimental_design | 12.0.0.172289 |
| facility | AGRF |
| facility_sample_id | 394941 |
| family | Pectobacteriaceae |
| fast5_compression | NA |
| flowcell_id | m84073_231123_073845_s4 |
| flowcell_type | SMRT Cell 25M |
| folder_name | 20231129_PP_AGRF_CAGRF230314005_m84073_231123_073845_s4 |
| genus | Pectobacterium |
| host_common_name | Potato |
| host_family | Solanaceae |
| host_organ | Stem and tuber |
| host_scientific_name | Solanum tuberosum |
| host_status | Cultivated food staple |
| host_symptom | Necrosis, soft rot |
| insert_size_range | 7000.0 |
| library_comments | NA |
| library_construction_protocol | Preparing HiFi SMRTbell Libraries using SMRTbell Express Template Prep Kit 2.0 |
| library_id | 397195 |
| library_index_id | NA |
| library_index_id_dual | NA |
| library_index_seq_dual | NA |
| library_index_sequence | NA |
| library_layout | NA |
| library_location | AGRF |
| library_ng_ul | 250pM |
| library_oligo_sequence | NA |
| library_oligo_sequence_dual | NA |
| library_prep_date | 2023-11-04 |
| library_prepared_by | Trent Peters |
| library_selection | size fractionation |
| library_source | GENOMIC |
| library_strategy | WGS |
| library_type | PacBio-HiFi |
| location_info_restricted | Yes |
| location_text | Smithton |
| material_conc_ng_ul | 274.0 |
| material_extracted_by | Alison Dann | NRE TAS |
| material_extraction_date | 2023-04-30 |
| material_extraction_method | Commercial Magnetic bead kit |
| material_extraction_type | gDNA |
| metadata_revision_date | 2025-06-20 |
| metadata_revision_filename | 2025-04-08_Combined_Plant_Pathogen_sample_metadata_forQCIF_removelatlong.xlsx |
| model_base_caller | NA |
| movie_length | 24Hrs |
| n_libraries_pooled | 1.0 |
| order | Enterobacterales |
| phylum | Pseudomonadota |
| project_lead | Alison Dann | NRE TAS |
| sample_collection_type | Herbarium |
| sample_custodian | Alison Dann | NRE TAS |
| sample_id | 394941 |
| sample_type | Bacterial Isolate |
| scientific_name | Pectobacterium parmentieri |
| scientific_name_authorship | Khayi et al (2016) |
| sequencing_facility | AGRF |
| sequencing_kit_chemistry_version | Revio sequencing plate |
| sequencing_model | PacBio Revio |
| sequencing_platform | PACBIO_SMRT |
| species | parmentieri |
| specimen_custodian | NSW Plant Pathology & Mycology Herbarium |
| specimen_id | DAR 86201 |
| specimen_id_description | NSW Plant Pathology & Mycology Herbarium |
| state_or_region | Tasmania |
| taxon_id | 1905730 |
| taxonomic_group | Bacteria |
| ticket | BPAOPS-1529 |
| tissue | bacterial culture |
| tissue_preservation | freeze-dried |
| tissue_preservation_temperature | -80°C |